Slc35d3 (solute carrier family 35, member D3) - Rat Genome Database

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Gene: Slc35d3 (solute carrier family 35, member D3) Rattus norvegicus
Analyze
Symbol: Slc35d3
Name: solute carrier family 35, member D3
RGD ID: 1309428
Description: Predicted to enable UDP-glucose transmembrane transporter activity; antiporter activity; and protein-macromolecule adaptor activity. Predicted to be involved in UDP-glucose transmembrane transport; platelet dense granule organization; and positive regulation of autophagy. Predicted to act upstream of or within energy homeostasis and positive regulation of protein exit from endoplasmic reticulum. Predicted to be located in early endosome and endoplasmic reticulum. Predicted to be active in Golgi apparatus; early endosome membrane; and synaptic vesicle membrane. Orthologous to human SLC35D3 (solute carrier family 35 member D3); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC308717; solute carrier family 35 member D3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8116,389,308 - 16,392,780 (-)NCBIGRCr8
mRatBN7.2114,565,482 - 14,573,581 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl114,569,687 - 14,573,159 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx114,335,296 - 14,338,768 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0120,337,155 - 20,340,627 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0114,549,836 - 14,553,308 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0115,298,526 - 15,301,998 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl115,298,526 - 15,301,998 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0116,846,809 - 16,850,281 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4115,086,254 - 15,089,726 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1115,087,204 - 15,089,512 (-)NCBI
Celera113,011,985 - 13,015,457 (-)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:24550737  


Genomics

Comparative Map Data
Slc35d3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8116,389,308 - 16,392,780 (-)NCBIGRCr8
mRatBN7.2114,565,482 - 14,573,581 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl114,569,687 - 14,573,159 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx114,335,296 - 14,338,768 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0120,337,155 - 20,340,627 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0114,549,836 - 14,553,308 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0115,298,526 - 15,301,998 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl115,298,526 - 15,301,998 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0116,846,809 - 16,850,281 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4115,086,254 - 15,089,726 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1115,087,204 - 15,089,512 (-)NCBI
Celera113,011,985 - 13,015,457 (-)NCBICelera
Cytogenetic Map1p12NCBI
SLC35D3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386136,922,301 - 136,925,660 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6136,922,301 - 136,925,660 (+)EnsemblGRCh38hg38GRCh38
GRCh376137,243,439 - 137,246,798 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366137,285,095 - 137,288,470 (+)NCBINCBI36Build 36hg18NCBI36
Celera6137,983,854 - 137,987,229 (+)NCBICelera
Cytogenetic Map6q23.3NCBI
HuRef6134,808,122 - 134,811,497 (+)NCBIHuRef
CHM1_16137,506,035 - 137,509,410 (+)NCBICHM1_1
T2T-CHM13v2.06138,110,480 - 138,113,839 (+)NCBIT2T-CHM13v2.0
Slc35d3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391019,723,662 - 19,728,195 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1019,723,662 - 19,727,205 (-)EnsemblGRCm39 Ensembl
GRCm381019,847,917 - 19,856,634 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1019,847,916 - 19,851,459 (-)EnsemblGRCm38mm10GRCm38
MGSCv371019,567,723 - 19,571,265 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361019,537,333 - 19,540,875 (-)NCBIMGSCv36mm8
Celera1019,734,650 - 19,738,192 (-)NCBICelera
Cytogenetic Map10A3NCBI
cM Map109.12NCBI
Slc35d3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543960,615 - 64,052 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543960,689 - 63,968 (-)NCBIChiLan1.0ChiLan1.0
SLC35D3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25156,889,218 - 156,892,966 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16154,788,330 - 154,791,733 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06134,683,339 - 134,686,731 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16138,771,529 - 138,774,860 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6138,771,529 - 138,774,860 (+)Ensemblpanpan1.1panPan2
SLC35D3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1129,426,003 - 29,429,272 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl129,425,559 - 29,428,270 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha130,308,618 - 30,312,294 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0129,587,167 - 29,590,852 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl129,587,177 - 29,590,388 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1129,472,073 - 29,475,736 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0129,357,253 - 29,360,919 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0129,656,307 - 29,659,976 (+)NCBIUU_Cfam_GSD_1.0
Slc35d3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946124,529,177 - 124,534,182 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365604,308,928 - 4,313,347 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365604,309,136 - 4,313,259 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC35D3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl127,246,752 - 27,250,254 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1127,246,742 - 27,250,476 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2130,637,620 - 30,640,261 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC35D3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11336,475,017 - 36,478,506 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1336,475,981 - 36,478,292 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660408,662,442 - 8,669,609 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc35d3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624886867,631 - 870,247 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624886867,131 - 870,282 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc35d3
24 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:147
Count of miRNA genes:99
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000016400
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1224439043433040Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1439328949393289Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1592587724697545Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)1985600154856001Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11099206555992065Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11148131275088344Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11148148232355910Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)11183518156835181Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system respiratory system
High
Medium 6 6 6
Low 2 6 24 16 8 16 64 2 16
Below cutoff 1 6 1 4 10 8 12 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016400   ⟹   ENSRNOP00000016400
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl114,569,687 - 14,573,159 (-)Ensembl
Rnor_6.0 Ensembl115,298,526 - 15,301,998 (-)Ensembl
RefSeq Acc Id: NM_001107522   ⟹   NP_001100992
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8116,389,308 - 16,392,780 (-)NCBI
mRatBN7.2114,569,687 - 14,573,159 (-)NCBI
Rnor_6.0115,298,526 - 15,301,998 (-)NCBI
Rnor_5.0116,846,809 - 16,850,281 (-)NCBI
RGSC_v3.4115,086,254 - 15,089,726 (-)RGD
Celera113,011,985 - 13,015,457 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100992 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL93789 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016400
  ENSRNOP00000016400.4
Reference Protein Sequences
RefSeq Acc Id: NP_001100992   ⟸   NM_001107522
- UniProtKB: D4A5L7 (UniProtKB/TrEMBL),   A6JPB7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016400   ⟸   ENSRNOT00000016400

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5L7-F1-model_v2 AlphaFold D4A5L7 1-420 view protein structure

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:1309428 AgrOrtholog
BioCyc Gene G2FUF-62217 BioCyc
Ensembl Genes ENSRNOG00000012311 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016400 ENTREZGENE
  ENSRNOT00000016400.5 UniProtKB/TrEMBL
KEGG Report rno:308717 UniProtKB/TrEMBL
NCBI Gene 308717 ENTREZGENE
PANTHER SOLUTE CARRIER FAMILY 35 UniProtKB/TrEMBL
  SOLUTE CARRIER FAMILY 35 MEMBER D3 UniProtKB/TrEMBL
PhenoGen Slc35d3 PhenoGen
RatGTEx ENSRNOG00000012311 RatGTEx
UniProt A6JPB7 ENTREZGENE, UniProtKB/TrEMBL
  D4A5L7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Slc35d3  solute carrier family 35, member D3   Slc35d3_predicted  solute carrier family 35, member D3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Slc35d3_predicted  solute carrier family 35, member D3 (predicted)      Symbol and Name status set to approved 70820 APPROVED