WormBase Tree Display for Gene: WBGene00004335
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| WBGene00004335 | Evidence | Paper_evidence | WBPaper00005355 | ||||||
|---|---|---|---|---|---|---|---|---|---|
| SMap | S_parent | Sequence | C47C12 | ||||||
| Identity | Version | 1 | |||||||
| Name | CGC_name | ref-2 | Person_evidence | WBPerson1157 | |||||
| Sequence_name | C47C12.3 | ||||||||
| Molecular_name | C47C12.3a | ||||||||
| C47C12.3a.1 | |||||||||
| CE33037 | |||||||||
| C47C12.3b | |||||||||
| CE35437 | |||||||||
| C47C12.3b.1 | |||||||||
| Other_name | CELE_C47C12.3 | Accession_evidence | NDB | BX284606 | |||||
| Public_name | ref-2 | ||||||||
| DB_info | Database (11) | ||||||||
| Species | Caenorhabditis elegans | ||||||||
| History | Version_change | 1 | 07 Apr 2004 11:29:35 | WBPerson1971 | Event | Imported | Initial conversion from geneace | ||
| Status | Live | ||||||||
| Gene_info | Biotype | SO:0001217 | |||||||
| Gene_class | ref | ||||||||
| Allele (96) | |||||||||
| Strain | WBStrain00035344 | ||||||||
| WBStrain00035345 | |||||||||
| WBStrain00035346 | |||||||||
| WBStrain00029494 | |||||||||
| WBStrain00035690 | |||||||||
| WBStrain00004835 | |||||||||
| WBStrain00047155 | |||||||||
| RNASeq_FPKM (74) | |||||||||
| GO_annotation (23) | |||||||||
| Ortholog (66) | |||||||||
| Paralog | WBGene00006604 | Caenorhabditis elegans | From_analysis | Panther | |||||
| WormBase-Compara | |||||||||
| WBGene00010936 | Caenorhabditis elegans | From_analysis | WormBase-Compara | ||||||
| Structured_description | Concise_description | ref-2 encodes a zinc-finger transcription factor of the Opa/Zic family and is similar to the human proteins ZIC1 and ZIC2 (zinc finger protein of cerebellum 1/2); ref-2 in elegans is required for both the generation of the Pn.p ventral epideraml cells, and to maintain them in an unfused state, in both hermaphrodites and males, so that sex-specifc structures can be formed; ref-2 is also required for initiating the differentiation of the cholinergic neuron AIY, and along with ref-1 and nxf-1, for regulating the female fate during sexual development, by preventing tra-2 mRNA export from the nucleus; ref-2 is expressed in several neuronal precursors in the embryo. | Paper_evidence | WBPaper00005355 | |||||
| WBPaper00033076 | |||||||||
| WBPaper00013477 | |||||||||
| Curator_confirmed | WBPerson324 | ||||||||
| WBPerson1823 | |||||||||
| WBPerson567 | |||||||||
| Date_last_updated | 09 Sep 2013 00:00:00 | ||||||||
| Automated_description | Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity and RNA polymerase II-specific DNA-binding transcription factor binding activity. Involved in several processes, including neuron fate specification; positive regulation of transcription by RNA polymerase II; and regulation of cell division. Acts upstream of or within with a positive effect on nematode larval development. Located in nucleus. Expressed in several structures, including IL1 neuron; P3.p male; neuroblasts; rectal epithelial cell; and ventral nerve cord. Human ortholog(s) of this gene implicated in several diseases, including Dandy-Walker syndrome; X-linked VACTERL association; and holoprosencephaly 5. Is an ortholog of several human genes including ZIC1 (Zic family member 1); ZIC2 (Zic family member 2); and ZIC3 (Zic family member 3). | 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:2340 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12872) | ||||
| DOID:0111766 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12874) | ||||||
| DOID:0050545 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12874) | ||||||
| DOID:758 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12874) | ||||||
| DOID:0110878 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12873) | ||||||
| DOID:4621 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12873) | ||||||
| DOID:2785 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:12872) | ||||||
| Disease_relevance | In humans, the Zic family of proteins that include Zic1, Zic2, Zic3, Zic4, are involved in developmental programs, including development of the neurons; mutations in Zic2 have been associated with malformations of the brain like Holoprosencephaly-5 and those in Zic4 have been linked to congenital heart defects; in vertebrates inactivation of both Zic1 and Zic3 genes reduces the number of cholinergic neurons involved in memory formation, similar to the requirement for ref-2 in elegans for the development of the cholinergic AIY neuron. | Homo sapiens | Paper_evidence | WBPaper00033076 | |||||
| Accession_evidence | OMIM | 609637 | |||||||
| 306955 | |||||||||
| 600470 | |||||||||
| 603073 | |||||||||
| 300265 | |||||||||
| 608948 | |||||||||
| Curator_confirmed | WBPerson324 | ||||||||
| Date_last_updated | 11 Sep 2013 00:00:00 | ||||||||
| Molecular_info | Corresponding_CDS | C47C12.3a | |||||||
| C47C12.3b | |||||||||
| Corresponding_CDS_history | C47C12.3:wp92 | ||||||||
| Corresponding_transcript | C47C12.3a.1 | ||||||||
| C47C12.3b.1 | |||||||||
| Other_sequence (11) | |||||||||
| Associated_feature | WBsf648328 | ||||||||
| WBsf662997 | |||||||||
| WBsf662998 | |||||||||
| WBsf662999 | |||||||||
| WBsf978323 | |||||||||
| WBsf1005940 | |||||||||
| WBsf235971 | |||||||||
| WBsf235972 | |||||||||
| Gene_product_binds | WBsf047535 | ||||||||
| WBsf047536 | |||||||||
| Transcription_factor | WBTranscriptionFactor000131 | ||||||||
| Experimental_info | RNAi_result (12) | ||||||||
| Expr_pattern (18) | |||||||||
| Drives_construct (13) | |||||||||
| Construct_product | WBCnstr00001044 | ||||||||
| WBCnstr00001045 | |||||||||
| WBCnstr00006617 | |||||||||
| WBCnstr00013386 | |||||||||
| WBCnstr00016558 | |||||||||
| WBCnstr00021755 | |||||||||
| WBCnstr00035559 | |||||||||
| Antibody | WBAntibody00000531 | ||||||||
| Microarray_results (28) | |||||||||
| Expression_cluster (154) | |||||||||
| Interaction (69) | |||||||||
| Map_info | Map | X | Position | -1.31436 | Error | 0.007954 | |||
| Positive | Positive_clone | C47C12 | Inferred_automatically | From CDS info | |||||
| From sequence, transcript, pseudogene data | |||||||||
| Mapping_data | Multi_point | 4631 | |||||||
| 5526 | |||||||||
| Pseudo_map_position | |||||||||
| Reference (16) | |||||||||
| Remark | 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 | |||||||
| WBPaper00013477 cites ref-2, but the CGC approved gene name is aly-2 (WBGene00000121) | Paper_evidence | WBPaper00013477 | |||||||
| Method | Gene |
