Worm Breeder's Gazette 15(1): 24 (October 1, 1997)
These abstracts should not be cited in bibliographies. Material contained herein should be treated as personal communication and should be cited as such only with the consent of the author.
The Genome Sequencing Center, Washington University, St. Louis, MO, USA and The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
There are now over 70 megabases of finished C. elegans sequence and 3.2 megabases of C. briggsae sequence (see J. Schein this issue). The breakdown for C. elegans by chromosome is as follows: I. 8.8 MB II.11.9 MB III. 8.8 MB IV. 10.4 MB V. 14.5 MB X. 15.9 MB The small gaps in the cosmid- and gene-rich central regions of the autosomes are being resolved by screening fosmids or long range PCR. Numerous YACs are in various stages of production and finishing as the primary method of resolving the larger gaps in the autosomal arms. There are now nearly 12,000 predicted proteins in the finished sequence with 43% having significant similarity to proteins from other organisms. In the recent data release of AECDB (WS 4-20) some of the more numerous kinds of proteins are; protein kinases (255), collagens and phosphatases (119), peptidases/proteases (113), channel proteins (93), homeobox proteins (71), G-protein coupled receptors (73), ribosomal proteins (68), transposable elements (59), EGF-like proteins (43) and zinc finger proteins (34). We are annotating new sequence as quickly as possible and hope to be caught up with the finished sequence soon. Updating the annotation of older sequence is a continuous process as new information is made available to us or errors are brought to our attention. We are committed to making the sequence as useful as possible, and since accurate annotation is a large part of that we eagerly solicit and always appreciate any contributions. Assigning proper locus designations to the appropriate sequence is sometimes problematic, therefore the worm community's input can be particularly helpful. The following table shows each locus and the corresponding gene where known. Any additions or corrections, or information concerning annotation in general, should be directed to Steve Jones (sjj@sanger.ac.uk) or John Spieth (jspieth@watson.wustl.edu). All sequences are made available after completing the initial "shotgun" phase by anonymous FTP and the World Wide Web. The latter offers on-line search capabilities. For information regarding the C. elegans database ACEDB contact either Richard Durbin (rd@sanger.ac.uk) or Jean Thierry-Meig (meig@kaa.cnrs-mop.fr). Requests for cosmids should be sent to Alan Coulson (alan@sanger.ac.uk). FTP and WWW sites: Sanger Center: ftp:ftp.sanger.ac.uk directory: /pub/databases/C.elegans_sequences WWW: http://www.sanger.ace.uk Genome Sequencing Center: ftp:genome.wustl.edu directory: /pub/gscl/gschmpg.html WWW: http://genome.wustl.edu/gsc/gschmpg.html ACEDB data releases can be retrieved from: USA: ncbi.nlm.nih.gov (130.14.20.10) in repository/acedb UK: ftp.sanger.ac.uk (193.60.84.11) in pub/acedb France: lirmm.lirmm.fr (193.49.204.20) in genome/acedb abl-1 M79.1 ace-1 F01G12.4 ace-1 W09B12.1 acr-2 K11G12.2 acr-3 K11G12.7 act-4 M03F4.2 ama-1 F36A4.7 aph-2 ZC434 arg-1 F31A9.3 bli-4 K04F10.4d bli-4 K04F10.4a bli-4B K04F10.4b bli-4C K04F10.4e bli-4D K04F10.4c cap-1 D2024.6 cct-6 F01F1.8 ced-4 C35D10.9 ced-11 ZK512.3 ceh-1 F16H11.4 ceh-6 K02B12.1 ceh-7 C34C6.8 ceh-8 ZK265.4 ceh-10 W03A3.1 ceh-13 R13A5.5 ceh-14 F46C8.5 ceh-16 C13G5.1 ceh-18 ZC64.3 ceh-20 F31E3.1 ceh-21 T26C11.6 ceh-22 F29F11.5 ceh-23 ZK652.5 ceh-26 K12H4.1 ceh-30 C33D12.7 ceh-31 C33D12.1 ceh-32 W05E10.3 ceh-33 C10G8.7 ceh-34 C10G8.6 ceh-35 F56A12 ceh-36 C37E2.4 ceh-37 C37E2.5 cej-1 C07G2.1 clk-1 ZC395.2 cnr-14 F44A6.2 col-2 W01B6.7 col-6 ZK1290.3 col-8 F11H8.3 col-36 C27H5.5 cpr-4 F44C4.3 cpr-6 C25B8.3 cul-1 D2045.6 cut-1 C47G2.1 cwn-2 W01B6.1 daf-4 C05D2.1 daf-7 B0412.2 deg-1 C47C12.1 dif-1 F49E8.5 dom-3 F54C1.2 dpy-2 T14B4.6 dpy-7 F46C8.6 dpy-1 T14B4.7 dpy-19 F22B7.10 dpy-20 T22B3.1 dpy-26 C25G4.5 dpy-30 ZK863.6 eat-6 B0365.3 eft-1 ZK328.2 eft-3 F31E3.5 egl-5 C08C3.1 egl-10 F28C1.2 egl-15 F58A3.2 egl-43 R53.3a egl-43 R53.3b egl-45 C27D11.1 emb-5 T04A8.14 emb-9 K04H4.1 fem-1 F35D6.1 fem-2 T19C3.8 fem-3 C01F6.4 gap-1 T24C12.2 gba-3 E02C12.5 gld-1 T23G11.3 glh-1 C55B7.1 glh-1 T21G5.3 glp-1 F02A9.6 gpa-2 F38E1.5 gpa-3 E02C12.5 gpd-2 K10B3.8 gpd-3 K10B3.7 gst-1 R107.7 ham-2 C07A12.1 her-1 ZK287.8 him-14 ZK1127.11 his-9 F17E9.10 his-10 C50F4.7 his-10 K03A1.6 his-11 F17E9.9 his-12 C50F4.13 his-12 F35H10.1 hlh-1 B0304.1 hsp-1 F26D10.3 hsp-2 K09C4.3 hsp-3 C15H9.6 hsp-16A T27E4.2 hsp-16A T27E4.8 hum-4 F46C3.3 inf-1 F57B9.6 kin-2 R07E4.6 kin-11 E01H11.1 kin-13 F10C2.1 kin-13 F57F5.5 kup-1 F10C2.2 lag-1 M03D4.2 let-2 F01G12.5a let-2 F01G12.5b let-23 ZK1067.1 let-70 M7.1 let-653 C29E6.1 let-721 C05D11.12 let-756 C05D11.4 lim-4 ZC64.4 lim-6 K03E6.1 lin-2 F17E5.1a lin-2 F17E5.1b lin-3 F36H1.4 lin-4 F59G1.6 lin-9 ZK637.7 lin-10 T01G9.2 lin-11 ZC247.3 lin-12 R107.8 lin-14 T25C12.1a lin-14 T25C12.1b lin-15 ZK662.4 lin-15 ZK678.1 lin-19 D2045.6 lin-25 F56H9.5 lin-26 F18A1.2 lin-32 T14F9.5 lin-36 F44B9.6 lin-39 C07H6.7 lir-1 F18A1.3 lon-1 F43C9.3 mab-5 C08C3.3 mai-1 K10B3.9 mec-2 F14D12.4 mec-4 T01C8.7 mec-7 ZK154.3 mec-8 C17E4.11 mec-9 C50H2.3 mec-10 F16F9.5 mei-1 T01G9.5 mel-32 C05D11.11 mes-3 F54C1.3 mig-10 F10E9.6 msp-19 F36H12.7 msp-31 R05F9.13 msp-32 R05F9.3 msp-33 R05F9.8 msp-37 K08F4.10 msp-38 K08F4.8 msp-40 C33F10.9 msp-51 ZK354.5 msp-52 F36H12.6 msp-53 R13H9.4 msp-57 R13H9.2 msp-58 ZK354.10 msp-59 ZK354.11 msp-65 ZK354.1 msp-113 ZK354.4 msp-142 K05F1.2 mua-1 F54H5.4 myo-1 T18D3.4 ncc-1 T05G5.3 ncs-2 F10G8.5 nhr-2 C32F10.6 nhr-6 C48D5.1 nhr-9 ZK418.1 nhr-10 B0280.8 nhr-17 C02B4.2 nhr-19 E02H1.7 nhr-20 F43C1.4 nhr-22 K06A1.4 odc-1 K11C4.4 osm-3 M02B7.3 ost-1 C44B12.7 pal-1 C38D4.6 pat-3 ZK1058.2 pat-3 ZK1058.7 pes-1 T28H11.4 pgp-3 ZK455.7 rol-6 T01B7.7 rop-1 C12D8.11 sdc-1 F52E10.1 sem-5 C14F5.5 skn-1 T19E7.2 snt-1 F31E8.2 spe-4 ZK524.1 spe-11 F48C1.7 spe-27 C06E7.6 sqt-1 B0491.2 sra-1 AH6.4 sra-2 AH6.6 sra-3 AH6.7 sra-4 AH6.8 sra-5 AH6.9 sra-6 AH6.10 sra-7 AH6.11 sra-8 AH6.12 sra-9 AH6.14 sra-10 F44F4.5 sra-11 F44F4.13 sra-12 F44F4.7 srb-1 C27D6.10 srb-2 C27D6.9 srb-3 C27D6.8 srb-4 C27D6.7 srb-5 C27D6.6 srb-6 R05H5.6 srb-7 F37C12.17 srb-8 F37C12.15 srb-9 F37C12.16 srb-10 F23F12.11 srb-11 F23F12.10 srd-1 F33H1.5 srd-2 R05H5.1 sre-1 B0495.1 sre-2 C41C4.2 srg-1 C18F10.4 srg-3 C18F10.6 srg-4 T12A2.12 srg-5 T12A2.11 srg-6 T12A2.13 srg-7 C18F10.8 srg-8 T12A2.9 srg-9 T12A2.10 srg-10 T04A8.1 srg-11 T04A8.2 srg-12 R13F6.3 srg-13 T23F11.5 sro-1 D1022.6 sup-7 C03B1.t1 tba-2 F26E4.8 tbg-1 F58A4.8 toc-1 ZC395.3 ubq-1 F25B5.4 unc-1 K03E6.5 unc-2 T02C5.5 unc-4 F26C11.2 unc-6 F41C6.1 unc-7 R07D5.1 unc-13 ZK524.2 unc-18 F27D9.1 unc-22 ZK617.1a unc-30 B0564.10 unc-31 ZK897.1 unc-36 C50C3.11 unc-43 K11E8.1 unc-44 B0350.2a unc-44 B0350.2b unc-44 B0350.2c unc-44 B0350.2d unc-68 K11C4.5 unc-76 C01G10.11 unc-86 C30A5.7a unc-86 C30A5.7b unc-93 C46F11.1 unc-103 C30D11.1 unc-104 C52E12.2 unc-116 R05D3.7 vab-1 M03A1.1 vab-7 M142.4 vit-1 K09F5.2 vit-2 C42D8.2 vit-3 T27A10.4 vit-4 F56B6.a vit-5 C04F6.1 xol-1 C18A11.5 zyg-11 C08B11.1