07/06/95 : Progress Report of the YEAST Genome Systematic Sequencing

Mordant Philippe pmordant at ben.vub.ac.be
Fri Jun 16 08:44:00 EST 1995


************************************************************************
*                                                                      *
*  PROGRESS REPORT FOR THE SYSTEMATIC SEQUENCING OF THE YEAST GENOME   *
*                                                                      *
************************************************************************

     **************************************************************
     *                                                            *
     *            GLOBAL STATUS ON JUNE 07, 95                    *
     *                                                            *
     **************************************************************


* - Chromosomes completed and public
C - Chromosomes completed (not entirely public)
1 - Country or Union funding genome sequencing effort 
2 - Principal investigator
3 - Sequenced length of chromosome or section in kb
4 - Estimation of the total length of chromosome or section in kb
5 - Sequenced length / Total length x 100 in %
6 - New sequences since last report (not necessarily public)
7 - Length of sequenced chromosome or section in kb which is 
    publically available (In EMBL/DDBJ/GenBank)
8 - Public length / Sequenced length x 100 in %
9 - Public length / Total length x 100 in %


------------------------------------------------------------------------
*              (1) (2)         (3)    (4)    (5)   (6)    (7)   (8)  (9)
                              (kb)   (kb)    (%)  (kb)   (kb)   (%)  (%)
------------------------------------------------------------------------
				
* CHR I       CAN  BUSSEY      226    226   100%     0    226  100% 100%
* CHR II      EU   FELDMANN    807    807   100%     0    807  100% 100%
* CHR III     EU   OLIVER      314    314   100%     0    314  100% 100%
  CHR IV R1   USA  JOHNSTON      0    150     0%     0      0    0%   0%
  CHR IV R2   USA  DAVIS         0    350     0%     0      0    0%   0%
  CHR IV L1   UK   BARRELL     393    540    73%    83    393  100%  73%
  CHR IV L2   EU   JACQ        452    600    75%   141    104   23%  17%
* CHR V       USA  DAVIS       569    569   100%     0    569  100% 100%
* CHR VI      JAP  MURAKAMI    270    270   100%     0    270  100% 100%
  CHR VII     EU   TETTELIN    830   1150    72%    89    137   17%  12%
* CHR VIII    USA  JOHNSTON    563    563   100%     0    563  100% 100%
* CHR IX      UK   BARRELL     440    440   100%     0    440  100% 100%
C CHR X       EU   GALIBERT    735    735   100%     9    129   18%  17%
* CHR XI      EU   DUJON       666    666   100%     0    666  100% 100%
  CHR XII R   USA  JOHNSTON    586    750    78%    44    586  100% 100%
  CHR XII L   EU   HOHEISEL     91    450    20%    14     37   41%   8%
  CHR XIII    UK   BARRELL     774    910    85%   375    774  100%  85%
  CHR XIV     EU   PHILIPPSEN  752    810    93%     1    157   21%  19%
  CHR XV      EU   DUJON       801   1150    70%   149    132   17%  12%
  CHR XVI R1  UK   BARRELL     129    300    43%    86    129  100%  43%
  CHR XVI R2  USA  JOHNSTON     81    150    50%    81     81  100%  54%
  CHR XVI L1  CAN  BUSSEY       10    300     3%     0     10  100%   3%
  CHR XVI L2  EU   GOFFEAU      76    270    28%    76      0    0%   0%
				
------------------------------------------------------------------------
  TOTAL YEAST GENOME          9566  12500    77%  1095   6526   68%  52%
------------------------------------------------------------------------


     K. Kleine                      P. Mordant and A. Goffeau
        MIPS          and         University of Louvain-La-Neuve
      Germany                              Belgium


     **************************************************************
     *                                                            *
     *                    DETAILED INFORMATION                    *
     *                                                            *
     **************************************************************


Coordinator :   Up today        Public      Confidential  Estimated length
                (kb)    %     (kb)     %     (kb)     %      (kb)     %

EU  (Goffeau)   5524  58%    2484    45%     3040   55%      6982   56%
UK  (Barrel)    1736  18%    1736   100%        0    0%      2190   17%
USA (Johnston)  1230  13%    1230   100%        0    0%      1613   13%
USA (Davis)      569   6%     569   100%        0    0%       919    7%
JAP (Murakami)   270   3%     270   100%        0    0%       270    2%
CAN (Bussey)     237   2%     237   100%        0    0%       523    4%
-----------------------------------------------------------------------
TOTAL           9566 100%    6526            3040           12500  100%


LISTA 4 : About 1 Mb of additional single genes sequences are available in
          EMBL + GENBANK see e.g. LISTA 4 (linder at urz.unibas.ch) for
          more informations. The files can be retrieved by FTP to the
          following addresses :

          bioftp.unibas.ch   (/archive_data/lista)
          ftp.switch.ch      (/mirror/embnet-ch/archive_data/lista)

MIPS : Requests for searches (DNA/protein) against the confidential dataset
       of YEAST sequences stored at MIPS can be sent to the following email
       address : becker at mips.embnet.org
       GCG-formated sequences and a short description of the intentions are
       preferable.

       These data are steadily released (see YEAST issues).


SGD : The database SacchDB distributed by the Saccharomyces Genome Database
      project of Stanford (SGD) is available at the Stanford WWW server.
      To access this information using one of the many WWW clients simply
      "Open URL" and enter the following information :
      http://genome-www.stanford.edu/

      Contacts for the Saccharomyces Genome Database Project (SGD) :
      e-mail : yeast-curator at genome.stanford.edu
      ftp :    genome-ftp.stanford.edu
      Gopher : genome-gopher.stanford.edu
      WWW :    http://genome-www.stanford.edu/
      Tel :    415-723-8956
      Fax :    415-723-7016


---------------------------------------------------------------------------


CHR I (Public sequences) :  BUSSEY  226 765 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)          soon   (/pub/databases/yeast/chrI)
ftp.mips.embnet.org (141.61.66.2)     soon      ([anonymous.yeast.chrI])
genome-ftp.stanford.edu (36.69.0.79)        (/pub/yeast/genome_seq/chrI)
ncbi.nlm.nih.gov (130.14.25.1)        soon      (/repository/yeast/chrI)



Nr   Cosmid   Accession   Size      Date
              Number      (bp)

1   SCU12980   L12980   103 411     19/01/95
2   YSCLTE1A   L20125     6 344     13/10/94 (reversed compared to contig!)
3   YSCLTESPO  L05146    29 410     13/10/94
4   YSCCHROMI  L22015    41 987     18/04/94
5   YSCCHR1RAA L28920    53 975     13/02/94
    overlaps             -8 362     20/04/95
                        ---------------------
                        226 765 bp  20/04/95


---------------------------------------------------------------------------


CHR II (Public sequences) :  FELDMANN  807 188 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)                  (/pub/databases/yeast/chrII)
ftp.mips.embnet.org (141.61.66.2)                ([anonymous.yeast.chrII])
genome-ftp.stanford.edu (36.69.0.79)         (/pub/yeast/genome_seq/chrII)
ncbi.nlm.nih.gov (130.14.25.1)                   (/repository/yeast/chrII)


---------------------------------------------------------------------------


CHR III (Public sequences) :  OLIVER  315 338 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)                 (/pub/databases/yeast/chrIII)
ftp.mips.embnet.org (141.61.66.2)               ([anonymous.yeast.chrIII])
genome-ftp.stanford.edu (36.69.0.79)        (/pub/yeast/genome_seq/chrIII)
ncbi.nlm.nih.gov (130.14.25.1)                  (/repository/yeast/chrIII)


---------------------------------------------------------------------------


CHR IV LEFT 1 (Public sequences) :  JACQ  104 210 bp


Nr   Group       Locus      Accession    Size        Date
                              Number     (bp)

1   Foury       SCCHROIV     X82086     32 821     14/10/94
2   Urrestarazu SCCHRIV42    Z48432     41 372     21/02/95
3   Blocker     SCCHIVDNA    X84162     30 017     03/03/95
                                       --------------------
                                       104 210 bp  07/06/95


---------------------------------------------------------------------------



CHR IV LEFT 2 (Public sequences) :  BARRELL  392 916 bp


Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

1     9395       SC9395       Z46727    39 335     20/11/92
2     8554       SC8554       Z46796    38 760     25/11/94
3     8557       SC8557       Z47746    36 217     17/01/95
4     9813       SC9813       Z47814    14 825     26/01/95
5     9489       SC9489       Z47813    13 631     26/01/95
6     8119       SC8119       Z48008    37 404     28/01/95
7     9302       SC9302X      Z48179    37 552     07/02/95
8     9346       SC9346       Z48784    19 236     25/03/95
9     9727       SC9727       Z48758    38 813     23/03/95
10    9934       SC9934       Z48612    34 586     08/03/95
11    9609       SC9609X      Z49209    41 099     05/05/95
12    8419       SC8419       Z49701    30 507     21/05/95
13    9335       SC9335       Z49770    10 951     29/05/95
                                       --------------------
                                       392 916 bp  07/06/95


---------------------------------------------------------------------------


CHR IV RIGHT 1 (Public sequences) :  DAVIS      0 bp



Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

-      -           -             -         -           -
                                       --------------------
                                             0 bp  07/06/95


---------------------------------------------------------------------------


CHR IV RIGHT 2 (Public sequences) :  JOHNSTON      0 bp



Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

-      -           -             -         -           -
                                       --------------------
                                             0 bp  07/06/95


---------------------------------------------------------------------------



CHR V (Public sequences) :  DAVIS  569 202 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)          soon   (/pub/databases/yeast/chrV)
ftp.mips.embnet.org (141.61.66.2)     soon      ([anonymous.yeast.chrV])
genome-ftp.stanford.edu (36.69.0.79)        (/pub/yeast/genome_seq/chrV)
ncbi.nlm.nih.gov (130.14.25.1)        soon      (/repository/yeast/chrV)


Assembly of chromosome V from cosmids submissions to Genbank :

Nr  Locus   Accession   Size     Date      from     to    overlap to
              Number    (bp)                             previous cosmid

1  SCE9669    U18795   50 849   21/12/94      1    50 849        0
2  SCE8199    U18779   36 872   19/12/94    301    36 872      300
3  SCE9871    U18530   62 643   19/12/94    305    62 643      304
4  SCE9537    U18778   66 030   19/12/94    329    66 030      328
5  SCE9379    U18796   43 100   21/12/94    181    43 100      180
6  SCE6592    U18813   40 565   21/12/94    202    40 565      201
7  SCE3612    U18814    8 443   21/12/94    161     8 443      160
8  SCE9747    U18839   64 797   21/12/94   1505    64 797    1 504
9  SCE9781    U18916   68 303   21/12/94    701    68 303      700
10 SCE8229    U18917   67 883   21/12/94    401    67 883      400
11 SCE9163    U18922   64 044   21/12/94    251    64 044      250
                                                  ----------------
                                                  573 529  - 4 327
                                                  ----------------
                                                      569 202 bp


---------------------------------------------------------------------------


CHR VI (Public sequences) :  MURAKAMI (and BARRELL) 270 148 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)          soon   (/pub/databases/yeast/chrVI)
ftp.mips.embnet.org (141.61.66.2)     soon      ([anonymous.yeast.chrVI])
genome-ftp.stanford.edu (36.69.0.79)  soon  (/pub/yeast/genome_seq/chrVI)
ncbi.nlm.nih.gov (130.14.25.1)        soon      (/repository/yeast/chrVI)


Nr   Group       Locus      Accession     Size        Date
                              Number      (bp)

1    Barrell     SC6584       Z46255     19 882     24/10/94
2    Murakami    YSCCHRVI     D50617    270 148     29/05/95
                            - overlap   -19 882     29/05/95
                                        --------------------
                                        270 148 bp  29/05/95


---------------------------------------------------------------------------



CHR VII (Public sequences) :  TETTELIN   137 018 bp


Nr   Group                 Locus      Accession     Size        Date
                                        Number      (bp)

1    Foury                 S58126       S58126     16 956     10/07/90
2    Foury               SCDNAORFS      X83099     18 258     16/12/94
3    Bruschi             SCDNACVII      X84705     11 100     17/02/95
4    Oliver              SCCHVII35      Z48618     35 364     07/03/95
5    Nombela             SCG75GEN       X82408      9 037     28/03/95
6    Nombela/Rodrigues    SCG7914       X82775      9 000     25/04/95
7    Rodrigues           SCPEGK620      Z49133     18 230     27/04/95
8    Hilger              SCC7LORFS      Z49149     11 132     01/05/95
9    Bruschi             SCDNAGMH       X83690      7 941     03/05/95
                                                  --------------------
                                                  137 018 bp  07/06/95


---------------------------------------------------------------------------


CHR VIII (Public sequences) :  JOHNSTON  562 638 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)                (/pub/databases/yeast/chrVIII)
ftp.mips.embnet.org (141.61.66.2)              ([anonymous.yeast.chrVIII])
genome-ftp.stanford.edu (36.69.0.79)       (/pub/yeast/genome_seq/chrVIII)
ncbi.nlm.nih.gov (130.14.25.1)                 (/repository/yeast/chrVIII)

Nr   Cosmid   Accession   Size      Date
              Number      (bp)

1   YSCH9196   U11583     55 070     05/07/94
2   YSCH9433   U11582     29 276     05/07/94
3   YSCHL5018  U11581     16 274     10/07/94
4   YSCH9780   U10555     24 431     21/06/94
5   YSCHL2825  U10400     18 715     21/06/94
6   YSCH8082   U10399     28 124     21/06/94
7   YSCH8179   U00062     44 113     19/05/94
8   YSCH8025   U00061     27 816     18/05/94
9   YSCH9205   U10556     39 203     21/06/94
10  YSCH9332   U00060     36 176     18/05/94
11  YSCH8263   U00059     39 954     11/05/94
12  YSCH9315   U10398     30 350     21/06/94
13  YSCH9666   U10397     39 057     21/06/94
14  YSCH9986   U00027     41 663     26/02/94
15  YSCH9186   U00028     10 801     26/02/94
16  YSCH9998   U00030     35 600     26/02/94
17  YSCH9177   U00029     52 664     26/02/94
    overlaps              -6 652     01/09/94
                         --------------------
                         562 638 bp  31/09/94


---------------------------------------------------------------------------



CHR IX (Public sequences) :  BARRELL  439 885 bp

The complete sequence of chr IX has been submitted in one piece :

Nr   Cosmid   Accession   Size      Date
              Number      (bp)

1    chr IX    Z47047    439 885     22/12/94
                         --------------------
                         439 885 bp  22/12/94

The list of the 14 separate cosmids :

Nr   Cosmid   Accession   Size      Date
              Number      (bp)

1     9877     Z37996     17 731     06/10/94
2     9167     Z37997     17 421     06/10/94
3    L4357     Z38062     75 317     12/10/94
4    L5610     Z38060     37 730     12/10/94
5     9168     Z38113     42 793     12/10/94
6     9687     Z38059     21 431     12/10/94
7     4554     Z38061     19 817     15/10/94
8     9150     Z38125     43 504     18/10/94
9     9910     Z46728     25 761     20/11/94
10    8277     Z46833     26 142     30/11/94
11    9905     Z46861     33 954     02/12/94
12    3299     Z46881     30 977     05/12/94
13    8224     Z46902      8 956     07/12/94
14    9402     Z46921     38 990     09/12/94
        overlaps            -639     22/12/94
                         --------------------
                         439 885 bp  22/12/94


---------------------------------------------------------------------------


CHR X (Public sequences) :  GALIBERT  128 853 bp


Nr   Group       Locus      Accession     Size        Date
                              Number      (bp)

1   Zimmermann  SJ100567      X77087     9 464     02/08/94
2   Galibert    YSCSEQA       L26347     8 236     07/08/94
3   Hilger      SCXLTEL       Z34098    40 257     03/06/94
4   Hilger      SCXCDNA       Z34288    17 137     09/06/94
5   Foury       SCPRP21       X77688    36 016     22/09/94
6   Zimmermann  SCXBCK1       X77923     9 743     24/01/95
7   Hilger      SCCHRXLTE     Z48148     8 000     03/02/95
                                       --------------------
                                       128 853 bp  07/06/95


---------------------------------------------------------------------------



CHR XI (Public sequences) :  DUJON  666 448 bp


The complete sequence can be retrieved by FTP to the following addresses :

ftp.ebi.ac.uk (193.62.196.6)                  (/pub/databases/yeast/chrXI)
ftp.mips.embnet.org (141.61.66.2)                ([anonymous.yeast.chrXI])
genome-ftp.stanford.edu (36.69.0.79)         (/pub/yeast/genome_seq/chrXI)
ncbi.nlm.nih.gov (130.14.25.1)                   (/repository/yeast/chrXI)


---------------------------------------------------------------------------


CHR XII RIGHT (Public sequences) :  JOHNSTON  586 104 bp


Nr   Cosmid      Locus      Accession     Size        Date
                              Number      (bp)

1     8167     YSCH8167       U14913     38 868     23/09/94
2     8479     YSCL8479       U17244     32 494     23/11/94
3     9328     YSCL9328       U17245     14 827     23/11/94
4     9470     YSCL9470       U17246     40 738     23/11/94
5    L2142     YSCLL2142      U17247     19 198     23/11/94
6     8003     YSCL8003       U17243     40 214     07/12/94
7     8083     YSCL8083       U19027     41 454     15/01/95
8     8300     YSCL8300       U19028     37 541     15/01/95
9     9638     YSCL9638       U19102     15 175     15/01/95
10    8039     YSCL8039       U19103     31 806     15/01/95
11   L3502     YSCLL3502      U19104     22 761     15/01/95
12    8084     YSCL8084       U19729     40 197     30/01/95
13    9931     YSCL9931       U20162     28 149     30/01/95
14    8543     YSCL8543       U20618     37 729     10/02/95
15    9672     YSCL9672       U20865     40 455     11/02/95
16    9576     YSCL9576       U20939     35 805     14/02/95
17    9753     YSCL9753       U21094     24 761     16/02/95
18    9324      SCL9324       U22382     21 732     01/04/95
19    9122      SCL9122       U22383     22 200     01/04/95
                                        --------------------
                                        586 104 bp  07/06/95


---------------------------------------------------------------------------


CHR XII LEFT (Public sequences) :  HOHEISEL    37 396 bp



Nr   Group       Locus      Accession    Size        Date
                              Number     (bp)

1   Wambutt    SCCH13LST      Z47973    37 396     26/01/95
                                       --------------------
                                        37 396 bp  07/06/95

---------------------------------------------------------------------------



CHR XIII (Public sequences) :  BARRELL  773 986 bp


Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

1     9514      SC9514        X80836    13 841     09/08/94
2     8175      SC8175        X80835    15 581     09/08/94
3     9745      SC9745        Z38114    19 975     15/10/94
4     8248      SC8248        Z46373    25 135     27/10/94
5     8337      SC8337        Z46659    34 506     15/11/94
6     9725      SC9725        Z46660    32 148     15/11/94
7     9958      SC9958        Z46729    20 951     20/11/94
8     9375      SC9375        Z47071    28 992     29/12/94
9     9827      SC9827        Z47816    20 668     26/01/95
10    9646      SC9646        Z47815    27 466     26/01/95
11    8054      SC8054        Z48430     9 421     21/02/95
12    9532      SC9532X       Z48502    24 105     28/02/95
13    8270      SC8270        Z48613    32 481     07/03/95
14    9553      SC9553        Z48622    16 279     08/03/95
15    9920      SC9920        Z48639    23 498     12/03/95
16    9408      SC9408        Z48756    15 848     22/03/95
17    8325      SC8325        Z48755    16 267     22/03/95
18    9916      SC9916        Z48952    22 121     04/04/95
19    8339      SC8339        Z49210    27 559     05/05/95
20    9711      SC9711X       Z49211    30 011     05/05/95
21    9952      SC9952X       Z49212    29 286     05/05/95
22    9973      SC9973        Z49213    15 261     05/05/95
23    7056      SC7056        Z49218    12 461     07/05/95
24    9582      SC9582X       Z49259    38 661     15/05/95
25    8156      SC8156        Z49260    29 987     16/05/95
26    8564      SC8564        Z49273    12 974     19/05/95
27    8520      SC8520        Z49700    41 200     20/05/95
28    9718      SC9718        Z49702    35 811     21/05/95
29    9796      SC9796        Z49703    29 421     21/05/95
30    8021      SC8021X       Z49704    30 871     22/05/95
31    8520      SC8520X       Z49705    41 200     22/05/95
                                       --------------------
                                       773 986 bp  07/06/95


---------------------------------------------------------------------------


CHR XIV (Public sequences) :  PHILIPPSEN   156 825 bp


Nr   Group       Locus      Accession    Size        Date
                              Number     (bp)

1   Volckaert   SCN200XG      X77395    23 901     01/06/94
2   Volckaert   SCXIV         X77114     8 887     02/08/94
3   Foury       SCN201952     X78898    35 161     24/11/94
4   Foury       SCDNAO        X83226     8 223     15/12/94
5   Gaillardin  SCRPD3COS     Z46259    40 050     18/01/95
6   Philippsen  SC23CDS       X86470    31 431     26/04/95
7   Gaillardin  SCS288C14     X86790     9 172     09/05/95
                                       --------------------
                                       156 825 bp  07/06/95


---------------------------------------------------------------------------



CHR XV (Public sequences) :  DUJON  132 248 bp


Nr   Group       Locus      Accession    Size        Date
                              Number     (bp)

1   Schweizer   SCDNAIRA2     X75449    10 270     01/11/94
2   Schweizer   SCCHXVORF     X83121    39 307     07/12/94
    overlap with 1                     -10 270     07/12/94
3   Hilger      SCCHRXV44     Z48149    44 019     03/02/95
4   Louis       SCU23472      M58718    10 710     19/04/95
5   Grivell     SCXV38KB      X87331    38 212     23/05/95
                                       --------------------
                                       132 248 bp  07/06/95


---------------------------------------------------------------------------


CHR XVI LEFT 1 (Public sequences) :  GOFFEAU      0 bp



Nr   Group       Locus      Accession    Size        Date
                              Number     (bp)

-      -           -             -         -           -
                                       --------------------
                                             0 bp  07/06/95


---------------------------------------------------------------------------


CHR XVI LEFT 2 (Public sequences) :  BUSSEY  10 450 bp


Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

1    Bussey     YSCKRE6A      L33835    10 450     21/06/94
                                       --------------------
                                        10 450 bp  07/06/95


---------------------------------------------------------------------------


CHR XVI RIGHT 1 (Public sequences) :  JOHNSTON  81 137 bp


Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

1    9325      YSCL9325       U25840    17 147     29/04/95
2    9705      YSCL9705       U25842    26 493     29/04/95
3    9677      YSCL9677       U25841    37 497     29/04/95
                                       --------------------
                                        81 137 bp  07/06/95


---------------------------------------------------------------------------


CHR XVI RIGHT 2 (Public sequences) :  BARRELL  129 166 bp



Nr   Cosmid      Locus      Accession    Size        Date
                              Number     (bp)

1     8132      SC8132X       Z48483    25 540 bp  24/02/95
2     9723      SC9723        Z48951    17 660 bp  04/04/95
3     9499      SC9499X       Z49219    43 776 bp  07/05/95
4     9367      SC9367        Z49274    42 190 bp  19/05/95
                                       --------------------
                                       129 166 bp  07/06/95

---------------------------------------------------------------------------



More information about the Yeast mailing list