Sdr16c6 (short chain dehydrogenase/reductase family 16C, member 6) - Rat Genome Database

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Gene: Sdr16c6 (short chain dehydrogenase/reductase family 16C, member 6) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Sdr16c6
Name: short chain dehydrogenase/reductase family 16C, member 6
RGD ID: 1562060
Description: Predicted to enable oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor. Predicted to be active in lipid droplet; INTERACTS WITH 6-propyl-2-thiouracil; acetamide; aflatoxin B1.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC502939; RGD1562060; short-chain dehydrogenase/reductase family 16C member 6; similar to short chain dehydrogenase reductase 9
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8521,892,783 - 21,916,314 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl521,892,783 - 22,062,233 (-)EnsemblGRCr8
mRatBN7.2517,095,208 - 17,118,713 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl517,095,208 - 17,118,224 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl517,095,208 - 17,264,660 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx519,320,379 - 19,343,886 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0520,918,877 - 20,942,384 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0520,672,112 - 20,695,616 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0516,972,521 - 16,996,010 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl516,972,547 - 16,995,521 (-)Ensemblrn6Rnor6.0
Rnor_5.0521,748,179 - 21,771,668 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4517,414,523 - 17,438,458 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera516,446,851 - 16,470,356 (-)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Sdr16c6
198 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:104
Interacting mature miRNAs:110
Transcripts:ENSRNOT00000061780
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)51373115343590997Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5862723052665523Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51460607859606078Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1578774Tcas8Tongue tumor susceptibility QTL 83.47tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)51570745160707451Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5692228237468560Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)51297048025683802Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5862723053627230Rat


Expression

RNA-SEQ Expression

appendage
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
1 15 21 27 17 2 17 6 23 3 9 2 18 10 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000061780   ⟹   ENSRNOP00000058494
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl521,892,783 - 22,062,233 (-)Ensembl
mRatBN7.2 Ensembl517,095,208 - 17,264,660 (-)Ensembl
Rnor_6.0 Ensembl516,973,114 - 16,995,304 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000080197   ⟹   ENSRNOP00000073274
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl517,095,208 - 17,118,224 (-)Ensembl
Rnor_6.0 Ensembl516,972,547 - 16,995,521 (-)Ensembl
RefSeq Acc Id: NM_001109356   ⟹   NP_001102826
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8521,892,783 - 21,916,288 (-)NCBI
mRatBN7.2517,095,208 - 17,118,713 (-)NCBI
Rnor_6.0516,972,521 - 16,996,010 (-)NCBI
Rnor_5.0521,748,179 - 21,771,668 (-)NCBI
RGSC_v3.4517,414,523 - 17,438,458 (-)RGD
Celera516,446,851 - 16,470,356 (-)RGD
Sequence:
RefSeq Acc Id: XM_063288310   ⟹   XP_063144380
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8521,892,789 - 21,916,314 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102826 (Get FASTA)   NCBI Sequence Viewer  
  XP_063144380 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM11622 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000058494
  ENSRNOP00000058494.5
RefSeq Acc Id: NP_001102826   ⟸   NM_001109356
- UniProtKB: D3ZN35 (UniProtKB/TrEMBL),   A6JFM6 (UniProtKB/TrEMBL),   A0A0G2K534 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000073274   ⟸   ENSRNOT00000080197
Ensembl Acc Id: ENSRNOP00000058494   ⟸   ENSRNOT00000061780
RefSeq Acc Id: XP_063144380   ⟸   XM_063288310
- Peptide Label: isoform X1

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562060 AgrOrtholog
BioCyc Gene G2FUF-42109 BioCyc
Ensembl Genes ENSRNOG00000040151 Ensembl
  ENSRNOG00000067216 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061780 ENTREZGENE
  ENSRNOT00000061780.7 UniProtKB/TrEMBL
Gene3D-CATH NAD(P)-binding Rossmann-like Domain UniProtKB/TrEMBL
InterPro Glc/ribitol_DH UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/TrEMBL
KEGG Report rno:502939 UniProtKB/TrEMBL
NCBI Gene 502939 ENTREZGENE
PANTHER PKSB UniProtKB/TrEMBL
  SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 16C MEMBER 6 UniProtKB/TrEMBL
Pfam adh_short UniProtKB/TrEMBL
PhenoGen Sdr16c6 PhenoGen
PRINTS GDHRDH UniProtKB/TrEMBL
  SDRFAMILY UniProtKB/TrEMBL
RatGTEx ENSRNOG00000040151 RatGTEx
  ENSRNOG00000067216 RatGTEx
Superfamily-SCOP SSF51735 UniProtKB/TrEMBL
UniProt A0A0G2K534 ENTREZGENE
  A6JFM6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZN35 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-06-12 Sdr16c6  short chain dehydrogenase/reductase family 16C, member 6  RGD1562060  similar to short chain dehydrogenase reductase 9   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1562060  similar to short chain dehydrogenase reductase 9   RGD1562060_predicted  similar to short chain dehydrogenase reductase 9 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562060_predicted  similar to short chain dehydrogenase reductase 9 (predicted)  LOC502939  similar to short chain dehydrogenase reductase 9  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502939  similar to short chain dehydrogenase reductase 9      Symbol and Name status set to provisional 70820 PROVISIONAL