Rdh12 (retinol dehydrogenase 12) - Rat Genome Database

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Gene: Rdh12 (retinol dehydrogenase 12) Mus musculus
Analyze
Symbol: Rdh12
Name: retinol dehydrogenase 12
RGD ID: 1321377
MGI Page MGI
Description: Enables NAD-retinol dehydrogenase activity. Involved in cellular detoxification of aldehyde; retinol metabolic process; and visual perception. Located in photoreceptor inner segment. Is expressed in retina inner nuclear layer and retina outer nuclear layer. Human ortholog(s) of this gene implicated in Leber congenital amaurosis 13 and Leber hereditary optic neuropathy. Orthologous to human RDH12 (retinol dehydrogenase 12).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: A930033N07Rik
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391279,255,687 - 79,269,438 (+)NCBIGRCm39mm39
GRCm39 Ensembl1279,255,688 - 79,269,439 (+)Ensembl
GRCm381279,208,913 - 79,222,664 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1279,208,914 - 79,222,665 (+)EnsemblGRCm38mm10GRCm38
MGSCv371280,309,901 - 80,323,648 (+)NCBIGRCm37mm9NCBIm37
MGSCv361280,127,754 - 80,141,501 (+)NCBImm8
Celera1280,673,293 - 80,687,040 (+)NCBICelera
Cytogenetic Map12C3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12226107   PMID:12477932   PMID:14681479   PMID:15226823   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16406282  
PMID:17032653   PMID:17130236   PMID:18048336   PMID:18326732   PMID:19506076   PMID:19553623   PMID:19686838   PMID:19805139   PMID:20801113   PMID:21873635   PMID:22621924   PMID:22911456  
PMID:22967998   PMID:33500475  


Genomics

Comparative Map Data
Rdh12
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391279,255,687 - 79,269,438 (+)NCBIGRCm39mm39
GRCm39 Ensembl1279,255,688 - 79,269,439 (+)Ensembl
GRCm381279,208,913 - 79,222,664 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1279,208,914 - 79,222,665 (+)EnsemblGRCm38mm10GRCm38
MGSCv371280,309,901 - 80,323,648 (+)NCBIGRCm37mm9NCBIm37
MGSCv361280,127,754 - 80,141,501 (+)NCBImm8
Celera1280,673,293 - 80,687,040 (+)NCBICelera
Cytogenetic Map12C3NCBI
RDH12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1467,701,886 - 67,734,451 (+)EnsemblGRCh38hg38GRCh38
GRCh381467,701,886 - 67,734,451 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371468,168,603 - 68,201,168 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361467,258,943 - 67,270,921 (+)NCBINCBI36hg18NCBI36
Build 341467,258,942 - 67,270,920NCBI
Celera1448,227,645 - 48,260,203 (+)NCBI
Cytogenetic Map14q24.1NCBI
HuRef1448,338,282 - 48,370,752 (+)NCBIHuRef
CHM1_11468,107,353 - 68,139,905 (+)NCBICHM1_1
Rdh12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2698,015,465 - 98,028,388 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl698,015,465 - 98,028,388 (+)Ensembl
Rnor_6.06102,392,828 - 102,405,750 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6102,392,828 - 102,405,750 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06115,079,502 - 115,092,424 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46101,982,815 - 101,995,737 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16101,978,778 - 101,998,720 (+)NCBI
Celera696,400,484 - 96,413,406 (+)NCBICelera
Cytogenetic Map6q24NCBI
Rdh12
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554662,473,096 - 2,487,623 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554662,473,145 - 2,485,779 (-)NCBIChiLan1.0ChiLan1.0
RDH12
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11467,180,696 - 67,192,345 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1467,180,696 - 67,192,345 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01448,297,854 - 48,314,502 (+)NCBIMhudiblu_PPA_v0panPan3
RDH12
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1841,685,045 - 41,696,120 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl841,684,996 - 41,695,447 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha841,376,188 - 41,387,256 (+)NCBI
ROS_Cfam_1.0841,915,013 - 41,926,089 (+)NCBI
UMICH_Zoey_3.1841,530,993 - 41,542,054 (+)NCBI
UNSW_CanFamBas_1.0841,604,398 - 41,615,461 (+)NCBI
UU_Cfam_GSD_1.0841,963,799 - 41,974,867 (+)NCBI
Rdh12
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864063,069,723 - 63,080,452 (-)NCBI
SpeTri2.0NW_00493649511,111,247 - 11,121,976 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RDH12
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl791,481,273 - 91,494,923 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1791,481,238 - 91,493,838 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2797,788,539 - 97,802,631 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RDH12
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12444,957,854 - 44,971,855 (+)NCBI
ChlSab1.1 Ensembl2444,959,921 - 44,971,836 (+)Ensembl
Vero_WHO_p1.0NW_02366605333,183,713 - 33,200,221 (+)NCBI
Rdh12
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473433,256,469 - 33,266,085 (-)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12950000084100000Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121161000097210000Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121754644680910109Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235235497109969809Mouse
1357479Splwt1_mspleen weight 1 (mouse)Not determined124164639290920752Mouse
1357757Lnopy2_mlens opacity 2 (mouse)Not determined125279985286800022Mouse
1357749Vtbt13_mvertebral trabecular bone trait 13 (mouse)Not determined125308522887085371Mouse
12832727Ahrq1_mairway hyperresponsiveness QTL 1 (mouse)125464912582619165Mouse
4140993Tglq2b_mtriglyceride QTL 2b (mouse)Not determined125529146189291675Mouse
9850127Tglq6_mtriglyceride QTL6 (mouse)Not determined125529146189291675Mouse
27226728Tibl20_mtibia length 20, 16 week (mouse)125910000093900000Mouse
27226776Tibl6_mtibia length 6, 5 week (mouse)126060000092700000Mouse
10043948Pbft6_mpercent body fat 6 (mouse)Not determined126115865395158653Mouse
1301476Pbwg12_mpostnatal body weight growth 12 (mouse)Not determined126199339095993590Mouse
27226797Scvln19_msacral vertebrae length 2, 16 week (mouse)126210000099500000Mouse
10043895Bw20_mbody weight QTL 20 (mouse)Not determined126226147896261478Mouse
1301046Par3_mpulmonary adenoma resistance 3 (mouse)Not determined126390993497910109Mouse
1301337Cdcs8_mcytokine deficiency colitis susceptibility 8 (mouse)Not determined126464230998642455Mouse
1300633Cdcs7_mcytokine deficiency colitis susceptibility 7 (mouse)Not determined126464230998642455Mouse
14746976Manh73_mmandible shape 73 (mouse)126581035799810357Mouse
27226771Tibl14_mtibia length 14, 10 week (mouse)126830000098800000Mouse
27226793Feml10_mfemur length 10, 5 week (mouse)1268300000113400000Mouse
4141738Tgq23_mtriglyceride QTL 23 (mouse)Not determined72146107106146107Mouse
1301689Skull18_mskull morphology 18 (mouse)Not determined1273920648107920752Mouse
1301926Adip6_madiposity 6 (mouse)Not determined1273920648107920752Mouse
13524842Ppiq10a_mprepulse inhibition QTL 10a (mouse)1277545446111545446Mouse
1301868Fbgl1_mfasting blood glucose 1 (mouse)Not determined127899339083115437Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:676
Count of miRNA genes:344
Interacting mature miRNAs:372
Transcripts:ENSMUST00000021548, ENSMUST00000122227, ENSMUST00000140823, ENSMUST00000151980
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000021548   ⟹   ENSMUSP00000021548
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1279,255,688 - 79,269,439 (+)Ensembl
GRCm38.p6 Ensembl1279,208,914 - 79,222,665 (+)Ensembl
RefSeq Acc Id: ENSMUST00000122227   ⟹   ENSMUSP00000112543
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1279,255,705 - 79,269,438 (+)Ensembl
GRCm38.p6 Ensembl1279,208,931 - 79,222,664 (+)Ensembl
RefSeq Acc Id: ENSMUST00000140823   ⟹   ENSMUSP00000118851
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1279,257,435 - 79,259,529 (+)Ensembl
GRCm38.p6 Ensembl1279,210,661 - 79,212,755 (+)Ensembl
RefSeq Acc Id: ENSMUST00000151980
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1279,255,721 - 79,269,438 (+)Ensembl
GRCm38.p6 Ensembl1279,208,947 - 79,222,664 (+)Ensembl
RefSeq Acc Id: NM_001313971   ⟹   NP_001300900
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391279,255,687 - 79,269,438 (+)NCBI
GRCm381279,208,913 - 79,222,664 (+)NCBI
Sequence:
RefSeq Acc Id: NM_030017   ⟹   NP_084293
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391279,255,687 - 79,269,438 (+)NCBI
GRCm381279,208,913 - 79,222,664 (+)NCBI
MGSCv371280,309,901 - 80,323,648 (+)RGD
Celera1280,673,293 - 80,687,040 (+)RGD
cM Map12 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_084293   ⟸   NM_030017
- Peptide Label: isoform 1 precursor
- UniProtKB: Q8BYK4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001300900   ⟸   NM_001313971
- Peptide Label: isoform 2 precursor
- UniProtKB: Q8BYK4 (UniProtKB/Swiss-Prot),   A0A0R4J1M3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000118851   ⟸   ENSMUST00000140823
RefSeq Acc Id: ENSMUSP00000021548   ⟸   ENSMUST00000021548
RefSeq Acc Id: ENSMUSP00000112543   ⟸   ENSMUST00000122227

Promoters
RGD ID:8678644
Promoter ID:EPDNEW_M17353
Type:multiple initiation site
Name:Rdh12_1
Description:Mus musculus retinol dehydrogenase 12 , transcript variant 1,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381279,208,914 - 79,208,974EPDNEW
RGD ID:6823317
Promoter ID:MM_KWN:12037
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   MEF_B6
Transcripts:ENSMUST00000122227,   OTTMUST00000068427,   OTTMUST00000068428,   UC007OAB.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361280,309,736 - 80,310,236 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1925224 AgrOrtholog
Ensembl Genes ENSMUSG00000021123 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000021548 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000112543 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000118851 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000021548 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000122227 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000140823 UniProtKB/TrEMBL
InterPro NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SDR_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:77974 UniProtKB/Swiss-Prot
MGD MGI:1925224 ENTREZGENE
NCBI Gene 77974 ENTREZGENE
Pfam adh_short UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rdh12 PhenoGen
PRINTS GDHRDH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SDRFAMILY UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51735 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0R4J1M3 ENTREZGENE, UniProtKB/TrEMBL
  D3YY80_MOUSE UniProtKB/TrEMBL
  Q8BYK4 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q91WA5 UniProtKB/Swiss-Prot
  Q9D1Y4 UniProtKB/Swiss-Prot