Rdh16 (retinol dehydrogenase 16) - Rat Genome Database

Name: Rdh16
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Rdh16 (retinol dehydrogenase 16) Rattus norvegicus

Analyze

Symbol:

Rdh16

Name:

retinol dehydrogenase 16

RGD ID:

735050

Description:

Enables NAD-retinol dehydrogenase activity. Involved in positive regulation of retinoic acid biosynthetic process; retinoic acid metabolic process; and retinol metabolic process. Located in endoplasmic reticulum membrane. Orthologous to human RDH16 (retinol dehydrogenase 16); PARTICIPATES IN retinoic acid metabolic pathway; retinol metabolic pathway; vitamin A deficiency pathway; INTERACTS WITH 17beta-hydroxy-5alpha-androstan-3-one; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

29 kDa protein; Rdh2; retinol dehydrogenase 16 (all-trans); retinol dehydrogenase 2; retinol dehydrogenase 2-like; retinol dehydrogenase type 1; retinol dehydrogenase type 2; retinol dehydrogenase type II (RODH II); RODH II; RoDHII

RGD Orthologs

Human

Mouse

Dog

Squirrel

Pig

Green Monkey

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	RDH16 (retinol dehydrogenase 16)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Rdh1 (retinol dehydrogenase 1 (all trans))	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	RDH16 (retinol dehydrogenase 16)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101965278 (retinol dehydrogenase 16)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LOC100512656 (retinol dehydrogenase 16)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	RDH16 (retinol dehydrogenase 16)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	HSD17B6 (hydroxysteroid 17-beta dehydrogenase 6)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	RDH16 (retinol dehydrogenase 16)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rdh1 (retinol dehydrogenase 1 (all trans))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rdh16f2 (RDH16 family member 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rdh19 (retinol dehydrogenase 19)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rdh9 (retinol dehydrogenase 9)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rdh16 (retinol dehydrogenase 16)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	rdh5 (retinol dehydrogenase 5 (11-cis/9-cis))	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|SonicParanoid)
Danio rerio (zebrafish):	rdh1 (retinol dehydrogenase 1)	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG8888	Alliance	DIOPT (Hieranoid\|OMA\|OrthoInspector\|PANTHER)
Caenorhabditis elegans (roundworm):	dhs-20	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Candidate Gene For:

Bp38

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	63,616,724 - 63,624,120 (+)	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_SHRSP_BbbUtx_1.0	7	67,708,217 - 67,716,557 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	7	67,509,523 - 67,517,833 (+)	NCBI	Rnor_WKY
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

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17beta-estradiol (ISO)

17beta-hydroxy-5alpha-androstan-3-one (EXP)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

acetamide (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

androstane-3,17-diol (EXP)

benzo[a]pyrene (ISO)

bexarotene (EXP)

bisphenol A (EXP,ISO)

cefaloridine (EXP)

chenodeoxycholic acid (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

deoxycholic acid (ISO)

dexamethasone (EXP)

flutamide (EXP)

glafenine (EXP)

glutathione (EXP)

glycochenodeoxycholic acid (ISO)

glycocholic acid (ISO)

glycodeoxycholic acid (ISO)

Lasiocarpine (ISO)

N-nitrosodimethylamine (EXP)

N-Nitrosopyrrolidine (ISO)

NAD zwitterion (ISO)

NAD(+) (ISO)

nefazodone (ISO)

O-methyleugenol (ISO)

paracetamol (EXP,ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (EXP)

perfluorooctanoic acid (EXP)

prednisolone (EXP)

resveratrol (EXP)

sodium arsenite (ISO)

streptozocin (EXP)

Sunset Yellow FCF (ISO)

tartrazine (ISO)

thioacetamide (EXP)

trichloroethene (EXP)

Triptolide (EXP)

valproic acid (EXP,ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

9-cis-retinoic acid biosynthetic process (ISO)

positive regulation of retinoic acid biosynthetic process (IMP)

retinoic acid metabolic process (IDA)

retinoid metabolic process (ISO)

retinol metabolic process (IBA,IDA,IEA)

steroid metabolic process (IBA,ISO,ISS)

Cellular Component

endoplasmic reticulum lumen (ISO)

endoplasmic reticulum membrane (IDA,ISO)

intracellular membrane-bounded organelle (IBA,ISO)

obsolete integral component of organelle membrane (ISO)

organelle membrane (IDA,ISO)

Molecular Function

11-cis-retinol dehydrogenase (IEA)

androstan-3-alpha,17-beta-diol dehydrogenase activity (ISO,ISS)

androsterone dehydrogenase activity (ISO,ISS)

identical protein binding (ISO,ISS)

NAD-retinol dehydrogenase activity (IBA,IDA,ISO)

oxidoreductase activity (IBA,IEA)

steroid dehydrogenase activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

retinoic acid metabolic pathway (IMP)

retinol metabolic pathway (ISO)

vitamin A deficiency pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Cloning of a cDNA for a second retinol dehydrogenase type II. Expression of its mRNA relative to type I.	Chai X, etal., J Biol Chem 1995 Nov 24;270(47):28408-12.
2.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Combined genealogical, mapping, and expression approaches to identify spontaneously hypertensive rat hypertension candidate genes.	Hinojos CA, etal., Hypertension 2005 Apr;45(4):698-704. Epub 2005 Feb 14.
4.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
8.	Multiple retinol and retinal dehydrogenases catalyze all-trans-retinoic acid biosynthesis in astrocytes.	Wang C, etal., J Biol Chem. 2011 Feb 25;286(8):6542-53. Epub 2010 Dec 7.
9.	The N-terminus of retinol dehydrogenase type 1 signals cytosolic orientation in the microsomal membrane.	Wang J, etal., Biochemistry. 2001 Oct 23;40(42):12533-40.

Additional References at PubMed

PMID:8251521	PMID:9407098	PMID:9677409	PMID:10329026	PMID:11876656	PMID:12534290	PMID:15355969	PMID:15489334	PMID:16223484

Genomics

Comparative Map Data

Rdh16
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	63,616,724 - 63,624,120 (+)	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_SHRSP_BbbUtx_1.0	7	67,708,217 - 67,716,557 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	7	67,509,523 - 67,517,833 (+)	NCBI	Rnor_WKY
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
(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.p13 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
(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	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

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

Variants

Variants in Rdh16
13 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	394
Count of miRNA genes:	203
Interacting mature miRNAs:	228
Transcripts:	ENSRNOT00000037218, ENSRNOT00000051075
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	924703	115097879	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	9462246	98011544	Rat
1300132	Bp182	Blood pressure QTL 182	3.49		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	7	19654317	84928080	Rat
7411569	Bw137	Body weight QTL 137		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	7	21921195	66921195	Rat
1641885	Alcrsp9	Alcohol response QTL 9			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	7	24099606	69099606	Rat
1549840	Bss5	Bone structure and strength QTL 5	9.8		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	7	24751841	69751841	Rat
70190	Mcs6	Mammary carcinoma susceptibility QTL 6	2.29		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	7	26737401	63902784	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	29409683	74409683	Rat
1300127	Srn1	Serum renin concentration QTL 1	3.87		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	7	29409683	84928080	Rat
10755453	Coatc12	Coat color QTL 12		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	31112832	76112832	Rat
7411605	Foco14	Food consumption QTL 14	24.1	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	34293282	79293282	Rat
631534	Lnnr1	Liver neoplastic nodule remodeling QTL 1	3.85	0.001	liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)	7	34293282	79293282	Rat
631513	Scl7	Serum cholesterol level QTL 7	4.1		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	37960569	82960569	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
634326	Hc3	Hypercalciuria QTL 3	2.1		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	7	42787314	87787314	Rat
10053722	Scort27	Serum corticosterone level QTL 27	2.41	0.0083	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	43228750	88228750	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	43747012	108555253	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
1300149	Cm6	Cardiac mass QTL 6	4.09		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	7	43747099	102228765	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	44867533	89867533	Rat
738030	Anxrr8	Anxiety related response QTL 8	4.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	46590070	91590070	Rat
10059605	Kidm47	Kidney mass QTL 47	2.91	0.05	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	7	47251783	65728867	Rat
2293696	Bmd32	Bone mineral density QTL 32	5.1	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	7	47651439	92651439	Rat
2293707	Bss32	Bone structure and strength QTL 32	7.64	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	7	47651439	92651439	Rat
2300178	Bmd54	Bone mineral density QTL 54	5.3	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	7	47651439	92651439	Rat
2293644	Bmd29	Bone mineral density QTL 29	5.4	0.0001	femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	7	47651439	92651439	Rat
2293667	Bss42	Bone structure and strength QTL 42	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	7	47651439	92651439	Rat
2293678	Bss24	Bone structure and strength QTL 24	6.71	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	7	47651439	92651439	Rat
2293685	Bmd21	Bone mineral density QTL 21	4.2	0.0003	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	7	47651439	92651439	Rat
1300151	Bp181	Blood pressure QTL 181	3.36		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	7	53612714	103945643	Rat
2317035	Aia16	Adjuvant induced arthritis QTL 16	2.71		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	7	59238038	104238038	Rat
1298528	Bp169	Blood pressure QTL 169		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	61074194	106074194	Rat
1559283	Emca4	Estrogen-induced mammary cancer QTL 4	3.7		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	7	62004452	101773158	Rat
1576303	Ept7	Estrogen-induced pituitary tumorigenesis QTL 7	3.7		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	7	62004452	101773158	Rat

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium			31	23	11	23				19	1
Low	3	31	16	8	8	8	4	4	74	16	40	11	4
Below cutoff		12	10	10		10	4	7					4

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_199208	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC079153	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U33500	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000037218 ⟹ ENSRNOP00000035423

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	63,597,536 - 63,612,232 (+)	Ensembl
Rnor_6.0 Ensembl	7	71,057,911 - 71,072,423 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000051075 ⟹ ENSRNOP00000039311

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	63,604,799 - 63,612,498 (+)	Ensembl
Rnor_6.0 Ensembl	7	71,065,197 - 71,072,689 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000077912 ⟹ ENSRNOP00000074126

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	63,604,885 - 63,624,124 (+)	Ensembl
Rnor_6.0 Ensembl	7	70,980,422 - 71,072,072 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000097465 ⟹ ENSRNOP00000088842

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	63,616,724 - 63,624,124 (+)	Ensembl

RefSeq Acc Id:

NM_199208 ⟹ NP_954678

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,616,724 - 63,624,120 (+)	NCBI
Rnor_6.0	7	71,058,150 - 71,072,685 (+)	NCBI
Rnor_5.0	7	71,151,962 - 71,152,405 (+)	NCBI
RGSC_v3.4	7	67,752,257 - 67,766,995 (+)	RGD
Celera	7	54,092,966 - 54,096,444 (-)	NCBI

Sequence:

show sequence

GGTGCTGCTGCTGCATGTCTGACTGAGAAGGGAGCCGAGCATCTGAGGAGCAAGACATCAGAAG
GCTGGAGTCCCTTCCCTGACTAGGCCAGAGCTAAAAGGACAAGGCTCAGGGCTAGCCTCTGCCT
ATCTAGTTCTTTTCTCCCTGAAGCTTACACCATCCTGTGGGAGCCGATGCCCGTCTCATTTTGA
CTCAGAGTCTGTCCCTCTGCTTGTCTTCTACAAACCATGTGGCTGTACCTGCTGGCACTGGTGG
GCCTGTGGAACCTCCTGCGCTTGTTCAGGGAGAGGAAGGTGGTAAGCCATCTCCAAGACAAATA
TGTCTTCATCACGGGCTGTGACTCAGGCTTTGGGAACCTGCTGGCCAGACAGCTGGACAGGAGA
GGCATGAGGGTGCTGGCTGCATGTCTGACTGAGAAGGGAGCCGAGCAGCTGAGGAGCAAGACAT
CGGACAGGCTGGAGACAGTGATCCTTGATGTCACCAAGACAGAGAGTATTGTGGCAGCCACTCA
GTGGGTGAAGGAGCGAGTTGGGAACACAGGACTCTGGGGCCTGGTCAACAATGCTGGCATCTCC
GGCCACCTGGGTCCCAATGAGTGGATGAACAAACAGAACATTGCAAGTGTGCTGGATGTGAACC
TGTTGGGCATGATCGAGGTGACTCTGAGCACGGTGCCCTTAGTGAGGAAGGCGAGGGGCCGTGT
GGTCAACGTTGCCAGCATCGCAGGCCGACTGTCTTTTTGTGGTGGTGGTTACTGCATCTCCAAG
TATGGTGTAGAGGCCTTCTCAGACTCCCTCAGGAGAGAGCTCTCCTATTTTGGGGTCAAGGTGG
CTATTGTAGAGCCTGGCTTCTTCAGGACTGATGTGACCAATGGTGTCACATTATCATCAAACTT
CCAGATGCTGTGGGACCAGACCAGCTCAGAAGTCAGGGAAGTCTATGGCGAGAACTACCTGGCA
TCTTATCTGAAAATGCTAAATGGATTGGACCAGAGGTGCAACAAAGATCTGTCTCTGGTGACTG
ACTGCATGGAGCACGCCCTGACTTCCTGTCACCCTCGCACCCGGTACTCAGCTGGTTGGGATGC
CAAGTTCTTCTACCTCCCCATGAGCTATCTGCCCACCTTTCTTGTGGATGCCCTTTTCTACTGG
ACTTCTCCAAAGCCTGAGAAAGCTCTCTGAAGTCTTTACCTATGTACATAACTGAGGAGATGTT
GGTACAGTGTTAGGGAGGGGATCCTGAGGAGGAGGTCGGAGTGCTGAGGAGGGAGGGAGGTCAT
TCCTCTGGGGTTTAGTCCACACTCTTCATTTTGCTAATTTTCCTGTGCTACTACTCAAGGCTGA
CTCGACTGACCCAAGAAATAGCCAAAGAATTCTGCGAAGAAGTTCAAATACAAAAGTGCTGGCA
GTTGCCTAGCCTCTGGGCACCATGACCTACCATGGCGATCCACACAAATGGGGAGTTTGAGACC
AGCTTGTACCAAACACTGCCCTGGGTCCCCCTGTGCAGGAAGTGCACATGCCCTGGCTAGTTTG
TACCCTATGCAGCATAGAAGTGTCCCTGCTCTGAAGTCACCTGTGACCCTGGTGTCAGGTTTGA
GAAGAATCACTAATAATTCTAACACTCATGCTTGAAGGCCAGGTCGCAGCCTGGGTGGGAGAGT
CGGTTACTTGTGGTGAGAATATAGTAGAGGATAGAGACATTAATTTTTTTTAAATTTACTTTGA
AGTCATGGCTCTTCTTTTCTTTTTTGGAGTCTTTTCCTTTTTAGAGCATAGCATGAGGTGACCT
CTTGTTCCCTGTGATTTAAACAATGGCATTGCTGGTTGGTGAGGTTTGGATTGCAGGGGTAAGG
GGAATGTCCTGAGAAGGGTGTGCATAGGCCAGCAGGAATTTCCTTGCCCGTCTCAGCCCTTCTA
GCCACTGAGGTGGGAATAACTGCTGTCCATTCAAAACTTAACAACAACCCCTAAGGCATAAGAG
CATGCATGCAGGCC

hide sequence

Protein Sequences


Protein RefSeqs	NP_954678	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC52316	(Get FASTA)	NCBI Sequence Viewer
	AAH79153	(Get FASTA)	NCBI Sequence Viewer
	P50170	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_954678 ⟸ NM_199208
- Peptide Label:	precursor
- UniProtKB:	P50170 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MWLYLLALVGLWNLLRLFRERKVVSHLQDKYVFITGCDSGFGNLLARQLDRRGMRVLAACLTEK GAEQLRSKTSDRLETVILDVTKTESIVAATQWVKERVGNTGLWGLVNNAGISGHLGPNEWMNKQ NIASVLDVNLLGMIEVTLSTVPLVRKARGRVVNVASIAGRLSFCGGGYCISKYGVEAFSDSLRR ELSYFGVKVAIVEPGFFRTDVTNGVTLSSNFQMLWDQTSSEVREVYGENYLASYLKMLNGLDQR CNKDLSLVTDCMEHALTSCHPRTRYSAGWDAKFFYLPMSYLPTFLVDALFYWTSPKPEKAL hide sequence

RefSeq Acc Id:

ENSRNOP00000039311 ⟸ ENSRNOT00000051075

RefSeq Acc Id:

ENSRNOP00000074126 ⟸ ENSRNOT00000077912

RefSeq Acc Id:

ENSRNOP00000035423 ⟸ ENSRNOT00000037218

RefSeq Acc Id:

ENSRNOP00000088842 ⟸ ENSRNOT00000097465

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P50170-F1-model_v2	AlphaFold	P50170	1-317	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13695271

Promoter ID:

EPDNEW_R5796

Type:

multiple initiation site

Name:

LOC100365958_1

Description:

Rdh2 protein-like

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	71,065,240 - 71,065,300	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:735050	AgrOrtholog
BioCyc Gene	G2FUF-33720	BioCyc
Ensembl Genes	ENSRNOG00000029651	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000035423.6	UniProtKB/TrEMBL
	ENSRNOP00000074126.2	UniProtKB/TrEMBL
	ENSRNOP00000088842	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000037218.8	UniProtKB/TrEMBL
	ENSRNOT00000077912.2	UniProtKB/TrEMBL
	ENSRNOT00000097465	ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:5599919	IMAGE-MGC_LOAD
	IMAGE:7128686	IMAGE-MGC_LOAD
InterPro	NAD(P)-bd_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Sc_DH/Rdtase_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SDR_fam	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:299511	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:72262	IMAGE-MGC_LOAD
	MGC:94173	IMAGE-MGC_LOAD
NCBI Gene	299511	ENTREZGENE
Pfam	adh_short	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Rdh16	PhenoGen
PRINTS	GDHRDH	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SDRFAMILY	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	ADH_SHORT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF51735	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2K7A4_RAT	UniProtKB/TrEMBL
	F7FHR5_RAT	UniProtKB/TrEMBL
	P50170	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-02-19	Rdh16	retinol dehydrogenase 16	Rdh16	retinol dehydrogenase 16 (all-trans)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-05-24	Rdh16	retinol dehydrogenase 16 (all-trans)	LOC100361975	retinol dehydrogenase 2-like	Data Merged	1643240	APPROVED
2012-02-02	Rdh16	retinol dehydrogenase 16 (all-trans)	Rdh2	retinol dehydrogenase 2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2010-05-05	LOC100361975	retinol dehydrogenase 2-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-07-08	Rdh2	retinol dehydrogenase 2	RoDHII	retinol dehydrogenase type II (RODH II)	Symbol and Name updated	1299863	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_expression	highest expression found in liver with lower but detectable expression in kidney, brain, lung and testis	1299624
gene_expression	expression is increased 3.7 fold in SHR compared with WKY rats	1357414
gene_other	uses holo-cellular retinol-binding protein (CRBP/retinol) as a substrate	1299624

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)

RGD Manual Annotations

Imported Annotations - SMPDB

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RGD Manual Annotations

Imported Annotations - SMPDB