Stetina et al 2007, Homebox receptors, 32 genes

Gene list file name:Stetina2007_table3Homebox
Type of gene identifier:Cosmid name
Description:Major transcription factor families enriched in C. elegans neurons Homebox receptor group  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

B0564.10 B0564.10 P W All gene names: unc-30; B0564.10; 4N887; CE05183; CE36087; NM_070125; WBGene00006766; WP:CE05183; WP:CE36087 WormBase description: unc-30 encodes a homeodomain-containing protein that is orthologous to the Pitx family of homeodomain transcription factors; during develpoment, UNC-30 controls the terminal differentiation of all 19 type D GABA-ergic motor neurons by directly regulating the expression of UNC-25/GAD and UNC-47/VGAT, which regulate GABA formation and secretion, respectively; UNC-30 is expressed most strongly in type D motor neurons during early L1 and L2 larval stages. WormBase CDS description: homeobox protein (otd subfamily)
C07E3.5 C07E3.5 P W All gene names: C07E3.5; 2K654; CE02121; WBGene00007416; WP:CE02121
C10G8.6 C10G8.6 P W All gene names: ceh-34; C10G8.6; 5F794; CE20496; NM_072018; WBGene00000455; WP:CE20496 WormBase description: ceh-34 encodes a homeodomain protein, homologous to human SIX2 (OMIM:604994), that is expressed very weakly in the pharynxes of late embryos and early larvae; it has no known function. WormBase CDS description: homeobox protein
C17H12.9 C17H12.9 P W All gene names: ceh-48; C17H12.9; 4H577; CE16869; O45080_CAEEL; WBGene00015934; WP:CE16869 WormBase description: C17H12.9 encodes a ONECUT class CUT homeobox protein with a single N-terminal cut domain; the cut domain may be a compact DNA-binding domain composed of alpha helices; C17H12.9 is strongly affiliated with, and may be orthologous to, Drosophila ONECUT and mammalian HNF6 proteins; C17H12.9 has no obvious function in mass RNAi assays. WormBase CDS description: homeobox protein
C18B12.3 C18B12.3 P W All gene names: dsc-1; C18B12.3; CE08308; WBGene00001096; WBGene00007665; WP:CE08308; XP650 WormBase description: Homeobox domain
C28A5.4 C28A5.4 P W All gene names: ceh-43; C28A5.4; 3F536; CE05325; NM_065503; WBGene00000463; WP:CE05325 WormBase description: A homeobox protein of the Distal-less (Dll) class that is required for development of the anterior hypdermis during embryonic morphogenesis for cell adhesion; also affects embryonic and larval viability; it is predominantly expressed in the head hypdodermis, neuronal support cells and CAN neurons. WormBase CDS description: homeobox protein (distal-less subfamily)
C30A5.7 C30A5.7 P W All gene names: unc-86; C30A5.7; 3J304; CE00098; CE00099; WBGene00006818; WP:CE00098; WP:CE00099 WormBase description: unc-86 encodes a transcription factor with a POU-type homeodomain that is required for correct fate determination and differentiaion in diverse neuronal lineages, including those of egg-laying neurons, mechanosensory neurons, and chemosensory interneurons; UNC-86 is orthologous to human BRN-3; UNC-86 is required for tph-1 and cat-1 expression in specific serotonergic neurons, as well as for neurite outgrowth. WormBase CDS description: Pou homeodomain
C33D12.1 C33D12.1 P W All gene names: ceh-31; C33D12.1; CE39566; NM_076124; WBGene00000452; WP:CE39566; XD686 WormBase description: ceh-31 encodes a protein containing a homeobox domain. WormBase CDS description: homeobox protein
C37E2.4 C37E2.4 P W All gene names: ceh-36; C37E2.4; CE08623; NM_077964; WBGene00000457; WP:CE08623; XO802 WormBase description: ceh-36 encodes a paired-like homeodomain transcription factor that is one of three orthodenticle (OTD)-like homeodomain proteins in C. elegans (the others being ttx-1 and ceh-37); CEH-36 is required broadly for specification of the AWC olfactory neuron and also for establishing the left-right asymmetry of the ASEL and ASER gustatory neurons; in addition, CEH-36 is sufficient to specify the AFD thermosensory neuron fate in some cell types; CEH-36 is expressed in the AWC and ASE chemosensory neurons. WormBase CDS description: Homeobox domain
C39E6.4 C39E6.4 P W All gene names: mls-2; C39E6.4; CE30891; NM_076414; WBGene00003377; WP:CE30891; XF378
C40H5.5 C40H5.5 P W All gene names: ttx-3; C40H5.5; CE27107; NM_077569; WBGene00006654; WP:CE27107; XM384 WormBase description: ttx-3 encodes a LIM homeodomain protein required for functions of the interneuron AIY, including thermosensory behavior and olfactory learning. WormBase CDS description: LIM domain containing proteins (2 domains), homeobox protein (lim subfamily)
D1007.1 D1007.1 P W All gene names: ceh-17; ceh-42; D1007.1; 1F138; CE09036; NM_058992; WBGene00000440; WP:CE09036 WormBase description: ceh-17 encodes a phox-2-like homeodomain protein that is a member of the Q50 paired-like class of homeobox proteins and the vertebrate orthologue of Phox2a and Phox2b; that affects ALA and SIA axonal development; ceh-17 affects ALA and SIA antero-posterior axonal growth and navigation, and is expressed in five neurons of the ring ganglia (ALA and the 4 SIAs) with strongest expression in embryos and in L1 stage larvae. WormBase CDS description: homeobox protein
F01D4.6 F01D4.6 P W All gene names: mec-3; F01D4.6; 4L224; CE27422; CE34792; NM_069530; WBGene00003167; WP:CE27422; WP:CE34792 WormBase description: mec-3 encodes a founding member of the LIM (Lin-11, Isl-1, Mec-3) homeodomain family of transcriptional regulators; during C. elegans development, MEC-3 activity is required for proper differentiation and maturation of the mechanosensory neurons; MEC-3 is expressed in the mechanosensory neurons, where initiation of expression is dependent upon the UNC-86 homeodomain protein and maintenance of expression is dependent upon MEC-3 itself and mec-17.
F26C11.2 F26C11.2 P W All gene names: ceh-4; unc-4; F26C11.2; 2K188; CE01560; NM_063737; UNC4_CAEEL; WBGene00006744; WP:CE01560 WormBase description: The unc-4 gene encodes a paired-class homeodomain protein with homologs in Drosophila and vertebrates; UNC-4 is required for establishing the identity of the A class motor neurons DA and VA, and is thus required for movement, axon guidance, and synapse formation; UNC-4 is negatively regulated by VAB-7, and UNC-4 activity requires UNC-37; unc-4 is expressed in the A-type motor neurons, DA and VA, the six VC motor neurons that innervate the vulval muscles, and the three SAB motor neurons; unc-4 is also expressed in the pharyngeal I5 motor neuron and the AVF neurons in the retrovesicular ganglion. WormBase CDS description: homeobox protein (otd subfamily)
F46C8.5 F46C8.5 P W All gene names: ceh-14; F46C8.5; CE28335; HM14_CAEEL; NM_076872; WBGene00000438; WP:CE28335; XI146 WormBase description: ceh-14 encodes a LIM homeodomain protein orthologous to Drosophila Lim3 and the vertebrate Lhx3 and Lhx4 proteins; ceh-14 is required for specification of the AFD thermosensory neurons and for normal thermotactic behavior; a ceh-14::GFP reporter fusion is expressed in head and tail neurons, including the AFD thermosensory neurons, during late embryonic, larval, and adult stages. Animals triply mutant for the LIM homeobox genes ceh-14, lin-11, and ttx-3 which are required for function of the AFD, AIZ, and AIY neurons, respectively, exhibit a basic cryophilic thermotaxis response suggesting that, in C. elegans, there is more than one pathway for integration of thermosensory input. WormBase CDS description: LIM homeobox protein
F55B12.1 F55B12.1 P W All gene names: ceh-24; F55B12.1; 5O295; CE25006; NM_074018; WBGene00000447; WP:CE25006 WormBase description: ceh-24 is orthologous to the human gene SIMILAR TO THYROID TRANSCRIPTION FACTOR 1 (TITF1; OMIM:600635), which when mutated leads to disease. WormBase CDS description: homeobox protein (NK-2 subfamily)
F56A12.1 F56A12.1 P W All gene names: ceh-35; mig-3; unc-39; F56A12.1; 5O855; CE37921; NM_074162; O17894_CAEEL; WBGene00006775; WP:CE37921 WormBase description: unc-39 encodes a homeodomain transcription factor that belongs to the Six4/5 family of homeodomain proteins that includes human Six5; UNC-39 is required for axonal pathfinding in anterior-derived neurons and for specification of most mesodermal cell types and may regulate a developmental decision between migration and differentiation; UNC-39 is expressed in the embryo in anterior neurons, posteriorly derived mesoderm (somatic gonad, M mesoblast, and possibly the coelomocytes and muIntR), the CAN neurons, and body wall muscle. WormBase CDS description: so class homeobox protein
F58E6.10 F58E6.10 P W All gene names: unc-42; F58E6.10; 5K244; CE39164; NM_073118; Q20455_CAEEL; WBGene00006778; WP:CE39164 WormBase description: unc-42 encodes a paired-like homeodomain protein of the Q50 class; UNC-42 is required to specify the fate of ASH sensory neurons, AVA, AVD, and AVE interneurons, and a subset of motor neurons; unc-42 mutants fail to express cell-surface receptors required for differentiated neuronal function (sra-6, srb-6, glr-1, glr-5, and glr-6); UNC-42 is also required for AVKR and HSNL growth cones to follow the PVPR and PVQL pioneer axons, for axonal outgrowth in the backward command interneurons AVA, AVD, and AVE, and for inhibition of ectopic FMRFamide-positive and GABAergic axons; unc-42 mutants are defective in mechanosensation, backward motion, and regulation of egg-laying. WormBase CDS description: Homeobox domain
K02B12.1 K02B12.1 P W All gene names: ceh-6; K02B12.1; 1J76; CE28045; NM_059903; WBGene00000431; WP:CE28045 WormBase description: ceh-6 encodes a POU family homeodomain protein, homologous to human POU3F4 (OMIM:304400, mutated in conductive deafness 3) that affects embryonic viability, locomotion, and molting, and that regulates ectodermal and excretory function; CEH-6 is expressed dynamically during development and expression includes neurons, the excretory cell, and ectodermal cells. WormBase CDS description: Homeobox domain, Pou domain - N-terminal to homeobox domain
R07B1.1 R07B1.1 P W All gene names: vab-15; R07B1.1; CE01626; MSX1; NM_077247; WBGene00006881; WP:CE01626; XK467 WormBase description: The vab-15 gene encodes a msh-like homeobox gene that appears required for production of touch cell precursors, and that is orthologous to the human gene MSH HOMEO BOX HOMOLOG 1 (MSX1; OMIM:142983) which when mutated leads to disease. WormBase CDS description: homeobox protein (msh subfamily)
R08B4.2 R08B4.2 P W All gene names: alr-1; sns-10; R08B4.2; CE03536; WBGene00011138; WBGene00044330; WP:CE03536; XL742 WormBase description: homeobox protein (otd subfamily)
T13C5.4 T13C5.4 P W All gene names: T13C5.4; CE04945; Q22459_CAEEL; WBGene00020485; WP:CE04945; XG806 WormBase description: T13C5.4 encodes a paired-like homeodomain protein of the Q50 class, which has no obvious function in mass RNAi assays. WormBase CDS description: homeobox protein
T26C11.5 T26C11.5 P W All gene names: ceh-41; T26C11.5; CE05024; NM_075939; WBGene00000462; WP:CE05024; XC466 WormBase description: ceh-41 encodes a a ONECUT class CUT homeobox protein with a single N-terminal OCAM domain; the OCAM domain is a nematode-specific motif conserved between CEH-21, CEH-41, and T02B5.2; ceh-41 is one of three nematode-specific ONECUT genes in a cluster with ceh-21 and ceh-39; ceh-41 has no obvious function in mass RNAi assays. WormBase CDS description: paired-type homeobox protein
T26C11.7 T26C11.7 P W All gene names: ceh-39; T26C11.7; CE05026; NM_075941; WBGene00000460; WP:CE05026; XC474 WormBase description: ceh-39 encodes a a ONECUT class CUT homeobox protein with a single N-terminal cut domain; CEH-39 acts as an X-signal element (XSE) to affect sex determination; the cut domain may be a compact DNA-binding domain composed of alpha helices; ceh-39 is one of three nematode-specific ONECUT genes in a cluster with ceh-21 and ceh-41. WormBase CDS description: homeobox
W03A3.1 W03A3.1 P W All gene names: ceh-10; mig-11; W03A3.1; 3G889; CE07563; NM_065850; WBGene00000435; WP:CE07563 WormBase description: ceh-10 encodes a member of the Paired-like class of homeodomain proteins; the CEH-10 homeodomain is closely related to the homeodomains of two vertebrate retina proteins (Chx10 from mice and Vsx-1 from goldfish); ceh-10 is required for CAN cell fate specification and migration, complete loss of ceh-10 function results in failure of CAN cell migration and loss of expression of CEH-23 and CEH-10 itself in the CAN and AIY interneurons; CEH-10, along with TTX-3 and CEH-23, constitutes a regulatory cascade of transcription factors that controls all sub-type specific features of the AIY interneurons.
W05E10.3 W05E10.3 P W All gene names: ceh-32; W05E10.3; 5M182; CE29364; NM_073557; WBGene00000453; WP:CE29364 WormBase description: ceh-32 encodes a Six/sine oculis-type homeodomain protein most closely related to the Six3/6 subfamily that contains Drosophila OPTIX and human SIX3 (OMIM:603714, which when mutated leads to holoprosencephaly 2); CEH-32 appears to be essential for development and required for proper head morphogenesis; during embryogenesis, CEH-32 is expressed in hypodermal and neuronal precursors, and at later stages, in the descendants of these cells and in gonadal sheath cells; in some hypodermal cells, ceh-32 is a direct transcriptional target of VAB-3, a PAX-6 ortholog sufficient to induce ceh-32 expression in some cell types and able to bind the ceh-32 promoter in vitro. WormBase CDS description: homeobox protein (so subfamily)
W06A7.3 W06A7.3 P W All gene names: RTNL-A1; RTNL-A2; RTNL-B1; RTNL-B2; RTNL-C; ret-1; W06A7.3; 5P310; CE14668; CE21262; CE21263; CE35913; CE35914; CE41034; NM_074255; NM_074256; NM_074257; Q23187_CAEEL; WBGene00004336; WP:CE14668; WP:CE21262; WP:CE21263; WP:CE35913; WP:CE35914; WP:CE41034; rtn WormBase description: histone H4 protein like
Y113G7A.6 Y113G7A.6 P W All gene names: ttx-1; Y113G7A.6; 5U524; CE31090; CE31091; Q9U2Z0_CAEEL; WBGene00006652; WP:CE31090; WP:CE31091
Y54F10AM.4 Y54F10AM.4 P W All gene names: ceh-44; Y54F10AM.4; 3D635; CE27288; CE32987; CE32988; NM_065174; NM_065175; NM_065176; WBGene00000464; WP:CE27288; WP:CE32987; WP:CE32988 WormBase description: ceh-44 encodes at least three proteins via alternative splicing; the CEH-44A protein is an ortholog of the CUX class of CUT homeodomain proteins, expressed in early embryos (mostly anterior in the comma stage), in the larval nerve ring and the adult gonad; the CUX class includes Drosophila CUT, human CUTL1 and human CUTL2; ceh-44 is a complex gene, in which two alternatively spliced protein products completely lack the homeodomain, and instead resemble vertebrate CASP proteins; CASP proteins are also found in plants and fungi (though not associated with homeodomains); like its orthologs, CEH-44A has three N-terminal cut domains in addition to a C-terminal CUT homeodomain; the cut domain may be a compact DNA-binding domain composed of alpha helices.
ZC123.3 ZC123.3 P W All gene names: ZC123.3; 1B307; CE28153; WBGene00022518; WP:CE28153 WormBase description: zinc finger protein
ZC247.3 ZC247.3 P W All gene names: lin-11; ZC247.3; 1K831; CE15150; NM_060295; WBGene00003000; WP:CE15150 WormBase description: lin-11 encodes a predicted LIM homeodomain transcription factor that affects vulval development, neuronal development and fate specification, utse cell differentiation, and fertility; it is expressed in some neurons, the vulva, pi cells and their progeny, and the spermatheca. WormBase CDS description: LIM domain containing proteins (2 domains), homeobox protein (lim subfamily)
ZC64.3 ZC64.3 P W All gene names: ceh-18; ZC64.3; CE25674; CE31263; CE33743; NM_171659; WBGene00000441; WP:CE25674; WP:CE31263; WP:CE33743; XE462 WormBase description: ceh-18 encodes a POU-class homeodomain transcription factor; CEH-18 is required in hermaphrodites for specific aspects of gonadal sheath cell differentiation, such as normal cell shape and position, that are essential for negative regulation of oocyte meiotic maturation by the sheath cells; in this process, CEH-18 functions in parallel with the VAB-1/Ephrin receptor as part of a sperm-sensing checkpoint mechanism that prevents oocyte maturation, MAPK activation, and ovulation in the absence of sperm; CEH-18 is expressed in the sheath cell nuclei beginning at the L4 larval stage