Sdr16c5 short chain dehydrogenase/reductase family 16C, member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sdr16c5provided by RGD
Official Full Name: short chain dehydrogenase/reductase family 16C, member 5provided by RGD
Primary source: RGD:1565999
See related: EnsemblRapid:ENSRNOG00000008871 AllianceGenome:RGD:1565999
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: Rdhe2; RGD1565999
Summary: Predicted to enable RNA polymerase II-specific DNA-binding transcription factor binding activity; all-trans-retinol dehydrogenase (NAD+) activity; and transcription corepressor activity. Predicted to be involved in keratinocyte proliferation; negative regulation of macromolecule biosynthetic process; and retinoid metabolic process. Predicted to be located in several cellular components, including chromatin; endoplasmic reticulum membrane; and nucleus. Predicted to be part of transcription repressor complex. Predicted to be active in lipid droplet. Orthologous to human SDR16C5 (short chain dehydrogenase/reductase family 16C member 5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 3.3), Uterus (RPKM 2.1) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 5q12

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (21816394..21841596, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (17018813..17043974, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (16904926..16930111, complement)

Chromosome 5 - NC_086023.1 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables all-trans-retinol dehydrogenase (NAD+) activity	IBA Inferred from Biological aspect of Ancestor more info
enables all-trans-retinol dehydrogenase (NAD+) activity	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression, epigenetic	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in retinal metabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in retinal metabolic process	ISO Inferred from Sequence Orthology more info
involved_in retinol metabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in retinol metabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
is_active_in lipid droplet	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: epidermal retinol dehydrogenase 2

Names: epidermal retinal dehydrogenase 2; retinal short chain dehydrogenase reductase 2

NP_001100104.1

EC 1.1.1.105

XP_006237898.1

EC 1.1.1.105

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_001106634.1 → NP_001100104.1 epidermal retinol dehydrogenase 2

See identical proteins and their annotated locations for NP_001100104.1

Status: PROVISIONAL

Source sequence(s)

CH473984

UniProtKB/TrEMBL

A6JFM5, D3ZS85

Related

ENSRNOP00000011813.5, ENSRNOT00000011813.8

Conserved Domains (1) summary

cd05339
Location:42 → 284

17beta-HSDXI-like_SDR_c; human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs

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_086023.1 Reference GRCr8

Range

21816394..21841596 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006237836.5 → XP_006237898.1 epidermal retinol dehydrogenase 2 isoform X1

See identical proteins and their annotated locations for XP_006237898.1

UniProtKB/TrEMBL

A6JFM5, D3ZS85

Conserved Domains (1) summary

cd05339
Location:42 → 284

17beta-HSDXI-like_SDR_c; human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs