pbx1a pre-B-cell leukemia homeobox 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pbx1aprovided by ZNC
Official Full Name: pre-B-cell leukemia homeobox 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-000405-1
See related: Ensembl:ENSDARG00000100494 AllianceGenome:ZFIN:ZDB-GENE-000405-1
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
Also known as: pbx1b; fi29e01; zgc:55265; wu:fi29e01
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within hemopoiesis; swim bladder morphogenesis; and vasculature development. Predicted to be located in nucleus. Is expressed in several structures, including central nervous system; head; pleuroperitoneal region; presumptive swim bladder; and swim bladder bud. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma. Orthologous to human PBX1 (PBX homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 2

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (18702184..18830801, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (19052893..19181738, complement)

Chromosome 2 - NC_007113.7 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?

findings suggest that pbx1 may be required during the late stage of swim bladder development
Title: Pbx1 is essential for growth of zebrafish swim bladder.

Submit: New GeneRIF Correction

General gene information

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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	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	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in animal organ morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within definitive hemopoiesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic organ development	IBA Inferred from Biological aspect of Ancestor more info
involved_in eye development	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neutrophil differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within swim bladder morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within vasculature 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

General protein information

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Preferred Names: pre-B-cell leukemia homeobox 1a

Names: pre-B-cell leukemia transcription factor 1a; pre-B-cell leukemia transcription factor 1b

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_131614.1 → NP_571689.1 pre-B-cell leukemia homeobox 1a isoform 1

See identical proteins and their annotated locations for NP_571689.1

Status: PROVISIONAL

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AJ245962

UniProtKB/TrEMBL

A0A0R4IVS4, A2VD48, Q6NYV6, Q9I9B7

Related

ENSDARP00000138945.1, ENSDART00000165698.2

Conserved Domains (2) summary

cd00086
Location:233 → 293

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.

pfam03792
Location:39 → 231

PBC; PBC domain
NM_131615.1 → NP_571690.1 pre-B-cell leukemia homeobox 1a isoform 2

See identical proteins and their annotated locations for NP_571690.1

Status: PROVISIONAL

Description

Transcript Variant: This variant (2) lacks an alternate exon in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

AJ245963

UniProtKB/TrEMBL

A0A8M1PCE8, Q9I9B6

Related

ENSDARP00000136221.1, ENSDART00000165330.2

Conserved Domains (2) summary

cd00086
Location:233 → 293

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.

pfam03792
Location:39 → 231

PBC; PBC domain