prg4b proteoglycan 4b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: prg4bprovided by ZNC
Official Full Name: proteoglycan 4bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-041014-324
See related: Ensembl:ENSDARG00000028163 AllianceGenome:ZFIN:ZDB-GENE-041014-324
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: prg4; zgc:122988; si:dkey-97o5.3
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 articular cartilage; inter-coracoid joint; liver; and quadrate-anguloarticular joint. 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: 20

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	20	NC_007131.7 (34029810..34039634)
105	previous assembly	GRCz10 (GCF_000002035.5)	20	NC_007131.6 (34126929..34136755)

Chromosome 20 - NC_007131.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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

fi76g05.x1 (e-PCR)
- UniSTS:198018

fd20d02.x1 (e-PCR)
- UniSTS:204272

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 4b

Names: proteoglycan 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_001328330.1 → NP_001315259.1 proteoglycan 4b precursor

Status: VALIDATED

Source sequence(s)

BX323056, EB918079, EH497845, EH524122

UniProtKB/TrEMBL

A0A8M1PA50, F1REF9

Related

ENSDARP00000112635.2, ENSDART00000143901.4

Conserved Domains (6) summary

cd00094
Location:477 → 705

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 ...

pfam01033
Location:62 → 99

Somatomedin_B; Somatomedin B domain

pfam05466
Location:113 → 332

BASP1; Brain acid soluble protein 1 (BASP1 protein)

pfam08690
Location:192 → 297

GET2; GET complex subunit GET2

pfam15140
Location:258 → 420

DUF4573; Domain of unknown function (DUF4573)

cl15483
Location:350 → 461

Hid1; High-temperature-induced dauer-formation protein

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007131.7 Reference GRCz11 Primary Assembly

Range

34029810..34039634

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068215442.1 → XP_068071543.1 proteoglycan 4b isoform X1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001037673.1: Suppressed sequence

Description

NM_001037673.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.