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	T24G10.2	T24G10.2	4e-128	chrIII 5,441,718	contains similarity to Pfam domain PF02201 SWIB/MDM2 domain contains similarity to Interpro domain IPR003121 (SWIB/MDM2)
2	skr-9	C52D10.7	n/a	chrIV 17,163,837	skr-9 encodes a homolog of Skp1 in S. cerevisiae, a component of the SCF (Skp1, Cullin, F-box) ubiquitin-ligase complex that regulates ubiquitin-mediated protein degradation; SKR-9 is required for posterior body morphogenesis, embryonic and larval development, and postembryonic cell proliferation.
3	ncbp-2	F26A3.2	n/a	chrI 7,642,924	ncbp-2 encodes the C. elegans ortholog of the CBP20 subunit of the nuclear cap binding complex; by homology, NCBP-2 is predicted to play a role in mRNA decay; loss of ncbp-2 activity via RNAi indicates that this gene is essential for embryonic and larval development and in addition, plays a role in reproduction and vulval morphogenesis; staining of C. elegans embryos with an antibody to human CBP20 suggests that NCBP-2 localizes predominantly to the nuclear envelope.
4	elb-1	Y41C4A.10	n/a	chrIII 11,719,034	elb-1 encodes an Elongin B ortholog required for chromosome condensation and segregation during mitosis and meiotic division II, and also for cell proliferation (probably through degradation of CKI-1); elb-1(RNAi) animals tend to arrest at the second meiotic cell division, with escapers showing many other defects in chromosomal dynamics and cell cycle control such as abnormal pronuclear rotation and cortical protrusion, aberrant chromosomal structures in the intestine, and deficient germ cell proliferation; ELB-1 interacts with ELC-1 and ELC-2 in bacterial two-hybrid experiments.
5	ZK1098.2	ZK1098.2	n/a	chrIII 9,530,428	contains similarity to Klebsiella aerogenes Siroheme synthetase.; TR:Q9EYX8
6	ekl-6	T16G12.5	n/a	chrIII 10,066,125	C. elegans EKL-6 protein; contains similarity to Interpro domain IPR016024 (Armadillo-type fold)
7	srh-128	Y47G7B.1	n/a	chrII 2,704,344	C. elegans SRH-128 protein; contains similarity to Pfam domain PF01461 7TM chemoreceptor contains similarity to Interpro domain IPR003002 (7TM chemoreceptor, subfamily 1)
8	F10G2.2	F10G2.2	n/a	chrV 7,331,479
9	unc-71	Y37D8A.13	n/a	chrIII 12,886,268	unc-71 encodes an ADAM, a disintegrin and metalloprotease-containing transmembrane protein that is a member of the metzincin superfamily of proteases; UNC-71 is required non-cell autonomously for motor axon guidance and sex myoblast migration; UNC-71 does not appear to have an active metalloprotease domain, but functions with UNC-6/netrin and integrins INA-1/PAT-3 to provide guidance cues during axonal migration; UNC-71 is expressed in a restricted pattern in the excretory and excretory gland cells, some head neurons, the sphincter muscles, and hypodermal cells surrounding the vulva.
10	ceh-49	F17A9.6	n/a	chrV 6,119,282	ceh-49 encodes a divergent ONECUT class CUT homeobox protein with a single N-terminal cut domain; CEH-49 has an atypical tyrosine residue at position 48 of its homeodomain rather than a phenylalanine or tryptophan residue; the cut domain may be a compact DNA-binding domain composed of alpha helices; phylogenetically, CEH-49 is (somewhat distantly) affiliated with CEH-48, Drosophila ONECUT, and mammalian HNF6 proteins; CEH-49 has no obvious function in mass RNAi assays.
11	Y54E5A.7	Y54E5A.7	n/a	chrI 14,713,042	contains similarity to Pfam domain PF00622 SPRY domain contains similarity to Interpro domains IPR001870 (B302, (SPRY)-like), IPR006594 (LisH dimerisation motif), IPR006595 (CTLH, C-terminal to LisH motif), IPR003877 (SPla/RYanodine receptor SPRY)
12	Y4C6B.1	Y4C6B.1	n/a	chrIV 5,355,504	contains similarity to Interpro domain IPR000694 (Proline-rich region)
13	hil-6	F59A7.4	n/a	chrV 2,031,066	C. elegans HIL-6 protein; contains similarity to Pfam domain PF00538 linker histone H1 and H5 family contains similarity to Interpro domains IPR003993 (Treacher Collins syndrome, treacle), IPR011991 (Winged helix repressor DNA-binding), IPR005819 (Histone H5), IPR003882 (Pistil-specific extensin-like protein), IPR005818 (Histone H1/H5), IPR003216 (Linker histone, N-terminal)
14	K08F11.2	K08F11.2	n/a	chrIV 4,718,190	contains similarity to Pfam domain PF06918 Protein of unknown function (DUF1280) contains similarity to Interpro domain IPR009689 (Protein of unknown function DUF1280)
15	sna-1	W02F12.6	n/a	chrV 6,710,071	sna-1 encodes an snRNP-binding protein (SNA-1/SL21p) orthologous to Ascaris SL30p (SL 30kd) and Brugia 13258.m00169, and paralogous to Brugia 14704.m00455; SNA-1 is found in the Sm snRNP SL1, but not in SL2; in snRNP SL1, SNA-1 associates with the SNA-2/SL75p protein, while being replaced by SUT-1/SL26p (a paralog of SNA-1) in snRNP Y; sna-1(RNAi) animals, like sut-1(bk79) mutants, have cold-sensitive sterility, whereas sna-1(RNAi) combined with sut-1(bk79) is synthetically lethal; double sna-1(RNAi) sut-1(RNAi) is lethal; these RNAi data indicate that SNA-1 and SUT-1 are partially redundant, and suggest that snRNP Y (like snRNP SL1) may participate in trans-splicing; SNA-1 can bind SNA-2 even in the absence of RNA.
16	div-1	R01H10.1	n/a	chrIII 10,246,876	div-1 encodes a homolog of the B subunit of the DNA polymerase alpha-primase complex; DIV-1 is required in embryos for the normal timing of interphase in cell divisions, and for the asymmetric distribution of PIE-1 and P granules.
17	F45C12.2	F45C12.2	n/a	chrII 1,732,740	contains similarity to Interpro domains IPR001356 (Homeobox), IPR009057 (Homeodomain-like)
18	ZK1010.3	ZK1010.3	n/a	chrIII 12,979,542	contains similarity to Pfam domain PF06229 FRG1-like family contains similarity to Interpro domains IPR010414 (FRG1-like), IPR008999 (Actin-crosslinking proteins)
19	C41H7.3	C41H7.3	n/a	chrII 3,006,666	contains similarity to Pfam domain PF03353 DUF278 contains similarity to Interpro domain IPR005020 (Protein of unknown function DUF278)
20	F31C3.4	F31C3.4	n/a	chrI 15,051,595	contains similarity to Pfam domain PF02535 ZIP Zinc transporter contains similarity to Interpro domain IPR003689 (Zinc/iron permease)
21	K05C4.7	K05C4.7	n/a	chrI 14,738,206	contains similarity to Interpro domains IPR016617 (Uncharacterised conserved protein UCP013899, metal binding), IPR016024 (Armadillo-type fold)
22	K06H7.7	K06H7.7	n/a	chrIII 8,084,529
23	hmg-4	T20B12.8	n/a	chrIII 7,380,295	hmg-4 encodes a protein with strong similarity to the highly conserved high mobility group protein SSRP1 (structure-specific DNA recognition protein); by homology, HMG-4 is predicted to be a member of the FACT (facilitates chromatin transcription) complex that functions as a transcription elongation factor; RNAi experiments indicate that hmg-4 is required for locomotion and larval development, and required redundantly with hmg-3, its paralog, for embryonic development.
24	C18E3.2	C18E3.2	0.001	chrI 4,211,756	The C18E3.2 gene encodes a homolog of Swp73/BAF60, a component of the SWI/SNF complex that is conserved from yeast to mammals and that is involved in chromatin remodeling; C18E3.2 is probably required during mitosis of the T cells for asymmetric cell division.
25	C27A12.2	C27A12.2	n/a	chrI 6,043,841	contains similarity to Pfam domain PF00096 Zinc finger, C2H2 type contains similarity to Interpro domains IPR015880 (Zinc finger, C2H2-like), IPR007086 (Zinc finger, C2H2-subtype), IPR013087 (Zinc finger, C2H2-type/integrase, DNA-binding), IPR007087 (Zinc finger, C2H2-type)
26	K08D10.1	K08D10.1	n/a	chrIV 4,182,875	contains similarity to Pfam domain PF06918 Protein of unknown function (DUF1280) contains similarity to Interpro domain IPR009689 (Protein of unknown function DUF1280)
27	C26E6.3	C26E6.3	n/a	chrIII 4,945,871	contains similarity to Pfam domain PF04078 Cell differentiation family, Rcd1-like contains similarity to Interpro domain IPR007216 (Cell differentiation proteins, Rcd1-like)
28	Y106G6H.9	Y106G6H.9	n/a	chrI 10,455,014	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.
29	C25A11.2	C25A11.2	n/a	chrX 9,115,559	contains similarity to Pfam domain PF00651 BTB/POZ domain contains similarity to Interpro domains IPR000210 (BTB/POZ-like), IPR011333 (BTB/POZ fold), IPR013069 (BTB/POZ)
30	fbxb-74	R08C7.9	n/a	chrIV 4,438,735	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; its encoded protein also contains a Pfam-B45 motif of presently unknown function.
31	W04B5.5	W04B5.5	n/a	chrIII 2,414,713	The W04B5.5 gene encodes a phospholipid-independent AKT/PKB kinase.
32	F29B9.5	F29B9.5	n/a	chrIV 4,652,758	contains similarity to Pfam domains PF00085 (Thioredoxin) , PF00578 (AhpC/TSA family) contains similarity to Interpro domains IPR011594 (Thioredoxin-like), IPR012336 (Thioredoxin-like fold), IPR012335 (Thioredoxin fold), IPR000866 (Alkyl hydroperoxide reductase/ Thiol specific antioxidant/ Mal allergen), IPR013766 (Thioredoxin domain), IPR006662 (Thioredoxin-related)
33	ppfr-2	D2092.2	n/a	chrI 6,626,089	C. elegans PPFR-2 protein; contains similarity to Pfam domain PF09184 PPP4R2 contains similarity to Interpro domain IPR015267 (Protein phosphatase 4 core regulatory subunit R2)
34	xpg-1	F57B10.6	n/a	chrI 6,560,500	F57B10.6 is orthologous to the human gene EXCISION REPAIR CROSS-COMPLEMENTING RODENT REPAIR DEFICIENCY, COMPLEMENTATION GROUP 5 (XERODERMA PIGMENTOSUM, COMPLEMENTATION GROUP G (COCKAYNE SYNDROME)) (ERCC5; OMIM:133530), which when mutated leads to disease.
35	psa-4	F01G4.1	n/a	chrIV 11,128,568	The psa-4 (phasmid socket absent) gene encodes an ortholog of SWI2/SNF2, a component of the SWI/SNF complex that is conserved from yeast to mammals and that is involved in chromatin remodeling; psa-4 is probably required during mitosis of the T cells for asymmetric cell division.
36	R04A9.2	R04A9.2	n/a	chrX 374,567	contains similarity to Pfam domains PF02170 (PAZ domain) , PF02171 (Piwi domain) contains similarity to Interpro domains IPR003165 (Stem cell self-renewal protein Piwi), IPR003100 (Argonaute and Dicer protein, PAZ), IPR012337 (Polynucleotidyl transferase, Ribonuclease H fold)
37	Y48A6C.3	Y48A6C.3	n/a	chrIII 11,118,099	contains similarity to Interpro domains IPR011990 (Tetratricopeptide-like helical), IPR015880 (Zinc finger, C2H2-like), IPR013026 (Tetratricopeptide region), IPR007087 (Zinc finger, C2H2-type)
38	cir-1	F55F8.4	n/a	chrI 5,654,871	C. elegans CIR-1 protein ; contains similarity to Homo sapiens Isoform 1 of CBF1-interacting corepressor; ENSEMBL:ENSP00000339723
39	W02D9.3	W02D9.3	n/a	chrI 12,536,484	contains similarity to Pfam domain PF00505 HMG (high mobility group) box contains similarity to Interpro domains IPR000910 (High mobility group box, HMG1/HMG2), IPR009071 (High mobility group box, HMG)
40	C27A12.9	C27A12.9	n/a	chrI 6,064,908	contains similarity to Pfam domain PF01663 Type I phosphodiesterase / nucleotide pyrophosphatase contains similarity to Interpro domains IPR017849 (Alkaline phosphatase-like, alpha/beta/alpha), IPR002591 (Type I phosphodiesterase/nucleotide pyrophosphatase/phosphate transferase), IPR017850 (Alkaline-phosphatase-like, core domain)
41	agt-2	F09E5.13	n/a	chrII 5,372,696	agt-2 encodes a paralog of the DNA repair enzyme O6-Alkylguanine DNA-alkyltransferase (AGT); AGT-2 has AGT biochemical activity and is expressed at all developmental stages.
42	F59E12.11	F59E12.11	n/a	chrII 5,648,707	contains similarity to Homo sapiens Isoform 1 of Loss of heterozygosity 12 chromosomal region 1 protein; ENSEMBL:ENSP00000321546
43	C14B1.8	C14B1.8	n/a	chrIII 3,719,182	C14B1.8 encodes a coiled-coil protein.
44	smo-1	K12C11.2	n/a	chrI 1,340,894	C. elegans SMO-1 protein; contains similarity to Pfam domain PF00240 Ubiquitin family contains similarity to Interpro domain IPR000626 (Ubiquitin)
45	lin-46	R186.4	n/a	chrV 12,969,772	lin-46 encodes one of two C. elegans paralogs of bacterial MoeA proteins and mammalian gephyrins (E domain, only); LIN-46 is predicted to function as a scaffolding protein for a developmental timing complex, and may also play a role in molybdenum cofactor biosynthesis; identified in screens for suppressors of precocious heterochronic mutations in lin-14 and lin-28, lin-46 is required for stage-specific developmental events at the third larval and adult stages of development; as a component of the heterochronic pathway, lin-46 appears to act immediately downstream of lin-28, which encodes a predicted RNA binding protein required for cell fate specification at the L2 stage; a LIN-46:GFP fusion protein is detected in the cytoplasm and non-nucleolar part of the nucleus of ventral and lateral hypodermal cells around the time of the larval molts; in addition, the LIN-46 fusion protein is detected in cell bodies and axons of the AVBL/R motor interneurons.
46	T07F8.4	T07F8.4	n/a	chrII 7,131,218	contains similarity to Pfam domain PF01448 ELM2 domain contains similarity to Interpro domains IPR001005 (SANT, DNA-binding), IPR000949 (ELM2)
47	K03B8.4	K03B8.4	n/a	chrV 11,394,932	contains similarity to Homo sapiens Isoform 2 of SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 3; ENSEMBL:ENSP00000349254
48	brc-1	C36A4.8	n/a	chrIII 3,858,030	brc-1 encodes an ortholog of human BRCA1 (OMIM:113705, mutated in early onset breast and ovarian cancer) required for double-strand break repair via inter-sister recombination during meiosis; BRC-1 forms a heterodimer with BRD-1, which constitutes an E3 ubiquitin ligase; after irradiation, the DNA checkpoint proteins ATL-1 and MRE-11 are required for BRC-1/BRD-1 heterodimers to associate with RAD-51 and LET-70/Ubc5, and to ubiquitylate damaged chromatin; brc-1(RNAi) animals have excess chromosomal nondisjunction, abnormally high levels of CEP-1-dependent germ cell apoptosis (both with and without gamma-irradiation) and hypersensitivity to gamma-irradiation (e.g., abnormal sterility after irradiation); BRC-1 and BRD-1 bind one another, probably through their N-terminal RING domains, in yeast two-hybrid experiments and pull-down assays; BRC-1/BRD-1 heterodimers may interact with RAD-51 and other proteins via mutual binding to UBC-9; brc-1 is genetically dispensable for the induction of nuclear ATL-1 foci by gamma-irradiation or hydroxyurea.
49	mcm-3	C25D7.6	n/a	chrV 15,058,134	mcm-3 encodes a member of the MCM2/3/5 family with similarity to human DNA replication licensing factor, MCM3, and affects embryonic viability.
50	his-38	K03A1.6	n/a	chrX 7,309,668	his-38 encodes an H4 histone; by homology, HIS-38 is predicted to function as a nucleosome component required for packaging of DNA into chromatin; his-38 is a replication-dependent histone locus that does not reside in a cluster, but exists as a single histone locus on the X chromosome.