Bcdin3d BCDIN3 domain containing RNA methyltransferase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Bcdin3dprovided by RGD
Official Full Name: BCDIN3 domain containing RNA methyltransferaseprovided by RGD
Primary source: RGD:1306433
See related: EnsemblRapid:ENSRNOG00000058430 AllianceGenome:RGD:1306433
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
Also known as: RGD1306433
Summary: Predicted to enable pre-miRNA binding activity; small RNA 2'-O-methyltransferase activity; and tRNA methyltransferase activity. Predicted to be involved in negative regulation of pre-miRNA processing; pre-miRNA processing; and tRNA methylation. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in cytoplasm. Orthologous to human BCDIN3D (BCDIN3 domain containing RNA methyltransferase). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 51.8), Spleen (RPKM 43.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q36

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (132484404..132488998, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (130605540..130610134, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (141132106..141136700, complement)

Chromosome 7 - NC_086025.1 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 O-methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables O-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables RNA methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables RNA methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables pre-miRNA binding	ISO Inferred from Sequence Orthology more info
enables small RNA 2'-O-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables small RNA 2'-O-methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables tRNA methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables tRNA methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in RNA methylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of pre-miRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of pre-miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of pre-miRNA processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in pre-miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in tRNA methylation	ISO Inferred from Sequence Orthology more info
involved_in tRNA methylation	ISS Inferred from Sequence or Structural Similarity 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 cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: RNA 5'-monophosphate methyltransferase

Names: BCDIN3 domain containing RNA methyltransfease; BCDIN3 domain-containing protein; pre-miRNA 5'-monophosphate methyltransferase; probable methyltransferase BCDIN3D

NP_001102221.1

EC 2.1.1.-

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_001108751.1 → NP_001102221.1 RNA 5'-monophosphate methyltransferase

See identical proteins and their annotated locations for NP_001102221.1

Status: PROVISIONAL

Source sequence(s)

CH474035

UniProtKB/Swiss-Prot

D4ABH7

Related

ENSRNOP00000070196.1, ENSRNOT00000091538.3

Conserved Domains (2) summary

pfam06859
Location:159 → 264

Bin3; Bicoid-interacting protein 3 (Bin3)

pfam13649
Location:72 → 187

Methyltransf_25; Methyltransferase domain