LOC101970041 (short chain dehydrogenase/reductase family 16C member 5) - Rat Genome Database

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Gene: LOC101970041 (short chain dehydrogenase/reductase family 16C member 5) Ictidomys tridecemlineatus
Analyze
Symbol: LOC101970041 (Ensembl: SDR16C5)
Name: short chain dehydrogenase/reductase family 16C member 5
RGD ID: 12636415
Description: ENCODES a protein that exhibits all-trans-retinol dehydrogenase (NAD+) activity (inferred); DNA-binding transcription factor binding (inferred); RNA polymerase II-specific DNA-binding transcription factor binding (inferred); INVOLVED IN keratinocyte proliferation (inferred); negative regulation of gene expression, epigenetic (inferred); negative regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN chromatin (inferred); endoplasmic reticulum (inferred); endoplasmic reticulum membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: epidermal retinol dehydrogenase 2; Sdr16c5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530371,848,195 - 71,865,912 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364962,919,522 - 2,937,274 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364962,919,611 - 2,937,274 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
LOC101970041
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530371,848,195 - 71,865,912 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364962,919,522 - 2,937,274 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364962,919,611 - 2,937,274 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDR16C5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38856,300,005 - 56,320,175 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl856,300,005 - 56,320,776 (-)EnsemblGRCh38hg38GRCh38
GRCh37857,212,564 - 57,232,734 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36857,375,122 - 57,395,795 (-)NCBINCBI36Build 36hg18NCBI36
Celera853,202,994 - 53,224,037 (-)NCBICelera
Cytogenetic Map8q12.1NCBI
HuRef852,679,741 - 52,700,502 (-)NCBIHuRef
CHM1_1857,264,741 - 57,285,268 (-)NCBICHM1_1
T2T-CHM13v2.0856,677,119 - 56,697,312 (-)NCBIT2T-CHM13v2.0
Sdr16c5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3943,995,942 - 4,019,663 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl43,995,936 - 4,019,663 (-)EnsemblGRCm39 Ensembl
GRCm3843,995,942 - 4,019,663 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl43,995,936 - 4,019,663 (-)EnsemblGRCm38mm10GRCm38
MGSCv3743,923,089 - 3,946,810 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3643,923,089 - 3,946,810 (-)NCBIMGSCv36mm8
Celera43,952,520 - 3,977,907 (-)NCBICelera
Cytogenetic Map4A1NCBI
cM Map42.23NCBI
Sdr16c5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8521,816,394 - 21,841,596 (-)NCBIGRCr8
mRatBN7.2517,018,813 - 17,043,974 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl517,018,813 - 17,040,970 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx519,259,704 - 19,281,871 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0520,858,201 - 20,880,369 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0520,609,663 - 20,631,775 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0516,904,926 - 16,930,111 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl516,904,926 - 16,930,075 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0521,681,674 - 21,706,737 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4517,339,715 - 17,361,781 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera516,384,689 - 16,406,286 (-)NCBICelera
Cytogenetic Map5q12NCBI
Sdr16c5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545415,339,297 - 15,351,628 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545415,339,353 - 15,349,180 (-)NCBIChiLan1.0ChiLan1.0
SDR16C5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2771,957,777 - 71,980,560 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1847,682,331 - 47,707,254 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0852,746,371 - 52,769,269 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1850,116,544 - 50,137,811 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl850,113,413 - 50,137,717 (-)Ensemblpanpan1.1panPan2
SDR16C5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1297,660,882 - 7,679,705 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl297,661,633 - 7,679,622 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha297,974,333 - 7,992,397 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0297,736,172 - 7,754,244 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl297,736,172 - 7,754,161 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1297,749,727 - 7,768,520 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0297,881,428 - 7,900,176 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0298,159,225 - 8,177,611 (-)NCBIUU_Cfam_GSD_1.0
SDR16C5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl475,586,525 - 75,598,989 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1475,586,346 - 75,598,985 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2482,505,913 - 82,518,540 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103236829
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1852,330,362 - 52,365,253 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl852,330,731 - 52,351,250 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603989,442,391 - 89,462,973 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005322929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000002731   ⟹   ENSSTOP00000002443
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364962,919,522 - 2,937,274 (-)Ensembl
RefSeq Acc Id: XM_005322929   ⟹   XP_005322986
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530371,848,195 - 71,865,912 (+)NCBI
SpeTri2.0NW_0049364962,919,611 - 2,937,274 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005322986 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000002443.3
GenBank Protein KAG3274133 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005322986   ⟸   XM_005322929
- UniProtKB: I3M101 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000002443   ⟸   ENSSTOT00000002731


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000002736 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000002731.3 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 Sdr16c5 ENTREZGENE
PANTHER EPIDERMAL RETINOL DEHYDROGENASE 2 UniProtKB/TrEMBL
  PKSB UniProtKB/TrEMBL
Pfam adh_short UniProtKB/TrEMBL
PRINTS GDHRDH UniProtKB/TrEMBL
  SDRFAMILY UniProtKB/TrEMBL
Superfamily-SCOP SSF51735 UniProtKB/TrEMBL
UniProt I3M101 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-26 LOC101970041  short chain dehydrogenase/reductase family 16C member 5  Sdr16c5  short chain dehydrogenase/reductase family 16C member 5  Symbol and/or name change 5135510 APPROVED