Hmg20b high mobility group 20 B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hmg20bprovided by RGD
Official Full Name: high mobility group 20 Bprovided by RGD
Primary source: RGD:1309235
See related: Ensembl:ENSRNOG00000020601 AllianceGenome:RGD:1309235
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 enable DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to act upstream of or within negative regulation of protein sumoylation; positive regulation of neuron differentiation; and skeletal muscle cell differentiation. Predicted to be located in nuclear body. Predicted to be active in nucleus. Orthologous to human HMG20B (high mobility group 20B). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 93.1), Kidney (RPKM 85.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q11

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (9019670..9024382)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (8368934..8373650)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (11238594..11243312)

Chromosome 7 - NC_086025.1 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?

beta-dystrobrevin interacts with the HMG20 proteins iBRAF and BRAF35
Title: The interaction with HMG20a/b proteins suggests a potential role for beta-dystrobrevin in neuronal differentiation.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within negative regulation of protein sumoylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of protein sumoylation	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skeletal muscle cell differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related

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_001108731.1 → NP_001102201.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related

See identical proteins and their annotated locations for NP_001102201.1

Status: PROVISIONAL

Source sequence(s)

CH474029

UniProtKB/TrEMBL

A6K887, A6K890

Conserved Domains (2) summary

COG5648
Location:45 → 203

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01390
Location:70 → 134

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086025.1 Reference GRCr8

Range

9019670..9024382

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063263714.1 → XP_063119784.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X1
XM_063263716.1 → XP_063119786.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X2
XM_063263717.1 → XP_063119787.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X3
XM_063263719.1 → XP_063119789.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X5
XM_006240944.4 → XP_006241006.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X6

UniProtKB/TrEMBL

A6K890

Conserved Domains (2) summary

COG5648
Location:26 → 229

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01390
Location:96 → 160

HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
XM_063263718.1 → XP_063119788.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X4
XM_006240946.4 → XP_006241008.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X8

See identical proteins and their annotated locations for XP_006241008.1

UniProtKB/TrEMBL

A6K887, A6K890

Related

ENSRNOP00000074794.2

Conserved Domains (2) summary

COG5648
Location:45 → 203

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

cd01390
Location:70 → 134

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...
XM_063263720.1 → XP_063119790.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X7