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Gene: RDH16 (retinol dehydrogenase 16) Chlorocebus sabaeus

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Symbol:

RDH16

Name:

retinol dehydrogenase 16

RGD ID:

18650911

Description:

ENCODES a protein that exhibits all-trans-retinol dehydrogenase (NAD+) activity (ortholog); INVOLVED IN androgen biosynthetic process (ortholog); positive regulation of retinoic acid biosynthetic process (ortholog); response to resveratrol (ortholog); PARTICIPATES IN retinoic acid metabolic pathway; retinol metabolic pathway; vitamin A deficiency pathway; ASSOCIATED WITH cataract 15 multiple types (ortholog); Charcot-Marie-Tooth disease axonal type 2U (ortholog); INTERSTITIAL LUNG AND LIVER DISEASE (ortholog); FOUND IN endoplasmic reticulum membrane (ortholog); organelle membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

retinol dehydrogenase 16 (all-trans)

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	11	52,826,447 - 52,854,731 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	52,848,488 - 52,854,167 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	193,118,277 - 193,127,224 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

cataract 15 multiple types (ISO)

Charcot-Marie-Tooth disease axonal type 2U (ISO)

INTERSTITIAL LUNG AND LIVER DISEASE (ISO)

paraplegia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

androgen biosynthetic process (ISO)

positive regulation of retinoic acid biosynthetic process (ISO)

response to resveratrol (ISO)

retinoic acid metabolic process (ISO)

retinol metabolic process (ISO)

steroid metabolic process (IEA)

Cellular Component

endoplasmic reticulum membrane (ISO)

intracellular membrane-bounded organelle (IEA)

organelle membrane (ISO)

Molecular Function

all-trans-retinol dehydrogenase (NAD+) activity (IEA,ISO)

androstan-3-alpha,17-beta-diol dehydrogenase (NAD+) activity (IEA)

androsterone dehydrogenase [NAD(P)+] activity (IEA)

oxidoreductase activity (IEA)

oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

retinoic acid metabolic pathway (ISO)

retinol metabolic pathway (ISO)

vitamin A deficiency pathway (ISO)

References

Additional References at PubMed

PMID:22301074

Genomics

Comparative Map Data

RDH16
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	11	52,826,447 - 52,854,731 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	52,848,488 - 52,854,167 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	193,118,277 - 193,127,224 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

RDH16
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	56,951,431 - 56,957,608 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	56,951,431 - 56,959,374 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	57,345,215 - 57,351,392 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	55,631,482 - 55,637,685 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	12	56,999,103 - 57,005,306 (-)	NCBI		Celera
Cytogenetic Map	12	q13.3	NCBI
HuRef	12	54,383,970 - 54,390,173 (-)	NCBI		HuRef
CHM1_1	12	57,312,965 - 57,319,168 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	12	56,919,300 - 56,925,477 (-)	NCBI		T2T-CHM13v2.0

Rdh1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	127,595,595 - 127,604,168 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	127,595,590 - 127,604,166 (+)	Ensembl		GRCm39 Ensembl
GRCm38	10	127,759,726 - 127,768,299 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	127,759,721 - 127,768,297 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	127,196,819 - 127,205,355 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	10	127,162,759 - 127,171,245 (+)	NCBI		MGSCv36	mm8
Celera	10	130,154,374 - 130,162,902 (+)	NCBI		Celera
Cytogenetic Map	10	D3	NCBI
cM Map	10	75.21	NCBI

Rdh16
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	65,499,763 - 65,510,304 (+)	NCBI		GRCr8
mRatBN7.2	7	63,616,711 - 63,625,053 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	63,597,536 - 63,624,124 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	65,505,927 - 65,514,269 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	67,708,217 - 67,716,557 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	67,509,523 - 67,517,833 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	71,058,150 - 71,072,685 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	70,980,422 - 71,072,689 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	71,151,962 - 71,152,405 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	67,752,257 - 67,766,995 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	67,772,988 - 67,787,725 (+)	NCBI
Celera	7	54,092,966 - 54,096,444 (-)	NCBI		Celera
Cytogenetic Map	7	q22	NCBI

RDH16
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	10	37,345,736 - 37,380,367 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	37,369,988 - 37,377,137 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	31,958,385 - 31,966,319 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	32,211,691 - 32,219,624 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	32,212,746 - 32,219,624 (+)	Ensembl	panpan1.1		panPan2

RDH16
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	1,124,322 - 1,134,138 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	1,124,320 - 1,130,453 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	1,188,751 - 1,198,258 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	1,135,298 - 1,144,806 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	1,135,296 - 1,145,453 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	1,112,204 - 1,121,711 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	1,354,063 - 1,363,571 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	1,478,831 - 1,488,339 (-)	NCBI		UU_Cfam_GSD_1.0

LOC101965278
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404945	57,669,159 - 57,676,568 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936646	1,194,547 - 1,200,897 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936646	1,195,200 - 1,200,778 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LOC100512656
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	22,228,057 - 22,292,434 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	22,277,006 - 22,285,534 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	24,085,801 - 24,094,292 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

Variants

Variants in RDH16
460 total Variants

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

ectoderm	endocrine system	hemolymphoid system	mesenchyme	mesoderm	nervous system	reproductive system
73	36	19	35	35	57	20

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008003718	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008003720	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005239949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCSAT00000003032 ⟹ ENSCSAP00000001323

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1 Ensembl	11	52,848,488 - 52,854,167 (-)	Ensembl

RefSeq Acc Id:

XM_008003718 ⟹ XP_008001909

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	11	52,847,896 - 52,854,731 (-)	NCBI
Vero_WHO_p1.0	NW_023666037	193,120,875 - 193,127,224 (+)	NCBI

Sequence:

show sequence

CAGAAATCTCCCGTCTTCTACATTGATCACGCTGGGAGCTGCAGATTGGAGCTGTTCCTGTTTG
CCCATCCTCTCCGTGCTTTCTTTACCTCTGAGGTTGGACACCCCCATAGGATCCTGCAATCTTT
CTGCCCCAAAAAACTACTATAGCAGGAGGGAACCTGTTCCTGCCCACTCTTTGTCTACTCCTTC
TCATCCTAGAGAGCCTGACCGTGCCCTAGTTTTCTGAGGAGTGATTGGTATTCTAAGGTGCTGA
GCAGGATGAGGAAGTTCAGGCTCAGAGAGGGATTTCCACCTAATCTGCCTGGAAACCATGTGTA
GCTGCCCAATAAGGTCTTTCTATGTTCAGAAGGTCACAGACCAGGGGTGTTGGAGTAGGAGATT
TGTAGAGACAGTTTTGACCCCTGTACTTAGAGCAGAGGGGTGTGTTTTCCATGGAGAGTGTGTG
TGGGCAGCTGTGTGTGAGCCTGTGTGGGCTCTGTGTGTGTTCCTGTGTGAATATATGTGTGTGC
TCCTTCATGGACACAGCATGCATGTAGTGGGCACAGCAAGGTGAGAGAAATCAGGAGACTAGGG
ACACATTGCCAAATGATAATATCTTCCTACTGGGCAGGACTTGGGGTGTGCAAAGGTGTGCATG
AGTACTGCAAAAGCAGTTCAAAGAGCAGAGAGGTGGGGCCAGAATAAATATGTTGCAGAAAGAC
AGTCATCAGGGAGGAAAGTGAGGACTCTGACCAAAATGCCTGAGGGTTTCCCTGCCTACCATAG
CCCTCTGTGTTCTTAAATCCTCCTGTGTCAACAGAGGCCAGACTCTGGGTTCCCCCACAGCCTG
TCCGTGTCTGTCCTCTGCAAAGCCATGTGGCTCTACCTGGCAGTTTTTGTGGGCCTGTACTACC
TTCTGCATTGGTACCGGGAGAGGCAGGTGCTGAGCCACCTGAGAGATAAGTATGTGTTCATCAC
CGGCTGTGACTCTGGCTTCGGGAAACTGCTGGCCAGACAGCTGGACGCACGAGGCTTGCGGGTG
CTGGCTGCGTGTCTGACAGAGAAAGGAGCCGAGCAGCTGAGGGGCCAGACTTCAGACAGGCTGG
AGACGGTGACCCTGGATGTCACCAAGACAGAGAGTGTTGCTGCAGCCGCCCAGTGGGTGAAGGA
ACGCGTGGGGGAAAGAGGACTCTGGGGCCTGGTGAATAATGCTGGCATCTCCTTGCCTACGGCC
CCCAATGAGTTGCTGACCAAGCAGGACTTTGTGACCATATTGGATGTGAACTTGTTGGGGGTGA
TCGACGTGACTCTGAGCCTGCTGCCCTTAGTGAGGAAGGCCAGGGGCCGTGTGGTCAACGTCTC
CAGTATCTGTGGCCGGGTGTCACTTTTTGGTGGAGGCTATTGCATCTCCAAGTATGGCGTGGAA
GCCTTCTCTGACTCCCTCAGGAGGGAACTATCCTACTTTGGGGTGAAAGTGGCTATGATTGAGC
CTGGCTATTTCAAGACTGCTGTGACCAGTAAAGAGAGATTCTTAAAGAGCTTCCTGGAGATTTG
GGACCAGTCCAGCCCAGAGGTCAAGCAGATCTATGGCGAGAAGTTTGTTGCATCCTATAAGAAA
TCAGCTGAACAATTGGAGCAGACTTGCACACAGGATTTGTCCTTGGTGACCAACTGCATGGAGC
ATGCGCTGATTGCCTGCCACCCCCGCACTCGCTACTCAGCTGGCTGGGATGCCAAGCTTCTCTA
CCTCCCCATGAGCTACATGCCCACTTTCCTGGTGGATGCCATTATCTACTGGGGTTCTCCAAGC
CCGGCCAAGGCTCTATGAAGCCAAGGATCAGGTGCATGGTTGCATGGATTTGGGGTGTGCTATG
AGGGGTGATGTATCCTTGGGAGAGAAATAAAGTGGAGGGAGGCCGTTGTCAGGTCAGTAGGGCA
CTGATCTCACTTCCTGCATTACCTCCTGTCCATGATTCTCCTGGGAGATAATTCTGCTCTCTGA
AGATGTTGGTAGGAAAGTTTCAAGTTAAGCAGCTGAGAAACAGGAACCAAATAGTGCTCCTGGG
TGCATTGTCACCTTAGGTGGCCACTCAAGGGTCCAAGCCTCTTGTGCTAACAACTGGGGTGAGT
ATGAGCAGGTGGAAGGAGCCTCAGCCCATGCCATTACCTCCTGCTTCCTTATCAGGCTGTGTGT
TAATTCTGGGCCAGTCTAGGCCATGGGGTGGAAATGGCTTGGGAGACGTGAGGGGACCCCTTCT
CTGAAGATCCTTGTATACATAGTGTTGGGACCGGGAGCGCAACCATTACATGGCCCCATAGGCC
TCACGAGTCATCCCAGCAGCAGTGGCTGGAAGGTGGTGTCCTCAGTAGGGATCTGTGCAGAGGA
CAAATAAATCAGTTTTTTATTTGTCTTGAAA

hide sequence

RefSeq Acc Id:

XR_005239949

Type:

NON-CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
Vero_WHO_p1.0	NW_023666037	193,118,277 - 193,127,224 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_008001909	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCSAP00000001323
	ENSCSAP00000001323.1

RefSeq Acc Id:	XP_008001909 ⟸ XM_008003718
- UniProtKB:	A0A0D9QY84 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSCSAP00000001323 ⟸ ENSCSAT00000003032

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000004999	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCSAT00000003032.1	UniProtKB/TrEMBL
Gene3D-CATH	NAD(P)-binding Rossmann-like Domain	UniProtKB/TrEMBL
InterPro	NAD(P)-bd_dom_sf	UniProtKB/TrEMBL
	Sc_DH/Rdtase_CS	UniProtKB/TrEMBL
	SDR_fam	UniProtKB/TrEMBL
KEGG Report	csab:103238546	UniProtKB/TrEMBL
NCBI Gene	RDH16	ENTREZGENE
PANTHER	RETINOL DEHYDROGENASE 16	UniProtKB/TrEMBL
	SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C	UniProtKB/TrEMBL
Pfam	adh_short	UniProtKB/TrEMBL
PRINTS	GDHRDH	UniProtKB/TrEMBL
	SDRFAMILY	UniProtKB/TrEMBL
PROSITE	ADH_SHORT	UniProtKB/TrEMBL
Superfamily-SCOP	SSF51735	UniProtKB/TrEMBL
UniProt	A0A0D9QY84	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - SMPDB

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Imported Disease Annotations - ClinVar

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Imported Annotations - SMPDB