Hapln4 hyaluronan and proteoglycan link protein 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hapln4provided by RGD
Full Name: hyaluronan and proteoglycan link protein 4provided by RGD
Primary source: RGD:1308408
See related: AllianceGenome:RGD:1308408
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 be a structural constituent of synapse-associated extracellular matrix. Predicted to be involved in GABAergic synaptic transmission; nervous system development; and skeletal system development. Predicted to be active in extracellular space; perineuronal net; and synapse. Orthologous to human HAPLN4 (hyaluronan and proteoglycan link protein 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 68.9), Thymus (RPKM 7.5) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 16p14

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (19367041..19375173, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (19333106..19341243, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (21081377..21089508, complement)

Chromosome 16 - NC_086034.1 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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Markers

RH136800 (e-PCR)
- UniSTS:218889

RH135317 (e-PCR)
- UniSTS:218594

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables hyaluronic acid binding	IEA Inferred from Electronic Annotation more info
enables structural constituent of synapse-associated extracellular matrix	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in inhibitory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic transmission, GABAergic	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
is_active_in perineuronal net	IBA Inferred from Biological aspect of Ancestor more info
located_in perineuronal net	ISO Inferred from Sequence Orthology more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: hyaluronan and proteoglycan link protein 4

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_001108398.1 → NP_001101868.1 hyaluronan and proteoglycan link protein 4 precursor

See identical proteins and their annotated locations for NP_001101868.1

Status: PROVISIONAL

Source sequence(s)

CH474031

UniProtKB/TrEMBL

A6KA91, D3Z9H2

Conserved Domains (4) summary

cd03519
Location:272 → 362

Link_domain_HAPLN_module_2; this link domain is found in the second link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two ...

cd00096
Location:51 → 54

Ig; Ig strand A [structural motif]

cl02612
Location:164 → 265

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl11960
Location:51 → 166

Ig; Immunoglobulin domain