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	F26E4.6	F26E4.6	3e-45	chrI 9,773,519	contains similarity to Pfam domain PF02935 Cytochrome c oxidase subunit VIIc contains similarity to Interpro domain IPR004202 (Cytochrome c oxidase subunit VIIc)
2	K09F6.3	K09F6.3	n/a	chrII 2,258,704	contains similarity to Pfam domains PF02206 (Domain of unknown function) , PF00102 (Protein-tyrosine phosphatase) contains similarity to Interpro domains IPR003595 (Protein-tyrosine phosphatase, catalytic), IPR016130 (Protein-tyrosine phosphatase, active site), IPR000242 (Protein-tyrosine phosphatase, receptor/non-receptor type), IPR000387 (Protein-tyrosine phosphatase), IPR003125 (Protein of unknown function WSN)
3	cid-1	K10D2.3	n/a	chrIII 5,177,184	cid-1 (also known as pup-1) encodes a template-independent poly(U) polymerase with 3'' end RNA substrates, orthologous to human ZCCHC6 and ZCCHC11, and paralogous to PUP-2; CID-1 prevents larvae from growing to adulthood in media containing hydroxyurea (HU, a drug that stalls replication forks) and represses HSP-4 expression; CID-1 is required for gonadogenesis, embryonic and vulval development, normally rapid growth, and normally short lifespan; CID-1, like HSP-4, is expressed in postmitotic intestinal cells; by orthology with Cid1p in fission yeast, CID-1 is predicted to act in a DNA synthesis-to-mitosis checkpoint; in cid-1(rf35::Tc4) mutants or cid-1(RNAi) animals grow from L1 larvae to adulthood despite the presence of HU, are abnormally resistant to lethal heat shock, overexpress hsp-4::GFP, have protruding vulvae, have abnormally short and thick gonads with fewer germ cells than normal, produce disorganized embryos, grow slowly, and have abnormally long lifespans; CID-1 and its eukaryotic homologs are distantly related to the GLD-2 family of poly(A) polymerases.
4	F55G1.9	F55G1.9	n/a	chrIV 7,476,741	contains similarity to Pfam domain PF03807 NADP oxidoreductase coenzyme F420-dependent contains similarity to Interpro domains IPR004455 (NADP oxidoreductase, coenzyme F420-dependent), IPR000304 (Delta 1-pyrroline-5-carboxylate reductase), IPR016040 (NAD(P)-binding)
5	C29F4.2	C29F4.2	n/a	chrIV 11,228,390	contains similarity to Pfam domain PF01062 Bestrophin contains similarity to Interpro domain IPR000615 (Bestrophin)
6	Y37A1B.5	Y37A1B.5	n/a	chrIV 14,053,897	contains similarity to Pfam domain PF05694 56kDa selenium binding protein (SBP56) contains similarity to Interpro domains IPR008826 (Selenium-binding protein), IPR015943 (WD40/YVTN repeat-like)
7	C07D8.6	C07D8.6	n/a	chrX 7,342,092	contains similarity to Pfam domain PF00248 Aldo/keto reductase family contains similarity to Interpro domain IPR001395 (Aldo/keto reductase)
8	evl-14	H38K22.1	n/a	chrIII 4,308,081	evl-14 encodes a homolog of the yeast sister cohesion protein Pds5p that functions during both mitosis and meiosis and is implicated in the maintenance of sister chromatid cohesion in late prophase, and affects vulval morphology, meiotic germline development, embryonic and larval viability, fertility, and cell divisions in the germ line as well as in vulval and somatic gonad lineages; some of the defects, such as somatic gonad defects, are due at least partially to cell division defects.
9	col-98	F14F7.1	n/a	chrIII 13,019,448	C. elegans COL-98 protein; contains similarity to Pfam domains PF01484 (Nematode cuticle collagen N-terminal domain) , PF01391 (Collagen triple helix repeat (20 copies)) (2)contains similarity to Interpro domains IPR000596 (Cholecystokinin receptor, type A), IPR002952 (Eggshell protein), IPR002486 (Nematode cuticle collagen, N-terminal), IPR000694 (Proline-rich region), IPR009143 (Wnt-6 protein), IPR008160 (Collagen triple helix repeat), IPR013286 (Annexin, type VII)
10	Y39A3A.2	Y39A3A.2	n/a	chrIII 2,057,188	contains similarity to Pfam domain PF08277 PAN-like domain contains similarity to Interpro domains IPR006583 (CW), IPR016187 (C-type lectin fold)
11	F49E8.1	F49E8.1	n/a	chrIV 7,557,976	contains similarity to Pfam domain PF06218 Nitrogen permease regulator 2 contains similarity to Interpro domain IPR009348 (Nitrogen permease regulator 2)
12	F10F2.2	F10F2.2	n/a	chrIII 4,631,042	contains similarity to Pfam domains PF02769 (AIR synthase related protein, C-terminal domain) (2), PF00586 (AIR synthase related protein, N-terminal domain) contains similarity to Interpro domains IPR016188 (PurM, N-terminal-like), IPR001220 (Legume lectin, beta domain), IPR000728 (AIR synthase related protein), IPR010073 (Phosphoribosylformylglycinamidine synthase, eukaryotes and proteobacteria), IPR010918 (AIR synthase related protein, C-terminal), IPR002016 (Haem peroxidase, plant/fungal/bacterial)
13	hrd-1	F55A11.3	n/a	chrV 11,768,584	C. elegans HRD-1 protein; contains similarity to Pfam domain PF00097 Zinc finger, C3HC4 type (RING finger) contains similarity to Interpro domains IPR001841 (Zinc finger, RING-type), IPR000694 (Proline-rich region), IPR013083 (Zinc finger, RING/FYVE/PHD-type), IPR011016 (Zinc finger, variant RING-type)
14	spr-1	D1014.8	n/a	chrV 8,128,020	spr-1 encodes the C. elegans ortholog of the human corepressor CoREST that functions in HDAC-containing complexes to mediate transcriptional repression; in C. elegans, spr-1 was first identified in screens for genetic suppressors of the egg-laying defective phenotype of sel-12/presenilin mutants; subsequent genetic analyses showed that spr-1 likely functions as a negative regulator of LIN-12/Notch signaling in multiple cells, including those of the somatic gonad, vulva, and early embryo; spr-1 also interacts genetically with sem-5 to regulate postembryonic growth rates and lin-35Rb to regulate vulval morphogenesis and germline proliferation; in binding assays and yeast two-hybrid experiments, SPR-1 interacts with SPR-5, the C. elegans ortholog of the LSD1 histone demethylase; an SPR-1::MYC fusion protein expressed under the control of the cog-2 promoter localizes to the nucleus and shows increased staining in nuclear speckles and what appears to be the nucleolus.
15	dylt-1	F13G3.4	n/a	chrI 7,300,621	dylt-1 encodes a putative dynein light chain subunit that inhibits DHC-1 in vivo, but is otherwise dispensable for viability; DYLT-1 is paralogous to DYLT-3, and orthologous to human DYNLT1 and DYNLT3 (OMIM: 300302); dylt-1(RNAi) and dylt-1(ok417) both suppress the lethality of conditional dhc-1 mutations, and dylt-1(RNAi) suppresses dhc-1(or195) spindle length and cytokinesis defects as well, indicating that DYLT-1 negatively regulates dynein; in oocytes and early embryos, DYLT-1 is associated with nuclear envelopes and centrosomes, and with meiotic and mitotic spindle poles; like DHC-1 itself, DYLT-1 is strongly mislocalized to centrosomes in dhc-1(or195) animals shifted to nonpermissive temperature.
16	nas-38	F57C12.1	n/a	chrX 560,901	C. elegans NAS-38 protein; contains similarity to Pfam domains PF00431 (CUB domain) , PF00090 (Thrombospondin type 1 domain) , PF01400 (Astacin (Peptidase family M12A)) contains similarity to Interpro domains IPR000884 (Thrombospondin, type I), IPR006025 (Peptidase M, neutral zinc metallopeptidases, zinc-binding site), IPR001506 (Peptidase M12A, astacin), IPR006026 (Peptidase, metallopeptidases), IPR000859 (CUB), IPR013032 (EGF-like region, conserved site)
17	T24A6.17	T24A6.17	n/a	chrV 3,564,846
18	F31E3.4	F31E3.4	n/a	chrIII 6,965,804	contains similarity to Pfam domain PF00929 Exonuclease contains similarity to Interpro domains IPR013520 (Exonuclease, RNase T and DNA polymerase III), IPR011046 (WD40 repeat-like), IPR006055 (Exonuclease), IPR001680 (WD40 repeat), IPR015943 (WD40/YVTN repeat-like), IPR012337 (Polynucleotidyl transferase, Ribonuclease H fold)
19	D2085.6	D2085.6	n/a	chrII 8,660,679	D2085.6 is orthologous to the human gene CLASS A GLCNAC-INOSITOL PHOSPHOLIPID ASSEMBLY PROTEIN (PIGA; OMIM:311770), which when mutated leads to paroxysmal nocturnal hemoglobinuria.
20	Y54G11A.2	Y54G11A.2	n/a	chrII 14,253,902	contains similarity to Pfam domain PF05670 Domain of unknown function (DUF814) contains similarity to Interpro domain IPR008532 (Protein of unknown function DUF814)
21	D1054.1	D1054.1	n/a	chrV 10,769,166	contains similarity to Pfam domain PF01734 Patatin-like phospholipase contains similarity to Interpro domains IPR016035 (Acyl transferase/acyl hydrolase/lysophospholipase), IPR002641 (Patatin)
22	F52B5.3	F52B5.3	n/a	chrI 8,321,160	The F52B5.3 gene encodes a DEAH helicase orthologous to the Drosophila SpindleE protein.
23	fbxa-58	C29F9.11	n/a	chrIII 110,182	C. elegans FBXA-58 protein; contains similarity to Pfam domains PF01827 (FTH domain) , PF00646 (F-box domain) contains similarity to Interpro domain IPR002900 (Protein of unknown function DUF38, Caenorhabditis species)
24	rpc-1	C42D4.8	n/a	chrIV 7,162,904	C. elegans RPC-1 protein; contains similarity to Pfam domains PF04998 (RNA polymerase Rpb1, domain 5) , PF00623 (RNA polymerase Rpb1, domain 2) , PF04997 (RNA polymerase Rpb1, domain 1) , PF05000 (RNA polymerase Rpb1, domain 4) , PF04983 (RNA polymerase Rpb1, domain 3) contains similarity to Interpro domains IPR006592 (RNA polymerase, N-terminal), IPR007080 (RNA polymerase Rpb1, domain 1), IPR007066 (RNA polymerase Rpb1, domain 3), IPR007083 (RNA polymerase Rpb1, domain 4), IPR000722 (RNA polymerase, alpha subunit), IPR007081 (RNA polymerase Rpb1, domain 5)
25	C30B5.4	C30B5.4	n/a	chrII 6,196,350	contains similarity to Pfam domain PF00076 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) contains similarity to Interpro domains IPR012677 (Nucleotide-binding, alpha-beta plait), IPR000504 (RNA recognition motif, RNP-1)
26	fbxa-51	T12B5.1	n/a	chrIII 962,902	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; this gene's encoded protein also contains an FTH/DUF38 motif, which may also mediate protein-protein interaction.
27	sri-27	ZK697.4	n/a	chrV 1,726,643	C. elegans SRI-27 protein; contains similarity to Pfam domain PF01461 7TM chemoreceptor contains similarity to Interpro domain IPR003002 (7TM chemoreceptor, subfamily 1)
28	F56C11.3	F56C11.3	n/a	chrI 182,455	contains similarity to Pfam domain PF04777 Erv1 / Alr family contains similarity to Interpro domain IPR006863 (Erv1/Alr)
29	K02E7.2	K02E7.2	n/a	chrII 1,080,452
30	duo-3	Y106G6H.12	n/a	chrI 10,467,681	C. elegans DUO-3 protein; contains similarity to Pfam domains PF00443 (Ubiquitin carboxyl-terminal hydrolase) , PF02338 (OTU-like cysteine protease) contains similarity to Interpro domains IPR003323 (Ovarian tumour, otubain), IPR001394 (Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2)
31	T23G4.3	T23G4.3	n/a	chrIV 13,686,045	contains similarity to Homo sapiens BAG-family molecular chaperone regulator-4; ENSEMBL:ENSP00000287322
32	C11D2.3	C11D2.3	n/a	chrIV 6,154,348
33	ulp-2	Y38A8.3	n/a	chrII 4,957,746	C. elegans ULP-2 protein; contains similarity to Pfam domain PF02902 Ulp1 protease family, C-terminal catalytic domain contains similarity to Interpro domain IPR003653 (Peptidase C48, SUMO/Sentrin/Ubl1)
34	F56D1.2	F56D1.2	n/a	chrII 5,476,416	contains similarity to Pfam domain PF08357 SEFIR domain contains similarity to Interpro domain IPR013568 (SEFIR)
35	cul-6	K08E7.7	n/a	chrIV 12,588,438	cul-6 encodes a member of the cullin family that may physically interact with SKR-3.
36	amx-3	F25C8.2	n/a	chrV 20,896,026	C. elegans AMX-3 protein; contains similarity to Pfam domain PF01593 Flavin containing amine oxidoreductase contains similarity to Interpro domains IPR000759 (Adrenodoxin reductase), IPR001613 (Flavin-containing amine oxidase), IPR002937 (Amine oxidase), IPR016040 (NAD(P)-binding)
37	srj-4	C27A7.7	n/a	chrV 12,163,847	C. elegans SRJ-4 protein; contains similarity to Pfam domain PF01461 7TM chemoreceptor contains similarity to Interpro domain IPR003002 (7TM chemoreceptor, subfamily 1)
38	sec-10	C33H5.9	n/a	chrIV 7,780,928	C. elegans SEC-10 protein; contains similarity to Pfam domain PF07393 Exocyst complex component Sec10 contains similarity to Interpro domain IPR009976 (Exocyst complex component Sec10)
39	smg-5	W02D3.8	n/a	chrI 6,735,096	smg-5 encodes a novel protein that contains two N-terminal tetratricopeptide (TPR) repeats and a C-terminal PINc domain found in nucleotide-binding proteins; SMG-5 is a component of the nonsense-mediated mRNA decay (NMD) pathway and likely functions in regulation of dephosphorylation of SMG-2, the C. elegans UPF1 ortholog, an ATPase and RNA helicase required for NMD in worms, yeast, and mammals; SMG-5 physically interacts with SMG-7, SMG-2, and the PAA-1 and LET-92 structural and catalytic subunits, respectively, of a protein phosphatase 2A (PP2A), suggesting that SMG-5 may function to direct SMG-2 to a PP2A phosphatase that regulates its activity in vivo; SMG-5 also interacts, in vivo, with components of the RNA interference (RNAi) pathway, suggesting a potential link between RNAi and NMD; SMG-5::GFP fusion proteins localize to both the nucleus and the cytoplasm.
40	C31E10.7	C31E10.7	n/a	chrX 14,002,346	C31E10.7 is orthologous to the human gene UNKNOWN (PROTEIN FOR MGC:10230) (CYB5; OMIM:250790), which when mutated leads to disease.
41	H06O01.2	H06O01.2	n/a	chrI 7,012,174	H06O01.2 encodes a large (1,461-aa) putative chromodomain helicase DNA-binding protein that inhibits DHC-1 in vivo; H06O01.2 is orthologous to budding yeast CHD1, human CHD1 (OMIM:602118), and human CHD2 (OMIM:602119); H06O01.2(RNAi) suppresses the lethality of conditional dhc-1 mutations, as well as the spindle length and cytokinesis defects of dhc-1(or195), indicating that H06O01.2 negatively regulates dynein; H06O01.2 has no obvious function in mass RNAi assays.
42	K09H11.1	K09H11.1	n/a	chrV 5,749,898	contains similarity to Pfam domains PF08028 (Acyl-CoA dehydrogenase, C-terminal domain) , PF01636 (Phosphotransferase enzyme family) , PF02770 (Acyl-CoA dehydrogenase, middle domain) , PF00441 (Acyl-CoA dehydrogenase, C-terminal domain) , PF00702 (haloacid dehalogenase-like hydrolase) contains similarity to Interpro domains IPR011945 (Predicted HAD-superfamily phosphatase, subfamily IA/Epoxide hydrolase, N-terminal), IPR005833 (Haloacid dehydrogenase/epoxide hydrolase), IPR013107 (Acyl-CoA dehydrogenase, type 2, C-terminal), IPR006090 (Acyl-CoA oxidase/dehydrogenase, type 1), IPR013786 (Acyl-CoA dehydrogenase/oxidase, N-terminal), IPR006091 (Acyl-CoA dehydrogenase/oxidase, central region), IPR011009 (Protein kinase-like), IPR006402 (HAD-superfamily hydrolase, subfamily IA, variant 3), IPR013764 (Acyl-CoA oxidase/dehydrogenase, type1/2, C-terminal), IPR009100 (Acyl-CoA dehydrogenase/oxidase, middle and N-terminal), IPR000169 (Peptidase, cysteine peptidase active site), IPR005834 (Haloacid dehalogenase-like hydrolase), IPR008266 (Tyrosine protein kinase, active site), IPR002575 (Aminoglycoside phosphotransferase)
43	K01D12.5	K01D12.5	n/a	chrV 12,398,255	contains similarity to Interpro domain IPR003980 (Histamine H3 receptor)
44	K10D11.3	K10D11.3	n/a	chrIV 12,984,093	contains similarity to Pfam domain PF02408 CUB-like domain contains similarity to Interpro domains IPR000859 (CUB), IPR003366 (CUB-like region)
45	ddb-1	M18.5	n/a	chrIV 12,117,957	M18.5 is orthologous to the human gene DAMAGE-SPECIFIC DNA BINDING PROTEIN 1 (127KD) (DDB1; OMIM:600045), which when mutated leads to disease.
46	T28D6.6	T28D6.6	n/a	chrIII 11,334,762	contains similarity to Pfam domains PF01926 (GTPase of unknown function) , PF02824 (TGS domain) contains similarity to Interpro domains IPR005225 (Small GTP-binding protein), IPR002917 (GTP-binding protein, HSR1-related), IPR006073 (GTP1/OBG), IPR004095 (TGS), IPR006074 (GTP1/OBG, conserved site)
47	B0019.2	B0019.2	n/a	chrI 12,777,941	contains similarity to Pfam domains PF04435 (Domain of unknown function (DUF545)) , PF02178 (AT hook motif) contains similarity to Interpro domains IPR006570 (SPK), IPR000637 (HMG-I and HMG-Y, DNA-binding), IPR009057 (Homeodomain-like)
48	C04C3.4	C04C3.4	n/a	chrIV 3,394,502
49	ned-8	F45H11.2	n/a	chrI 10,373,604	The ned-8 gene encodes a ubiquitin-like protein that is required for both embryogenesis and terminal hypodermal differentiation.
50	H28O16.2	H28O16.2	n/a	chrI 12,649,720	contains similarity to Pfam domain PF00498 FHA domain contains similarity to Interpro domains IPR008984 (SMAD/FHA domain), IPR000253 (Forkhead-associated)