Rdh11 (retinol dehydrogenase 11) - Rat Genome Database

Name: Rdh11
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Advanced Search (OLGA)

Gene: Rdh11 (retinol dehydrogenase 11) Ictidomys tridecemlineatus

Analyze

Symbol:

Rdh11

Name:

retinol dehydrogenase 11

RGD ID:

12446466

Description:

ENCODES a protein that exhibits aldehyde dehydrogenase (NADP+) activity (inferred); all-trans-retinol dehydrogenase (NADP+) activity (inferred); oxidoreductase activity (inferred); INVOLVED IN retinal metabolic process (ortholog); PARTICIPATES IN retinoid cycle metabolic pathway; retinol metabolic pathway; vitamin A deficiency pathway; ASSOCIATED WITH Leber congenital amaurosis 13 (ortholog); paraplegia (ortholog); Retinal Dystrophy, Juvenile Cataracts, and Short Stature Syndrome (ortholog); FOUND IN photoreceptor outer segment membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

retinol dehydrogenase 11 (all-trans/9-cis/11-cis)

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024408640	63,109,203 - 63,126,479 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936495	11,066,660 - 11,082,044 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936495	11,065,946 - 11,082,104 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Leber congenital amaurosis 13 (ISO)

paraplegia (ISO)

Retinal Dystrophy, Juvenile Cataracts, and Short Stature Syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular detoxification of aldehyde (IEA)

retinal metabolic process (IEA,ISO)

retinoid metabolic process (IEA)

retinol metabolic process (IEA)

visual perception (IEA)

Cellular Component

endoplasmic reticulum membrane (IEA)

photoreceptor inner segment (IEA)

photoreceptor outer segment membrane (ISO)

Molecular Function

aldehyde dehydrogenase (NADP+) activity (IEA)

all-trans-retinol dehydrogenase (NADP+) activity (IEA)

oxidoreductase activity (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

retinoid cycle metabolic pathway (ISO)

retinol metabolic pathway (ISO)

vitamin A deficiency pathway (ISO)

References

Genomics

Comparative Map Data

Rdh11
(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_024408640	63,109,203 - 63,126,479 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936495	11,066,660 - 11,082,044 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936495	11,065,946 - 11,082,104 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RDH11
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	67,676,800 - 67,695,764 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	67,676,800 - 67,695,793 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	68,143,517 - 68,162,481 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	67,213,270 - 67,232,213 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	67,213,270 - 67,232,213	NCBI
Celera	14	48,202,560 - 48,221,552 (-)	NCBI		Celera
Cytogenetic Map	14	q24.1	NCBI
HuRef	14	48,313,196 - 48,332,190 (-)	NCBI		HuRef
CHM1_1	14	68,082,296 - 68,101,280 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	61,883,919 - 61,902,884 (-)	NCBI		T2T-CHM13v2.0

Rdh11
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	79,221,007 - 79,238,629 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	79,221,111 - 79,239,067 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	79,174,233 - 79,191,855 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	79,174,337 - 79,192,293 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	80,276,538 - 80,292,806 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	80,093,177 - 80,111,133 (-)	NCBI		MGSCv36	mm8
Celera	12	80,639,993 - 80,656,287 (-)	NCBI		Celera
Cytogenetic Map	12	C3	NCBI
cM Map	12	35.51	NCBI

Rdh11
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	103,712,373 - 103,728,247 (-)	NCBI		GRCr8
mRatBN7.2	6	97,979,377 - 97,995,252 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	97,979,378 - 97,995,252 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	98,408,844 - 98,424,717 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	98,707,987 - 98,723,860 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	98,094,123 - 98,109,999 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	102,356,498 - 102,372,618 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	102,356,492 - 102,372,611 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	115,043,172 - 115,059,292 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	101,946,431 - 101,962,606 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	101,949,887 - 101,966,062 (-)	NCBI
Celera	6	96,364,396 - 96,380,270 (-)	NCBI		Celera
Cytogenetic Map	6	q24	NCBI

Rdh11
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955466	2,508,338 - 2,520,903 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955466	2,506,641 - 2,521,506 (+)	NCBI	ChiLan1.0	ChiLan1.0

RDH11
(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	15	68,787,353 - 68,806,240 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	68,003,865 - 68,022,747 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	48,256,951 - 48,275,831 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	67,135,366 - 67,154,286 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	67,135,366 - 67,154,286 (-)	Ensembl	panpan1.1		panPan2

RDH11
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	41,651,970 - 41,669,661 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	41,614,921 - 41,669,576 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	41,343,458 - 41,360,794 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	41,881,101 - 41,898,645 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	41,880,751 - 41,898,155 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	41,497,981 - 41,515,586 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	41,571,395 - 41,588,996 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	41,930,720 - 41,948,404 (-)	NCBI		UU_Cfam_GSD_1.0

RDH11
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	91,415,042 - 91,452,405 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	91,415,041 - 91,452,530 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	97,722,352 - 97,759,843 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RDH11
(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	24	44,911,830 - 44,932,632 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	44,909,001 - 44,932,611 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666053	33,141,721 - 33,161,946 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rdh11
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624734	33,283,497 - 33,295,091 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	33,283,336 - 33,295,797 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

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.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005322818	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040274824	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010003700	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000000257 ⟹ ENSSTOP00000000228

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936495	11,066,663 - 11,080,592 (-)	Ensembl

Ensembl Acc Id:

ENSSTOT00000034534 ⟹ ENSSTOP00000028217

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936495	11,066,660 - 11,082,044 (-)	Ensembl

RefSeq Acc Id:

XM_005322818 ⟹ XP_005322875

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024408640	63,109,567 - 63,126,479 (+)	NCBI
SpeTri2.0	NW_004936495	11,065,946 - 11,082,104 (-)	NCBI

Sequence:

show sequence

AAGCCATAGTACTTCAGCAGCGCTGGGGCATCTTGCTCCGCTGCAGCTGCGCCGGCAGAGATGG
TTGAACTCCTGCTCTTGCTCTTCCTGGTCCCCTTTCTCCTGTACGTGACTGCGCCCCAAATCAG
GAAAATGCTGTCTAGTGGGGTGTGCACATCTACTGTCCAGCTTCCTGGGAAGGTAGCTGTAGTC
ACTGGAGCCAACACAGGCATTGGAAAGGAGACAGCTAAAGAGCTGGCTCAAAGAGGAGCCCGTG
TGTATTTAGCTTGCCGGGATATGCAAAAGGGGGAATTGGTGGCCAGAGAGATCCAAGACATGAC
AGGGAACCAGGAGGTGTTGGCACGGAAACTGGACCTGTCTGATACAAAGTCTATTCGAGCCTTT
GCTAAGGACTTCTTAGCACAGGAAAAGCACCTCCACATTTTGATCAACAATGCAGGAGTGATGA
TGTGTCCCTACTCTAAGACAGCAGATGGCTTCGAGATGCACATGGGAGTCAACCACTTGGGTCA
CTTCCTTCTGACCCATCTGCTGCTAGAGAGACTGAAGGAATCAGCCCCATCAAGGGTAGTAAAT
GTGTCTTCCTTAGCACATCACCTGGGAAGGATCCACTTCCATAACCTACAGGGCGAGAAATTCT
ACAATTCAGGTCTAGCCTACTGTCACAGCAAGTTAGCCAACATTCTTTTCACCCAGGAACTGGC
CAGGAGGCTGAAAGGCTCTGGCGTTACCACATATTCTGTACATCCTGGCACAGTCAAATCAGAA
TTGGTTCGGCACTCATCTTTCATGAGGTGGATGTGGTGGCTTTTTTCCTTCTTCATCAAGACTC
CTCAGCAGGGAGCCCAGACCAGCCTGTACTGTGCCTTAACAGAAGGTCTTGAGATTCTAAGTGG
GAATCATTTCAGTGACTGCCATGTGGCATGGGTCTCTGCCCAGGCTCGTAATGAGACAATAGCA
AGAAGACTATGGGATGTCAGCTGTGACCTGCTGGGACTCCCAATGGATTGACTGGTGGTAGTTG
GACCCCAAAGAAGACTGCAGCTGAAGATACAATGCTCCTGACAAAATGTTTCTCCTTCAAGGTG
GCCAAACCTGAAGCACAAAAAGACAAACCTTCTGGCCTAGCCTACGTGGTATCCAGTTAAATTC
CAGTACACTGCCAGACTCATGTTAATACCTTGCATTTGTCCAGACTTACTTTGTTCTTGTTACT
AGCAATATCATTGGATAAGATAACCTCATAAGACCTGCACAGCTCATATTTTCCTTCTGAAACC
TACTCCTACTTAACAGAATCTAAGCTCTGGAAGGTTGATGTTTGGAAATACGGAATAGTCTACC
TTCTTTGTTCACACTGTAATTTCTCTCAACCAACCTTTACTTCAAGGGAGGCACATTGCAACCT
CAGCTGAATCCCACGAGTCACAGTGGCTTGACTCAAAAGCAGGGCTTCATTGCACCAACACTGG
GATTCTTTCAGGAAATCCTTCACTGAATCTGGATTATGGCCTGGCCTTATTTCTCACAACCTAA
AGCCACTGATGTTAAGATATTTACCCAAGTCCAAACCACAGAAGAACTTCCTTTTCTAAGAAGT
TTGTATTTGGGGGAGAGCAGAAATTTTTTAAAAATCAACATGTCATTTTCCTACCATGTCTCAA
ACCAGTAAGAGGGTAACGAAAATAGCATTATTAAACAACAGGCCACTTGGCTGTACTGACTCCA

hide sequence

RefSeq Acc Id:

XM_040274824 ⟹ XP_040130758

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024408640	63,109,203 - 63,126,479 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_005322875	(Get FASTA)	NCBI Sequence Viewer
	XP_040130758	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000000228.3
	ENSSTOP00000028217.1
GenBank Protein	KAG3261247	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005322875 ⟸ XM_005322818
- Peptide Label:	isoform X1
- UniProtKB:	A0A287D3W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MVELLLLLFLVPFLLYVTAPQIRKMLSSGVCTSTVQLPGKVAVVTGANTGIGKETAKELAQRGA RVYLACRDMQKGELVAREIQDMTGNQEVLARKLDLSDTKSIRAFAKDFLAQEKHLHILINNAGV MMCPYSKTADGFEMHMGVNHLGHFLLTHLLLERLKESAPSRVVNVSSLAHHLGRIHFHNLQGEK FYNSGLAYCHSKLANILFTQELARRLKGSGVTTYSVHPGTVKSELVRHSSFMRWMWWLFSFFIK TPQQGAQTSLYCALTEGLEILSGNHFSDCHVAWVSAQARNETIARRLWDVSCDLLGLPMD hide sequence

RefSeq Acc Id:	XP_040130758 ⟸ XM_040274824
- Peptide Label:	isoform X2
- UniProtKB:	I3LW92 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSSTOP00000028217 ⟸ ENSSTOT00000034534

Ensembl Acc Id:

ENSSTOP00000000228 ⟸ ENSSTOT00000000257

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000000258	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000000257.3	UniProtKB/TrEMBL
	ENSSTOT00000034534.1	UniProtKB/TrEMBL
Gene3D-CATH	NAD(P)-binding Rossmann-like Domain	UniProtKB/TrEMBL
InterPro	NAD(P)-bd_dom_sf	UniProtKB/TrEMBL
	SDR_fam	UniProtKB/TrEMBL
NCBI Gene	Rdh11	ENTREZGENE
PANTHER	PHOSPHATIDYLINOSITOL-GLYCAN BIOSYNTHESIS CLASS F PROTEIN-RELATED	UniProtKB/TrEMBL
	RETINOL DEHYDROGENASE 11	UniProtKB/TrEMBL
Pfam	adh_short	UniProtKB/TrEMBL
PRINTS	GDHRDH	UniProtKB/TrEMBL
	SDRFAMILY	UniProtKB/TrEMBL
Superfamily-SCOP	SSF51735	UniProtKB/TrEMBL
UniProt	A0A287D3W7	ENTREZGENE, UniProtKB/TrEMBL
	I3LW92	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-02-13	Rdh11	retinol dehydrogenase 11		retinol dehydrogenase 11 (all-trans/9-cis/11-cis)	Symbol and/or name change	5135510	APPROVED

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

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB