WormBase Tree Display for Gene: WBGene00000464
expand all nodes | collapse all nodes | view schema
WBGene00000464 | SMap | S_parent | Sequence | Y54F10AM | |||||
---|---|---|---|---|---|---|---|---|---|
Identity | Version | 2 | |||||||
Name | CGC_name | ceh-44 | Person_evidence | WBPerson83 | |||||
Sequence_name | Y54F10AM.4 | ||||||||
Molecular_name | Y54F10AM.4 | ||||||||
Y54F10AM.4.1 | |||||||||
CE27288 | |||||||||
Other_name | cone-1 | Person_evidence | WBPerson260 | ||||||
Laboratory_evidence | OH | ||||||||
Remark | cone-1 is the gene name from transcripts b and c, as these form a gene fuctionally distinct from the a transcript | ||||||||
CELE_Y54F10AM.4 | Accession_evidence | NDB | BX284603 | ||||||
Public_name | ceh-44 | ||||||||
DB_info | Database | AceView | gene | 3D635 | |||||
WormQTL | gene | WBGene00000464 | |||||||
WormFlux | gene | WBGene00000464 | |||||||
NDB | locus_tag | CELE_Y54F10AM.4 | |||||||
Panther | gene | CAEEL|WormBase=WBGene00000464|UniProtKB=Q9BL02 | |||||||
family | PTHR14043 | ||||||||
NCBI | gene | 80510351 | |||||||
RefSeq | protein | NM_065175.9 | |||||||
SwissProt | UniProtAcc | Q9BL02 | |||||||
UniProt_GCRP | UniProtAcc | Q9BL02 | |||||||
OMIM | gene | 610648 | |||||||
Species | Caenorhabditis elegans | ||||||||
History | Version_change | 1 | 07 Apr 2004 11:29:20 | WBPerson1971 | Event | Imported | Initial conversion from geneace | ||
2 | 04 Jan 2022 01:23:28 | WBPerson1983 | Event | Split_into | WBGene00306126 | ||||
Split_into | WBGene00306126 | ||||||||
Status | Live | ||||||||
Gene_info | Biotype | SO:0001217 | |||||||
Gene_class | ceh | ||||||||
Allele (353) | |||||||||
Strain (13) | |||||||||
RNASeq_FPKM (74) | |||||||||
GO_annotation (15) | |||||||||
Contained_in_operon | CEOP3078 | ||||||||
Ortholog (42) | |||||||||
Paralog | WBGene00000444 | Caenorhabditis elegans | From_analysis | TreeFam | |||||
WBGene00000459 | Caenorhabditis elegans | From_analysis | TreeFam | ||||||
WBGene00000460 | Caenorhabditis elegans | From_analysis | TreeFam | ||||||
WBGene00306126 | Caenorhabditis elegans | From_analysis | WormBase-Compara | ||||||
Structured_description | Concise_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 cut domain, and instead form a different protein, CASP; in vertebrates, this alternative splicing also occurs, while in Drosophila Casp as been lost; CASP proteins are also found in plants and fungi (though not associated with homeodomains); like its orthologs, CEH-44A has three cut domains upstream of the homeodomain; the cut domain is a DNA binding domain. | Paper_evidence | WBPaper00005164 | |||||
WBPaper00005654 | |||||||||
Person_evidence | WBPerson83 | ||||||||
Curator_confirmed | WBPerson13481 | ||||||||
WBPerson1843 | |||||||||
Date_last_updated | 26 Jun 2011 00:00:00 | ||||||||
Automated_description | Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Expressed in head muscle; neurons; and somatic nervous system. Human ortholog(s) of this gene implicated in several diseases, including developmental and epileptic encephalopathy 67; gastrointestinal system cancer (multiple); and insulinoma. Is an ortholog of human CUX2 (cut like homeobox 2). | Paper_evidence | WBPaper00065943 | ||||||
Curator_confirmed | WBPerson324 | ||||||||
WBPerson37462 | |||||||||
Inferred_automatically | This description was generated automatically by a script based on data from the WS291 version of WormBase | ||||||||
Date_last_updated | 29 Nov 2023 00:00:00 | ||||||||
Disease_info | Potential_model | DOID:3892 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:2557) | ||||
DOID:3908 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:2557) | ||||||
DOID:10534 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:2557) | ||||||
DOID:684 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:2557) | ||||||
DOID:0112203 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:19347) | ||||||
Molecular_info | Corresponding_CDS | Y54F10AM.4 | |||||||
Corresponding_CDS_history | Y54F10AM.4b:wp91 | ||||||||
Y54F10AM.4b:wp283 | |||||||||
Y54F10AM.4c:wp283 | |||||||||
Corresponding_transcript | Y54F10AM.4.1 | ||||||||
Associated_feature (21) | |||||||||
Transcription_factor | WBTranscriptionFactor000292 | ||||||||
Experimental_info | RNAi_result | WBRNAi00106736 | Inferred_automatically | RNAi_primary | |||||
WBRNAi00057401 | Inferred_automatically | RNAi_primary | |||||||
WBRNAi00107381 | Inferred_automatically | RNAi_primary | |||||||
Expr_pattern (11) | |||||||||
Drives_construct | WBCnstr00002360 | ||||||||
WBCnstr00002361 | |||||||||
WBCnstr00002788 | |||||||||
WBCnstr00012875 | |||||||||
Microarray_results (16) | |||||||||
Expression_cluster (141) | |||||||||
SAGE_tag (15) | |||||||||
Interaction (58) | |||||||||
Map_info | Map | III | Position | -12.9684 | Error | 0.140862 | |||
Positive | Positive_clone | Y54F10AM | Inferred_automatically | From CDS info | |||||
From sequence, transcript, pseudogene data | |||||||||
Mapping_data | Multi_point | 4306 | |||||||
4846 | |||||||||
4812 | |||||||||
Pseudo_map_position | |||||||||
Reference (16) | |||||||||
Remark | Sequence connection from [Pujol N]. krb 13/11/01 | ||||||||
Map position created from combination of previous interpolated map position (based on known location of sequence) and allele information. Therefore this is not a genetic map position based on recombination frequencies or genetic experiments. This was done on advice of the CGC. | CGC_data_submission | ||||||||
ceh-44 had 3 isoforms, a,b and c. Only the a isoform is a homeobox gene (hence ceh-44) - i.e. only the a-isoform specific exons have the CUT and homeodomain thats the key feature of this protein. The b and c isoforms are a functionally TOTALLY different protein - a Golgi associated protein called CASP. This gene structure is conserved in vertebrates (and it is in vertebrates where this protein has been shown to be a Golgi protein). Thomas Burglin has written about this. See Fig.6 in Burglin et al Int. J. Dev. Biol. 46: 115-123 (2002) Loss and gain of domains during evolution of cut superclass homeobox genes. I would like to argue to call the b and c isoforms (Y54F10AM.4b and Y54F10AM.4c) = cone-1. Decided to rename these Isoforms to have a unique WBGene accession and a new sequence name Y54F10AM.16. | Person_evidence | WBPerson260 | |||||||
Curator_confirmed | WBPerson1983 | ||||||||
Method | Gene |