Blacque et al 2005, ST3 putative X Box genes, 22 genes

Gene list file name:Blacque2005_ST3_22-putative_X-Box
Type of gene identifier:Cosmid name
Description:Blacque et al 2005 ST3 Putative X Box Sequences Used to Derive a Consensus X Box Sequence: Only genes with a restricted expression pattern in many, if not all, ciliated cells of C. elegans were considered.  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

C27A7.4 C27A7.4 P W All gene names: che-11; mev-4; C27A7.4; 5M626; CE39480; NM_073646; WBGene00000490; WP:CE39480 WormBase description: che-11 encodes a large, unfamiliar protein with orthologs in vertebrates and arthropods (e.g., KIAA0590 and CG11838-PA) and in Chlamydomonas (IFT140), as well as distant similarity to OSM-1 and ZK520.1; che-11 is required for normal synthesis of sensory cilia (via intraflagellar transport) in sensory neurons, osmotic avoidance, and dauer formation.
C38D4.8 C38D4.8 P W All gene names: arl-query; bbs-3; C38D4.8; 3F900; ARL6_CAEEL; CE00921; NM_065592; WBGene00000193; WP:CE00921 WormBase description: arl-6 encodes an ADP-Ribosylation factor-Like member of the Ras superfamily of small GTP-binding proteins and is a predicted homolog of the human ARL6 gene, identified as the gene that underlies Bardet-Biedl syndrome type 3; GFP-tagged ARL-6 undergoes intraflagellar transport (IFT) in the ciliary axoneme, implicating ARL-6 in ciliary transport; arl-6 is expressed in amphid and phasmid ciliated sensory neurons. WormBase CDS description: ADP-ribosylation factor
C47E8.6 C47E8.6 P W All gene names: C47E8.6; 5P171; CE35839; WBGene00008144; WP:CE35839
C48B6.8 C48B6.8 P W All gene names: C48B6.8; 1H494; CE32166; WBGene00016744; WP:CE32166
F02D8.3 F02D8.3 P W All gene names: xbx-1; F02D8.3; 5P459; CE39142; NM_074282; WBGene00006960; WP:CE39142
F19H8.3 F19H8.3 P W All gene names: arl-3; F19H8.3; 2O895; ARL3_CAEEL; CE15872; NM_064636; WBGene00000188; WP:CE15872 WormBase description: arl-3 encodes a member of the ARL (ADP-ribosylation factor(ARF)-like) family of proteins which are very similar to ARF proteins but lack the ability to stimulate ADP ribosylation by cholera toxin; as loss of arl-3 activity via RNA-mediated interference (RNAi) does not result in any abnormalities, the precise role of ARL-3 is not yet known. WormBase CDS description: ADP-ribosylation factors (Arf family) (contains ATP/GTP binding P-loop)
F20D12.3 F20D12.3 P W All gene names: bbs-2; F20D12.3; 4I701; CE04433; NM_068924; WBGene00000242; WP:CE04433 WormBase description: bbs-2 is orthologous to human BBS2 (OMIM:606151, mutated in Bardet-Biedl syndrome 2); while the function of BBS-2 is unknown, it shares conserved domains with its human paralogs BBS1 and BBS7, which also are mutated in other Bardet-Biedl syndromes.
F33H1.1 F33H1.1 P W All gene names: daf-19; daf-24; F33H1.1; 2K448; CE17763; CE28019; DAF19_CAEEL; WBGene00000914; WP:CE17763; WP:CE28019 WormBase description: daf-19 is the sole C. elegans member of the RFX family of transcription factors, and is required for sensory neuron cilium formation; DAF-19 is expressed in ciliated sensory neurons during the period that their cilia are generated, and probably functions as an common transcriptional activator of many genes that specifically encode cilial structures in sensory neurons; daf-19 mutants lack sensory cilia, have abnormal amphids, are strongly dauer-constutive, lack normal openings of the amphids to the external environment (i.e., fail to show dye-filling), and are highly defective in their ability to taste or smell; DAF-19 regulates bbs-5, che-2, che-13, dyf-3, osm-1, osm-6, and xbx-1 expression, and probably regulates ~200 other genes (e.g., bbs-2, bbs-7 and bbs-8); the localization of DAF-6 is aberrant in daf-19 mutants. WormBase CDS description: DNA binding transcription factor
F38G1.1 F38G1.1 P W All gene names: che-2; F38G1.1; F38G1.1.1; F38G1.1.2; CE25876; NM_075705; WBGene00000484; WP:CE25876; XB103 WormBase description: che-2 encodes a protein that contains G-protein beta-like WD-40 repeats that affects chemotaxis, dauer formation, and longevity; expressed in the cilia of most ciliated sensory neurons, some head neurons, and male tail rays. WormBase CDS description: G-beta-repeats
F59C6.7 F59C6.7 P W All gene names: che-13; che-9; F59C6.7; 1L82; CE31704; NM_060348; WBGene00000492; WP:CE31704 WormBase description: che-13 encodes a novel protein homologous to mammalian IFT57/Hippi (OMIM:606621, protein interactor of Huntingtin-interacting protein 1 that is implicated in neuronal apoptosis in the Huntington disease state); CHE-13 is a proposed component of the intraflagellar transport (IFT) complex B, and is required for the construction and maintenance of cilia on a subset of sensory neurons; in addition, CHE-13 is required for proper localization of OSM-5, a murine polaris homolog, to IFT complex B; CHE-13 is expressed in ciliated sensory neurons including the amphids, phasmids, inner and outer labial neurons, and sensory rays of the male tail, localizing to the cilia base (transition zone) as well as to the axoneme; che-13 expression, like that of ciliogenic genes osm-1, osm-5, osm-6, and che-2, is positively regulated by the DAF-19 RFX-type transcription factor.
K03E6.4 K03E6.4 P W All gene names: K03E6.4; CE07330; Q21191_CAEEL; WBGene00019364; WP:CE07330; XB686
K08D12.2 K08D12.2 P W All gene names: K08D12.2; 4C477; CE32468; WBGene00019536; WP:CE32468 WormBase description: K08D12.2 is orthologous to the human gene XRP2 PROTEIN (RP2; OMIM:312600), which when mutated leads to disease.
R01H10.6 R01H10.6 P W All gene names: bbs-5; R01H10.6; 3L348; CE01042; NM_066871; Q21626_CAEEL; WBGene00010974; WP:CE01042
R31.3 R31.3 P W All gene names: osm-6; R31.3; 5M406; CE27774; NM_171545; WBGene00003886; WP:CE27774 WormBase description: osm-6 males are defective in their response to hermaphrodite-derived diffusible cues. WormBase CDS description: N-acetyllactosamine synthase
T25F10.5 T25F10.5 P W All gene names: bbs-8; T25F10.5; 5H242; CE31071; NM_072310; WBGene00000244; WP:CE31071 WormBase description: bbs-8 encodes a tetratricopeptide repeat (TPR)-containing protein that is orthologous to the human Bardet-Biedl syndrome protein, BBS8; in C. elegans, bbs-8 activity is required for cilia biogenesis and function; accordingly, bbs-8 mutant animals display odorant chemotaxis defects and exhibit both aberrant motility and abnormal localization of at least two intraflagellar transport (IFT) protein markers; a BBS-8::GFP translational fusion is expressed exclusively in ciliated head and tail neurons, where it localizes predominantly to the base of cilia, known as the ciliary transition zone; BBS-8::GFP is also observed moving bidirectionally (anterograde and retrograde) along the ciliary axoneme; DNA sequences upstream of bbs-8 contain X box DNA binding sites, suggesting that bbs-8 expression may be regulated by the DAF-19 RFX-type transcription factor.
T27B1.1 T27B1.1 P W All gene names: osm-1; T27B1.1; CE39420; NM_078280; WBGene00003883; WP:CE39420; XR165 WormBase description: osm-1 encodes a predicted intraflagellar transport (IFT) raft protein and is a presumptive cargo molecule for kinesin-II, and OSM-1 is required along with OSM-6 for the proper assembly of the middle segments of sensory cilia; osm-1 may act in a pathway with avr-14 to affect resistance to ivermectin-induced cessation of pumping, and mutants are defective in avoidance of solutions of high osmotic strength. WormBase CDS description: leucine zipper transcription factor(weak)
Y105E8A.5 Y105E8A.5 P W All gene names: bbs-1; Y105E8A.5; 1O962; CE25181; NM_170937; WBGene00000241; WP:CE25181
Y110A7A.20 Y110A7A.20 P W All gene names: Y110A7A.20; 1F671; CE23246; WBGene00022465; WP:CE23246
Y37E3.5 Y37E3.5 P W All gene names: Y37E3.5; 1C635; CE39044; CE39045; WBGene00021349; WP:CE39044; WP:CE39045
Y41G9A.1 Y41G9A.1 P W All gene names: osm-5; Y41G9A.1; CE28361; NM_076110; WBGene00003885; WP:CE28361; XD609 WormBase description: The osm-5 gene encodes a homolog of the murine cystic kidney disease gene Tg737 that is required for the production of cilia in sensory neurons.
Y75B8A.12 Y75B8A.12 P W All gene names: osm-12; Y75B8A.12; Y75B8A.P; 3N280; CE23024; NM_067184; Q9XW70_CAEEL; WBGene00003892; WP:CE23024