six7 SIX homeobox 7 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: six7provided by ZNC
Official Full Name: SIX homeobox 7provided by ZNC
Primary source: ZFIN:ZDB-GENE-990825-28
See related: Ensembl:ENSDARG00000070107 AllianceGenome:ZFIN:ZDB-GENE-990825-28
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary: Enables double-stranded DNA binding activity. Involved in gene expression. Acts upstream of or within compound eye photoreceptor cell differentiation; embryonic camera-type eye morphogenesis; and retinal cone cell development. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in eye and forebrain. Orthologous to human ANHX (anomalous homeobox). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 7

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (7401692..7420186, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (7168323..7186817, complement)

Chromosome 7 - NC_007118.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Six6b and six7 govern expression of the SWS2 and RH2 opsins responsible for middle-wavelength sensitivity.
Title: Six6 and Six7 coordinately regulate expression of middle-wavelength opsins in zebrafish.
data add six7 to the small but growing list of essential genes for specification and patterning of photoreceptors in non-mammalian vertebrates, and highlight alterations in transcriptional regulation as a source of photoreceptor variation across species
Title: Genetic Dissection of Dual Roles for the Transcription Factor six7 in Photoreceptor Development and Patterning in Zebrafish.
This study found that sine oculis homeobox homolog 7 (six7), a transcription factor widely conserved in ray-finned fish, is expressed predominantly in the cone photoreceptors in zebrafish at both the larval and the adult stages.
Title: Homeobox transcription factor Six7 governs expression of green opsin genes in zebrafish.
six3b and six7 are required during early segmentation for specification of ventral progenitors, similar to the role of Hedgehog (Hh) signaling in telencephalon development.
Title: Six3 cooperates with Hedgehog signaling to specify ventral telencephalon by promoting early expression of Foxg1a and repressing Wnt signaling.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

six7 (e-PCR), detects polymorphism
- UniSTS:205505

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	TAS Traceable Author Statement more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within compound eye photoreceptor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic camera-type eye morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in eye development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within eye development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in gene expression	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within retinal cone cell development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: SIX homeobox 7

Names: sine oculis homeobox homolog 7

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_131354.2 → NP_571429.1 SIX homeobox 7

See identical proteins and their annotated locations for NP_571429.1

Status: PROVISIONAL

Source sequence(s)

BC064701

UniProtKB/TrEMBL

O93282, Q6P273

Related

ENSDARP00000093395.4, ENSDART00000102620.6

Conserved Domains (2) summary

cd00086
Location:130 → 184

homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

pfam16878
Location:7 → 122

SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain