UCSC C. elegans Gene Sorter

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UCSC C. elegans Gene Sorter

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#	Name	WormBase	BLASTP E-Value	Genome Position	Description
1	com-1	C44B9.5	0	chrIII 10,898,988	com-1 encodes an ortholog of budding yeast Sae2p, Arabidopsis AtCOM1, and human RBBP8 (CTIP; OMIM:604124) and C20orf151; like its yeast ortholog, COM-1 is probably required for completing meiotic recombination; meiotic chromosomes in com-1 mutants pair normally, but form irregular chromatin aggregates instead of diakinesis bivalents; while meiotic DNA double-strand breaks (DSBs) are formed, they appear to persist or undergo improper repair, with numerous chromosomal fragments being revealed by REC-8 depletion; conversely, suppression of DSBs by a spo-11 mutation also suppresses the diakinetic com-1 phenotype, and suppression by mre-11 increases com-1 mutant fertility; despite the presence of DSBs, the recombination protein RAD-51, which is known to associate with single-stranded (ss) DNA flanking DSBs, does not localize to meiotic chromosomes in com-1 mutants; exposure of com-1 mutants to gamma-radiation, however, induces RAD-51 foci, which suggests that the failure of RAD-51 to load is specific to meiotic (SPO-11-generated) DSBs; these data suggest that COM-1 helps generate ssDNA tails upon which RAD-51 can bind, after which RAD-51 migrates to homologous DNA tracts and triggers meiotic recombination; com-1 mutants grow and live normally (possibly because of maternally contributed COM-1) but are sterile; the C-terminal-most ~100 residues of COM-1 are strongly conserved, while COM-1's N-terminal ~400 residues have low sequence complexity.
2	T26E4.5	T26E4.5	n/a	chrV 15,787,827	contains similarity to Interpro domain IPR008996 ()
3	C31H5.6	C31H5.6	n/a	chrI 9,045,096	contains similarity to Pfam domains PF08840 (BAAT / Acyl-CoA thioester hydrolase C terminal) , PF04775 (Acyl-CoA thioester hydrolase / Bile acid-CoA amino acid N-acetyltransferase) contains similarity to Interpro domains IPR006862 (Acyl-CoA thioester hydrolase/bile acid-CoA amino acid N-acetyltransferase), IPR014940 (BAAT/Acyl-CoA thioester hydrolase C-terminal), IPR016662 (Acyl-CoA thioesterase, long chain)
4	T23B3.2	T23B3.2	n/a	chrI 6,716,467	contains similarity to Pfam domain PF01679 Uncharacterized protein family UPF0057 contains similarity to Interpro domain IPR000612 (Protein of unknown function UPF0057)
5	F35E8.10	F35E8.10	n/a	chrV 15,919,877	contains similarity to Pfam domain PF01549 ShK domain-like contains similarity to Interpro domain IPR003582 (Metridin-like ShK toxin)
6	ced-8	F08F1.5	n/a	chrX 8,415,405	The ced-8 gene encodes a homolog of the human putative membrane transporter XK; ced-8 is required for apoptosis to occur with normal speed during embryonic development.
7	sdz-2	C08A9.7	n/a	chrX 17,099,848	C. elegans SDZ-2 protein; contains similarity to Pfam domain PF03353 DUF278 contains similarity to Interpro domain IPR005020 (Protein of unknown function DUF278)
8	ZC196.6	ZC196.6	n/a	chrV 8,727,690	contains similarity to Mycoplasma genitalium Protein P200.; SW:Q49429
9	srbc-32	C02A12.5	n/a	chrV 3,486,251	C. elegans SRBC-32 protein; contains similarity to Pfam domain PF01748 Caenorhabditis serpentine receptor-like protein contains similarity to Interpro domain IPR002651 (Protein of unknown function DUF32)
10	F46F5.14	F46F5.14	n/a	chrII 800,774	contains similarity to Pfam domain PF03314 Protein of unknown function, DUF273 contains similarity to Interpro domain IPR004988 (Protein of unknown function DUF273)
11	tag-52	C02F12.4	n/a	chrX 3,676,290	C. elegans TAG-52 protein; contains similarity to Pfam domain PF00621 RhoGEF domain contains similarity to Interpro domains IPR000219 (Dbl homology (DH) domain), IPR001849 (Pleckstrin-like), IPR011993 (Pleckstrin homology-type)
12	col-97	ZK1010.7	n/a	chrIII 12,993,066	col-97 encodes a cuticular collagen; loss of col-97 activity via large-scale RNAi screens results in defects in body morphology and locomotion.
13	R08H2.8	R08H2.8	n/a	chrV 15,371,455	contains similarity to Mycoplasma penetrans Conserved hypothetical protein.; TR:Q8EV71
14	C47C12.2	C47C12.2	n/a	chrX 7,754,107
15	pgp-8	T21E8.3	n/a	chrX 10,861,813	pgp-8 encodes an ATP-binding protein that is a member of the P-glycoprotein subclass of the ATP-binding cassette (ABC) transporter superfamily; PGP-8 is predicted to function as a transmembrane protein that couples energy to transport of various molecules across membranes, but as loss of pgp-8 activity via RNAi results in no obvious defects, the precise role of PGP-8 in C. elegans development and/or behavior is not yet known; pgp-8 promoter-gfp fusion proteins are expressed in adult head neurons.
16	C29F9.4	C29F9.4	n/a	chrIII 122,565
17	clec-127	W10G11.5	n/a	chrII 3,568,702	C. elegans CLEC-127 protein; contains similarity to Pfam domain PF00059 Lectin C-type domain contains similarity to Interpro domains IPR016187 (C-type lectin fold), IPR016186 (C-type lectin-like), IPR001304 (C-type lectin)
18	B0563.8	B0563.8	n/a	chrX 9,174,023
19	gcy-17	W03F11.2	n/a	chrI 2,228,250	gcy-17 encodes a predicted guanylate cyclase.
20	F53B7.4	F53B7.4	n/a	chrV 11,001,724	contains similarity to Interpro domains IPR004090 (Chemotaxis methyl-accepting receptor), IPR002172 (Low density lipoprotein-receptor, class A, cysteine-rich)
21	srx-112	T24E12.8	n/a	chrII 3,764,010	C. elegans SRX-112 protein ;
22	hlh-26	C17C3.8	n/a	chrII 5,533,262	C. elegans HLH-26 protein; contains similarity to Pfam domain PF00010 Helix-loop-helix DNA-binding domain contains similarity to Interpro domains IPR001092 (Basic helix-loop-helix dimerisation region bHLH), IPR011598 (Helix-loop-helix DNA-binding)
23	T27A1.2	T27A1.2	n/a	chrII 532,038	contains similarity to Pfam domain PF07735 F-box associated contains similarity to Interpro domain IPR012885 (F-box associated type 2)
24	math-50	ZK250.8	n/a	chrII 1,957,153	math-50 encodes a protein which has a meprin-associated Traf homology (MATH) domain and may be involved in apoptosis.
25	Y116A8C.20	Y116A8C.20	n/a	chrIV 17,041,175	Y116A8C.20 encodes a CCCH tandem zinc finger (TZF) protein; based upon its sequence similarity to C. elegans POS-1, the product of Y116A8C.20 is predicted to function as an RNA-binding protein.
26	F52C6.14	F52C6.14	n/a	chrII 1,932,827	contains similarity to Interpro domain IPR013032 (EGF-like region, conserved site)
27	F35D2.3	F35D2.3	n/a	chrII 7,571,449	contains similarity to Interpro domains IPR000742 (EGF-like, type 3), IPR006210 (EGF), IPR002049 (EGF-like, laminin), IPR013032 (EGF-like region, conserved site)
28	C13A2.9	C13A2.9	n/a	chrV 7,263,287	contains similarity to Pfam domain PF01482 Domain of unknown function DUF13 contains similarity to Interpro domain IPR002485 (Protein of unknown function DUF13)
29	him-14	ZK1127.11	n/a	chrII 7,067,448	him-14 encodes a germline-specific member of the MutS family of DNA mismatch repair (MMR) proteins that is orthologous to human MSH4 and Saccharomyces cerevisiae Msh4p; during the pachytene stage of meiosis, HIM-14 activity is required for promoting crossing over between homologous chromosomes and thus, for chiasmata formation and proper chromosome segregation; in contrast, HIM-14 activity does not appear to be required for mismatch repair, nor for chromosome pairing or synapsis; him-14 mRNA expression is detected exclusively in the germline.
30	F40G12.4	F40G12.4	n/a	chrV 14,268,178	contains similarity to Pfam domain PF03236 Domain of unknown function DUF263 contains similarity to Interpro domain IPR004920 (Protein of unknown function DUF263)
31	lgc-9	C04C3.2	n/a	chrIV 3,417,455	C. elegans LGC-9 protein; contains similarity to Pfam domains PF02931 (Neurotransmitter-gated ion-channel ligand binding domain) , PF02932 (Neurotransmitter-gated ion-channel transmembrane region) contains similarity to Interpro domains IPR006201 (Neurotransmitter-gated ion-channel), IPR006202 (Neurotransmitter-gated ion-channel ligand-binding), IPR006029 (Neurotransmitter-gated ion-channel transmembrane region)
32	F55C9.11	F55C9.11	n/a	chrV 19,307,376	This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
33	B0454.8	B0454.8	n/a	chrII 3,042,189	contains similarity to Pfam domain PF02795 Domain of unknown function (DUF225) contains similarity to Interpro domain IPR004024 (Protein of unknown function DUF225)
34	F10B5.2	F10B5.2	n/a	chrII 8,145,954	contains similarity to Pfam domain PF05282 AAR2 protein contains similarity to Interpro domain IPR007946 (AAR2)
35	T15D6.7	T15D6.7	n/a	chrI 12,387,268	contains similarity to Pfam domain PF03360 Glycosyltransferase family 43 contains similarity to Interpro domain IPR005027 (Glycosyl transferase, family 43)
36	dgn-3	F07G6.1	n/a	chrX 1,730,834	C. elegans DGN-3 protein ;
37	W06A11.2	W06A11.2	n/a	chrII 4,060,321
38	C04A11.2	C04A11.2	n/a	chrX 13,667,311	contains similarity to Homo sapiens Putative protein TPRXL; ENSEMBL:ENSP00000322097
39	bath-9	Y49F6C.3	n/a	chrII 3,377,880	C. elegans BATH-9 protein; contains similarity to Pfam domains PF00651 (BTB/POZ domain) , PF00917 (MATH domain) contains similarity to Interpro domains IPR002083 (MATH), IPR000210 (BTB/POZ-like), IPR010916 (TonB box, conserved site), IPR011333 (BTB/POZ fold), IPR013069 (BTB/POZ)
40	W06D11.2	W06D11.2	n/a	chrX 12,296,301
41	dylt-2	D1009.5	n/a	chrX 8,939,705	dylt-2 encodes a small putative dynein light chain subunit orthologous to human CTEX1D1, LOC343521, and TCTE3; unlike its distant paralog DYLT-1, DYLT-2 does not obviously inhibit DHC-1 in vivo; DYTL-2 has no obvious function in mass RNAi assays.
42	C35E7.3	C35E7.3	n/a	chrI 10,837,920
43	srb-8	F37C12.15	n/a	chrIII 7,172,652	C. elegans SRB-8 protein; contains similarity to Pfam domains PF02117 (C.elegans Sra family integral membrane protein) , PF02175 (C.elegans integral membrane protein Srb) contains similarity to Interpro domains IPR002184 (Serpentine beta receptor), IPR000344 (Nematode chemoreceptor, Sra)
44	ZC477.7	ZC477.7	n/a	chrIV 7,110,897
45	ref-1	T01E8.2	n/a	chrII 10,219,169	ref-1 encodes a protein with two basic helix-loop-helix (bHLH) domains that is distantly related to the hairy/Enhancer of split subfamily of bHLH transcription factors; REF-1 is required in hermaphrodites during early larval development for regulating the pattern of posterior Pn.p hypodermal cell fusions, primarily through regulation of MAB-5 homeodomain protein activity; REF-1 is also required for head morphogenesis and specification of the V6 lateral seam cell fate; in males, ref-1 is a target of MAB-3 transcriptional repression which in turn, promotes expression of LIN-32, a proneural bHLH transcription factor.
46	R07C3.2	R07C3.2	n/a	chrII 942,067
47	F36H5.4	F36H5.4	n/a	chrII 1,762,375
48	nhr-103	F44C8.4	n/a	chrV 2,226,236	nhr-103 encodes a member of the superfamily of nuclear receptors, which is one of the most abundant class of transcriptional regulators; nuclear receptors have a well conserved DNA binding domain and a less conserved C-terminal ligand binding domain.
49	F53C3.4	F53C3.4	n/a	chrII 3,902,067	contains similarity to Pfam domain PF01705 CX module contains similarity to Interpro domain IPR002619 (Protein of unknown function CX)
50	T05C3.2	T05C3.2	n/a	chrV 5,498,362	The T05C3.2 gene encodes a protein that may be involved in apoptosis.