Habp4 hyaluronan binding protein 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Habp4provided by RGD
Official Full Name: hyaluronan binding protein 4provided by RGD
Primary source: RGD:1306486
See related: Ensembl:ENSRNOG00000019027 AllianceGenome:RGD:1306486
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
Also known as: IHABP4; IHABP-4
Summary: Predicted to enable RNA binding activity and SUMO binding activity. Involved in cellular response to mechanical stimulus. Located in nucleus and sarcomere. Orthologous to human HABP4 (hyaluronan binding protein 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 271.9), Heart (RPKM 242.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17p14

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (940672..963358, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (934931..957604, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (1679561..1702245)

Chromosome 17 - NC_086035.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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
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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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables SUMO binding	ISO Inferred from Sequence Orthology more info
enables SUMO binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribosome binding	ISS Inferred from Sequence or Structural Similarity more info
enables translation elongation factor binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in PML body organization	ISO Inferred from Sequence Orthology more info
involved_in PML body organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cellular response to mechanical stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of RNA splicing	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of RNA splicing	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of RNA splicing	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of translational initiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of translational initiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translational initiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in ribosome hibernation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Cajal body	ISO Inferred from Sequence Orthology more info
located_in Cajal body	ISS Inferred from Sequence or Structural Similarity more info
located_in Gemini of coiled bodies	ISO Inferred from Sequence Orthology more info
located_in Gemini of coiled bodies	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in sarcomere	IDA Inferred from Direct Assay more info	PubMed
located_in sarcoplasm	IEA Inferred from Electronic Annotation more info
is_active_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: intracellular hyaluronan-binding protein 4

Names: hyaluronic acid binding protein 4; ki-1/57 intracellular antigen

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_001079940.1 → NP_001073409.1 intracellular hyaluronan-binding protein 4

See identical proteins and their annotated locations for NP_001073409.1

Status: PROVISIONAL

Source sequence(s)

BC129111

UniProtKB/Swiss-Prot

A1L1K8

Related

ENSRNOP00000025801.4, ENSRNOT00000025801.7

Conserved Domains (2) summary

pfam04774
Location:211 → 314

HABP4_PAI-RBP1; Hyaluronan / mRNA binding family

pfam16174
Location:16 → 162

IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal

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_086035.1 Reference GRCr8

Range

940672..963358 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006253494.5 → XP_006253556.1 intracellular hyaluronan-binding protein 4 isoform X1

Conserved Domains (2) summary

pfam04774
Location:175 → 261

HABP4_PAI-RBP1; Hyaluronan / mRNA binding family

pfam16174
Location:16 → 130

IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal