31/03/95 : PROGRESS REPORT OF THE YEAST GENOME SYSTEMATIC SEQUENCING
Francis Ouellette
francis at BORDUAS.NLM.NIH.GOV
Wed Apr 26 14:45:21 EST 1995
just passing it along ...
Thank you to Philippe Mordant, Andre Goffeau and Karl Kleine For
putting this together, and to all the YEAST genome sequencing labs for
making their sequences available for all of us to use.
regards,
francis
--
| B.F. Francis Ouellette
|
| francis at ncbi.nlm.nih.gov
----- Begin Included Message -----
> From: mordant at fysa.ucl.ac.be (Philippe Mordant)
> Subject: 31/03/95 : PROGRESS REPORT OF THE YEAST GENOME SYSTEMATIC SEQUENCING
************************************************************************
* *
* PROGRESS REPORT FOR THE SYSTEMATIC SEQUENCING OF THE YEAST GENOME *
* *
************************************************************************
**************************************************************
* *
* GLOBAL STATUS ON MARCH 31, 95 *
* *
**************************************************************
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 / Total length x 100 in %
------------------------------------------------------------------------
(1) (2) (3) (4) (5) (6) (7) (8)
(kb) (kb) (%) (kb) (kb) (%)
------------------------------------------------------------------------
CHR I CAN BUSSEY 223 223 100% 0 233 100%
CHR II EU FELDMANN 807 807 100% 0 807 100%
CHR III EU OLIVER 314 314 100% 0 314 100%
CHR IV RIGHT 1 USA JOHNSTON 0 150 0% 0 0 0%
CHR IV RIGHT 2 USA DAVIS 0 350 0% 0 0 0%
CHR IV LEFT 1 UK BARRELL 276 540 51% 58 276 100%
CHR IV LEFT 2 EU JACQ 282 600 47% 14 74 28%
CHR V USA DAVIS 569 569 100% 0 569 100%
CHR VI JAP MURAKAMI 270* 270 100% 0 20 7%
CHR VII EU TETTELIN 736 1150 64% 36 82 11%
CHR VIII USA JOHNSTON 563 563 100% 0 563 100%
CHR IX UK BARRELL 440 440 100% 0 440 100%
CHR X EU GALIBERT 726 735 99% 0 129 18%
CHR XI EU DUJON 666 666 100% 0 666 100%
CHR XII RIGHT USA JOHNSTON 542 750 72% 0 542 100%
CHR XII LEFT EU HOHEISEL 74 450 16% 0 37 50%
CHR XIII UK BARRELL 377 910 41% 104 377 100%
CHR XIV EU PHILIPPSEN 713 810 88% 34 116 16%
CHR XV EU DUJON 513 1150 45% 90 83 16%
CHR XVI RIGHT 1 UK BARRELL 26 300 9% 0 26 100%
CHR XVI RIGHT 2 USA JOHNSTON 0 150 0% 0 0 0%
CHR XVI LEFT 1 CAN BUSSEY 10 300 3% 0 10 100%
CHR XVI LEFT 2 EU GOFFEAU 0 300 0% 0 0 0%
------------------------------------------------------------------------
TOTAL YEAST GENOME 8126 12500 65,0% 335 5355 66%
------------------------------------------------------------------------
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) 4830 59% 2309 48% 2521 52% 6982 56%
UK (Barrel) 1118 14% 1118 100% 0 0% 2190 17%
USA (Johnston) 1105 14% 1105 100% 0 0% 1613 13%
USA (Davis) 569 7% 569 100% 0 0% 919 7%
JAP (Murakami) 270 3% 20 7% 250 93% 270 2%
CAN (Bussey) 234 3% 234 100% 0 0% 523 4%
-----------------------------------------------------------------------
TOTAL 8126 100% 5355 2771 12500 100%
LISTA 3 : About 2 Mb of additional single genes sequences are available in
EMBL + GENBANK see e.g. LISTA 3 (linder at urz.unibas.ch) for
more informations.
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 223 123 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 -8 227
---------------------
226 900 bp 01/03/95
---------------------------------------------------------------------------
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 RIGHT 1 (Public sequences) : JOHNSTON 0 bp
Nr Cosmid Locus Accession Size Date
Number (bp)
- - - - - -
--------------------
0 bp 31/03/95
---------------------------------------------------------------------------
CHR IV RIGHT 2 (Public sequences) : DAVIS 0 bp
Nr Cosmid Locus Accession Size Date
Number (bp)
- - - - - -
--------------------
0 bp 31/03/95
---------------------------------------------------------------------------
CHR IV LEFT 1 (Public sequences) : BARRELL 275 773 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
--------------------
275 773 bp 31/03/95
---------------------------------------------------------------------------
CHR IV LEFT 2 (Public sequences) : JACQ 74 193 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
--------------------
74 193 bp 31/03/95
---------------------------------------------------------------------------
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) 19 882 bp
Nr Group Locus Accession Size Date
Number (bp)
1 Barrell SC6584 Z46255 19 882 24/10/94
--------------------
19 882 bp 31/03/95
NB : 270 000 bp by MURAKAMI are terminated, still confidential and
will be public in May 95.
---------------------------------------------------------------------------
CHR VII (Public sequences) : TETTELIN 81 678 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
--------------------
81 678 bp 31/03/95
---------------------------------------------------------------------------
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 31/03/95
---------------------------------------------------------------------------
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 542 172 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
--------------------
542 172 bp 31/03/95
---------------------------------------------------------------------------
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 31/03/95
---------------------------------------------------------------------------
CHR XIII (Public sequences) : BARRELL 377 162 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
--------------------
377 162 bp 31/03/95
---------------------------------------------------------------------------
CHR XIV (Public sequences) : PHILIPPSEN 116 222 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
--------------------
116 222 bp 31/03/95
---------------------------------------------------------------------------
CHR XV (Public sequences) : DUJON 83 326 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
--------------------
83 326 bp 31/03/95
---------------------------------------------------------------------------
CHR XVI RIGHT 1 (Public sequences) : BARRELL 25 540 bp
Nr Cosmid Locus Accession Size Date
Number (bp)
1 8132 SC8132X Z48483 25 540 bp 24/02/95
--------------------
25 540 bp 31/03/95
---------------------------------------------------------------------------
CHR XVI RIGHT 2 (Public sequences) : JOHNSTON 0 bp
Nr Cosmid Locus Accession Size Date
Number (bp)
- - - - - -
--------------------
0 bp 31/03/95
---------------------------------------------------------------------------
CHR XVI LEFT 1 (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 31/03/95
---------------------------------------------------------------------------
CHR XVI LEFT 2 (Public sequences) : GOFFEAU 0 bp
Nr Group Locus Accession Size Date
Number (bp)
- - - - - -
--------------------
0 bp 31/03/95
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