Pbxip1 PBX homeobox interacting protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pbxip1provided by RGD
Official Full Name: PBX homeobox interacting protein 1provided by RGD
Primary source: RGD:1305180
See related: EnsemblRapid:ENSRNOG00000020673 AllianceGenome:RGD:1305180
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable DNA-binding transcription factor binding activity; transcription coactivator activity; and transcription corepressor activity. Predicted to be involved in hemopoiesis and negative regulation of DNA-templated transcription. Predicted to act upstream of or within several processes, including articular cartilage development; extracellular matrix organization; and positive regulation of chondrocyte proliferation. Predicted to be located in chromatin; cytosol; and nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human PBXIP1 (PBX homeobox interacting protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 483.6), Heart (RPKM 475.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (177154056..177167810)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (174856339..174868922)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (188763887..188776445)

Chromosome 2 - NC_086020.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AW520822 (e-PCR)
- UniSTS:249353

RH143526 (e-PCR)
- UniSTS:232772

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription corepressor activity	IEA Inferred from Electronic Annotation more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in articular cartilage development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within articular cartilage development	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell migration	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix disassembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within extracellular matrix disassembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
involved_in gene expression involved in extracellular matrix organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within gene expression involved in extracellular matrix organization	ISO Inferred from Sequence Orthology more info
involved_in hemopoiesis	IEA Inferred from Electronic Annotation more info
involved_in hemopoiesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chondrocyte proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of chondrocyte proliferation	ISO Inferred from Sequence Orthology more info
involved_in production of molecular mediator involved in inflammatory response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within production of molecular mediator involved in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in chromatin	IEA Inferred from Electronic Annotation more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: pre-B-cell leukemia transcription factor-interacting protein 1

Names: hematopoietic PBX-interacting protein; pre-B-cell leukemia homeobox interacting protein 1

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_001100976.1 → NP_001094446.1 pre-B-cell leukemia transcription factor-interacting protein 1

See identical proteins and their annotated locations for NP_001094446.1

Status: PROVISIONAL

Source sequence(s)

BC129100

UniProtKB/Swiss-Prot

A2VD12

UniProtKB/TrEMBL

A0A8I5Y678

Related

ENSRNOP00000028058.3, ENSRNOT00000028057.6

Conserved Domains (1) summary

pfam06156
Location:267 → 338

DUF972; Protein of unknown function (DUF972)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

177154056..177167810

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102340.2 → XP_038958268.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X3

UniProtKB/TrEMBL

A0A8I5Y678
XM_006232668.4 → XP_006232730.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X1

UniProtKB/TrEMBL

A0A8I5Y678

Conserved Domains (1) summary

pfam06156
Location:274 → 345

DUF972; Protein of unknown function (DUF972)
XM_006232669.4 → XP_006232731.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X2

See identical proteins and their annotated locations for XP_006232731.1

UniProtKB/Swiss-Prot

A2VD12

UniProtKB/TrEMBL

A0A8I5Y678

Conserved Domains (1) summary

pfam06156
Location:267 → 338

DUF972; Protein of unknown function (DUF972)
XM_063281867.1 → XP_063137937.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X4

Related

ENSRNOP00000097438.2, ENSRNOT00000117095.2
XM_063281864.1 → XP_063137934.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X1
XM_063281866.1 → XP_063137936.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X2

UniProtKB/Swiss-Prot

A2VD12
XM_063281865.1 → XP_063137935.1 pre-B-cell leukemia transcription factor-interacting protein 1 isoform X2

UniProtKB/Swiss-Prot

A2VD12