Alkbh8 alkB homolog 8, tRNA methyltransferase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Alkbh8provided by RGD
Official Full Name: alkB homolog 8, tRNA methyltransferaseprovided by RGD
Primary source: RGD:1304687
See related: EnsemblRapid:ENSRNOG00000024525 AllianceGenome:RGD:1304687
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: RGD1304687
Summary: Predicted to enable tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity; tRNA binding activity; and transition metal ion binding activity. Predicted to be involved in DNA damage response; tRNA methylation; and tRNA wobble uridine modification. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 71. Orthologous to human ALKBH8 (alkB homolog 8, tRNA methyltransferase). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 94.7), Kidney (RPKM 64.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q11

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (6121402..6198226, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (378779..449382, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (18877885..18952773)

Chromosome 6 - NC_086024.1 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: 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 2-oxoglutarate-dependent dioxygenase activity	IEA Inferred from Electronic Annotation more info
enables S-adenosylmethionine-dependent methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables iron ion binding	ISO Inferred from Sequence Orthology more info
enables tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables tRNA (uridine) methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables tRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables tRNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in tRNA methylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA methylation	ISO Inferred from Sequence Orthology more info
involved_in tRNA wobble uridine modification	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA wobble uridine modification	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	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
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: alkylated DNA repair protein alkB homolog 8

Names: alkB, alkylation repair homolog 8

NP_001178838.1

EC 2.1.1.229

XP_063118302.1

EC 2.1.1.229

XP_063118303.1

EC 2.1.1.229

XP_063118304.1

EC 2.1.1.229

XP_063118306.1

EC 2.1.1.229

XP_063118307.1

EC 2.1.1.229

XP_063118308.1

EC 2.1.1.229

XP_063118309.1

EC 2.1.1.229

XP_063118310.1

EC 2.1.1.229

XP_063118311.1

EC 2.1.1.229

XP_063118312.1

EC 2.1.1.229

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_001191909.2 → NP_001178838.1 alkylated DNA repair protein alkB homolog 8

See identical proteins and their annotated locations for NP_001178838.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A0A0G2K2X2

Related

ENSRNOP00000112389.1, ENSRNOT00000131743.1

Conserved Domains (4) summary

pfam09004
Location:1 → 37

DUF1891; Domain of unknown function (DUF1891)

cd12431
Location:42 → 122

RRM_ALKBH8; RNA recognition motif in alkylated DNA repair protein alkB homolog 8 (ALKBH8) and similar proteins

pfam08241
Location:412 → 501

Methyltransf_11; Methyltransferase domain

cl21496
Location:152 → 334

2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

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_086024.1 Reference GRCr8

Range

6121402..6198226 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063262234.1 → XP_063118304.1 alkylated DNA repair protein alkB homolog 8 isoform X1

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262237.1 → XP_063118307.1 alkylated DNA repair protein alkB homolog 8 isoform X2

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262232.1 → XP_063118302.1 alkylated DNA repair protein alkB homolog 8 isoform X1

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262233.1 → XP_063118303.1 alkylated DNA repair protein alkB homolog 8 isoform X1

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262238.1 → XP_063118308.1 alkylated DNA repair protein alkB homolog 8 isoform X3

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262239.1 → XP_063118309.1 alkylated DNA repair protein alkB homolog 8 isoform X3
XM_063262236.1 → XP_063118306.1 alkylated DNA repair protein alkB homolog 8 isoform X1

UniProtKB/TrEMBL

A0A0G2K2X2
XM_063262240.1 → XP_063118310.1 alkylated DNA repair protein alkB homolog 8 isoform X4
XM_063262241.1 → XP_063118311.1 alkylated DNA repair protein alkB homolog 8 isoform X5
XM_063262242.1 → XP_063118312.1 alkylated DNA repair protein alkB homolog 8 isoform X6