runx2b RUNX family transcription factor 2b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: runx2bprovided by ZNC
Official Full Name: RUNX family transcription factor 2bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040629-4
See related: Ensembl:ENSDARG00000059233 AllianceGenome:ZFIN:ZDB-GENE-040629-4
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary: Enables DNA-binding transcription factor activity and vitamin D receptor binding activity. Acts upstream of or within chondrocyte differentiation; dorsal/ventral pattern formation; and positive regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in several structures, including EVL; cranium; fin; osteoblast; and pharyngeal arch. Human ortholog(s) of this gene implicated in cleidocranial dysplasia and metaphyseal dysplasia-maxillary hypoplasia-brachydacty syndrome. Orthologous to human RUNX2 (RUNX family transcription factor 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 20

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	20	NC_007131.7 (43991810..44091325, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	20	NC_007131.6 (44095936..44211757, complement)

Chromosome 20 - NC_007131.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Effect of runx2b deficiency in intermuscular bones on the regulatory network of lncRNA-miRNA-mRNA.
Title: Effect of runx2b deficiency in intermuscular bones on the regulatory network of lncRNA-miRNA-mRNA.
twist1a and twist1b control skeletal development and dorsoventral patterning by regulating runx2b in zebrafish
Title: Twist controls skeletal development and dorsoventral patterning by regulating runx2 in zebrafish.
Runx2 may have an evolutionarily conserved role in axis formation
Title: Osteogenic transcription factor Runx2 is a maternal determinant of dorsoventral patterning in zebrafish.
A pebp2alphaA-like transcript of the runx2b gene was cloned; there is a binding element for it in the osteocalcin promoter.
Title: Identification of a new pebp2alphaA2 isoform from zebrafish runx2 capable of inducing osteocalcin gene expression in vitro.
quantitative data on the kinetics of gene expression is presented; new splice forms reported
Title: Identification and characterisation of two runx2 homologues in zebrafish with different expression patterns.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear vitamin D receptor binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chondrocyte differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chondrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in epithelium development	IEA Inferred from Electronic Annotation more info
involved_in hemopoiesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in ossification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of developmental process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: runt-related transcription factor 2b

Names: transcription factor Runx2

NCBI Reference Sequences (RefSeq)

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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_212862.2 → NP_998027.2 runt-related transcription factor 2b

Status: VALIDATED

Source sequence(s)

BX510352, CT025881

UniProtKB/TrEMBL

A0A8M1PMM2

Related

ENSDARP00000048977.7, ENSDART00000048978.8

Conserved Domains (2) summary

pfam00853
Location:71 → 192

Runt; Runt domain

pfam08504
Location:370 → 464

RunxI; Runx inhibition domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007131.7 Reference GRCz11 Primary Assembly

Range

43991810..44091325 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021468385.1 → XP_021324060.1 runt-related transcription factor 2b isoform X1

UniProtKB/TrEMBL

A0A8M9PSK4

Conserved Domains (1) summary

pfam00853
Location:71 → 192

Runt; Runt domain