mhc2d4b major histocompatibility complex class II d4b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: mhc2d4bprovided by ZNC
Official Full Name: major histocompatibility complex class II d4bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-4747
See related: Ensembl:ENSDARG00000101030 AllianceGenome:ZFIN:ZDB-GENE-030131-4747
Gene type: protein coding
RefSeq status: MODEL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: D4B; wu:fd58b11; si:ch73-158p21.3
Summary: Predicted to enable MHC class II protein complex binding activity and peptide antigen binding activity. Predicted to be involved in several processes, including antigen processing and presentation of exogenous peptide antigen via MHC class II; peptide antigen assembly with MHC class II protein complex; and positive regulation of T cell activation. Predicted to act upstream of or within antigen processing and presentation and immune response. Predicted to be located in membrane. Predicted to be part of MHC class II protein complex. Predicted to be active in late endosome membrane and lysosomal membrane. Human ortholog(s) of this gene implicated in several diseases, including asthma (multiple); autoimmune disease (multiple); bacterial infectious disease (multiple); hematologic cancer (multiple); and lung disease (multiple). Orthologous to several human genes including HLA-DOB (major histocompatibility complex, class II, DO beta); HLA-DPB1 (major histocompatibility complex, class II, DP beta 1); and HLA-DQB1 (major histocompatibility complex, class II, DQ beta 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 4

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (76362876..76370686, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (74783079..74789606, complement)

Chromosome 4 - NC_007115.7 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
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

fd58b11.x1 (e-PCR)
- UniSTS:195710

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables MHC class II protein complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables peptide antigen binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within antigen processing and presentation	IEA Inferred from Electronic Annotation more info
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within immune response	IEA Inferred from Electronic Annotation more info
involved_in peptide antigen assembly with MHC class II protein complex	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of T cell activation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of immune response	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of MHC class II protein complex	IBA Inferred from Biological aspect of Ancestor more info
part_of MHC class II protein complex	IEA Inferred from Electronic Annotation more info
is_active_in late endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in lysosomal membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: H-2 class II histocompatibility antigen, E-S beta chain; uncharacterized protein LOC326022

NCBI Reference Sequences (RefSeq)

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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_007115.7 Reference GRCz11 Primary Assembly

Range

76362876..76370686 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_002661896.7 → XP_002661942.3 H-2 class II histocompatibility antigen, E-S beta chain isoform X2

UniProtKB/TrEMBL

A0A8M1RH77

Conserved Domains (2) summary

smart00921
Location:25 → 97

MHC_II_beta; Class II histocompatibility antigen, beta domain

cl11960
Location:110 → 202

Ig; Immunoglobulin domain
XM_005168122.5 → XP_005168179.1 H-2 class II histocompatibility antigen, E-S beta chain isoform X1

UniProtKB/TrEMBL

A0A1L1QZR0, A0A8M2BFK2

Related

ENSDARP00000143185.1, ENSDART00000174313.2

Conserved Domains (2) summary

smart00921
Location:26 → 98

MHC_II_beta; Class II histocompatibility antigen, beta domain

cl11960
Location:111 → 203

Ig; Immunoglobulin domain