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); 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 Orthologs
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


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

RNA-SEQ 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

Ensembl 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  
RefSeq Acc Id: XP_005322986   ⟸   XM_005322929
- UniProtKB: I3M101 (UniProtKB/TrEMBL)
- Sequence:
Ensembl 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