prg4a proteoglycan 4a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: prg4aprovided by ZNC
Official Full Name: proteoglycan 4aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-8295
See related: Ensembl:ENSDARG00000010482 AllianceGenome:ZFIN:ZDB-GENE-030131-8295
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
Also known as: fb08a02; zgc:56698; wu:fb08a02; wu:fk21a06; CH1073-202I11.1
Summary: Predicted to enable polysaccharide binding activity and scavenger receptor activity. Predicted to act upstream of or within immune response. Predicted to be located in extracellular region. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in caudal fin. Human ortholog(s) of this gene implicated in camptodactyly-arthropathy-coxa vara-pericarditis syndrome and pericarditis. Orthologous to human PRG4 (proteoglycan 4). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 2

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (20793955..20812063)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (21135911..21153998)

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:

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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?

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General gene information

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Markers

Cr2 (e-PCR), detects polymorphism
- UniSTS:141392

fk35e07.y1 (e-PCR)
- UniSTS:200892

fk21a06.y1 (e-PCR)
- UniSTS:200650

fb08a02.x1 (e-PCR)
- UniSTS:202747

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables polysaccharide binding	IEA Inferred from Electronic Annotation more info
enables scavenger receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within immune response	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: proteoglycan 4; proteoglycan 4a

Names: articular superficial zone protein; megakaryocyte stimulating factor

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_212753.2 → NP_997918.2 proteoglycan 4a precursor

See identical proteins and their annotated locations for NP_997918.2

Status: VALIDATED

Source sequence(s)

CU638698

UniProtKB/TrEMBL

A0A8M1PHS8, B8JMI5

Related

ENSDARP00000012078.6, ENSDART00000014785.8

Conserved Domains (3) summary

smart00201
Location:23 → 65

SO; Somatomedin B -like domains

pfam01033
Location:65 → 101

Somatomedin_B; Somatomedin B domain

cl02471
Location:252 → 372

HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...

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_007113.7 Reference GRCz11 Primary Assembly

Range

20793955..20812063

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005163364.4 → XP_005163421.1 proteoglycan 4 isoform X1

See identical proteins and their annotated locations for XP_005163421.1

UniProtKB/TrEMBL

A0A8M1PHS8, B8JMI5

Conserved Domains (3) summary

smart00201
Location:23 → 65

SO; Somatomedin B -like domains

pfam01033
Location:65 → 101

Somatomedin_B; Somatomedin B domain

cl02471
Location:252 → 372

HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...