Hmgb3 high mobility group box 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hmgb3provided by RGD
Full Name: high mobility group box 3provided by RGD
Primary source: RGD:1564407
See related: EnsemblRapid:ENSRNOG00000011096 AllianceGenome:RGD:1564407
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1564407
Summary: Predicted to enable DNA binding activity, bending and RNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of B cell differentiation and negative regulation of myeloid cell differentiation. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in syndromic microphthalmia 13. Orthologous to human HMGB3 (high mobility group box 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 101.9), Thymus (RPKM 94.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq37

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (154341106..154346087)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (149296303..149301290)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (36690190..36694329)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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 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?

MiR-200b in heme oxygenase-1-modified bone marrow mesenchymal stem cell-derived exosomes alleviates inflammatory injury of intestinal epithelial cells by targeting high mobility group box 3.
Title: MiR-200b in heme oxygenase-1-modified bone marrow mesenchymal stem cell-derived exosomes alleviates inflammatory injury of intestinal epithelial cells by targeting high mobility group box 3.
HMGB3 is involved in malignant transformation of hepatocytes and could be a useful biomarker for diagnosis and a potential target for therapy of liver cancer.
Title: Abnormal expression of HMGB-3 is significantly associated with malignant transformation of hepatocytes.

Submit: New GeneRIF Correction

General gene information

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Markers

UniSTS:256978 (e-PCR)
- UniSTS:256978

Hmgb3 (e-PCR), detects polymorphism
- UniSTS:256978

Hmgb3 (e-PCR), detects polymorphism
- UniSTS:143352

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding, bending	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of B cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of myeloid cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: high mobility group protein B3

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_001173341.2 → NP_001166812.1 high mobility group protein B3 isoform 1

See identical proteins and their annotated locations for NP_001166812.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

B0BN99, M0R9D4

Related

ENSRNOP00000015044.7, ENSRNOT00000015044.8

Conserved Domains (2) summary

pfam00505
Location:93 → 160

HMG_box; HMG (high mobility group) box

pfam09011
Location:13 → 78

HMG_box_2; HMG-box domain
NM_001398776.1 → NP_001385705.1 high mobility group protein B3 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

F7EWK1

Conserved Domains (2) summary

pfam00505
Location:134 → 201

HMG_box; HMG (high mobility group) box

pfam09011
Location:54 → 119

HMG_box_2; HMG-box domain
NM_001398777.1 → NP_001385706.1 high mobility group protein B3 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

A0A0G2JVF5

Conserved Domains (2) summary

pfam00505
Location:97 → 164

HMG_box; HMG (high mobility group) box

pfam09011
Location:17 → 82

HMG_box_2; HMG-box domain