Slc45a4 (solute carrier family 45, member 4) - Rat Genome Database

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Gene: Slc45a4 (solute carrier family 45, member 4) Rattus norvegicus
Analyze
Symbol: Slc45a4
Name: solute carrier family 45, member 4
RGD ID: 1309971
Description: Predicted to enable sucrose:proton symporter activity. Predicted to act upstream of or within carbohydrate transmembrane transport; proton transmembrane transport; and sucrose transport. Predicted to be active in membrane. Orthologous to human SLC45A4 (solute carrier family 45 member 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amitrole; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC315054; RGD1309971; similar to KIAA1126 protein; solute carrier family 45 member 4
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27105,478,886 - 105,550,160 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7105,481,792 - 105,550,170 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.07114,817,817 - 114,888,998 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7114,821,971 - 114,848,414 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07114,741,753 - 114,812,934 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47111,283,726 - 111,311,116 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17111,317,959 - 111,345,614 (-)NCBI
Celera7101,886,429 - 101,957,293 (-)NCBICelera
Cytogenetic Map7q34NCBI
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

Biological Process

Cellular Component
membrane  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:25164149  


Genomics

Comparative Map Data
Slc45a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27105,478,886 - 105,550,160 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7105,481,792 - 105,550,170 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.07114,817,817 - 114,888,998 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7114,821,971 - 114,848,414 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07114,741,753 - 114,812,934 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47111,283,726 - 111,311,116 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17111,317,959 - 111,345,614 (-)NCBI
Celera7101,886,429 - 101,957,293 (-)NCBICelera
Cytogenetic Map7q34NCBI
SLC45A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388141,207,174 - 141,308,288 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8141,207,166 - 141,308,305 (-)EnsemblGRCh38hg38GRCh38
GRCh378142,217,273 - 142,318,387 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368142,290,052 - 142,307,855 (-)NCBINCBI36Build 36hg18NCBI36
Celera8138,389,005 - 138,406,794 (-)NCBICelera
Cytogenetic Map8q24.3NCBI
HuRef8137,532,408 - 137,550,219 (-)NCBIHuRef
CHM1_18142,261,599 - 142,279,408 (-)NCBICHM1_1
T2T-CHM13v2.08142,328,543 - 142,429,759 (-)NCBIT2T-CHM13v2.0
Slc45a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391573,449,267 - 73,517,606 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1573,449,273 - 73,517,611 (-)EnsemblGRCm39 Ensembl
GRCm381573,577,418 - 73,645,757 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1573,577,424 - 73,645,762 (-)EnsemblGRCm38mm10GRCm38
MGSCv371573,410,720 - 73,455,174 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361573,408,813 - 73,452,000 (-)NCBIMGSCv36mm8
Celera1575,084,641 - 75,130,643 (-)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1534.02NCBI
SLC45A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan18134,112,108 - 134,236,388 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v08137,882,787 - 137,984,483 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.18140,966,259 - 141,064,663 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8140,969,934 - 141,012,735 (-)Ensemblpanpan1.1panPan2
SLC45A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11335,704,780 - 35,787,037 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1335,707,692 - 35,748,183 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1335,568,115 - 35,646,057 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01336,094,384 - 36,172,646 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1336,093,124 - 36,130,678 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11335,814,440 - 35,892,822 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01335,904,198 - 35,982,562 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01336,324,387 - 36,402,945 (-)NCBIUU_Cfam_GSD_1.0
Slc45a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244053032,743,881 - 2,790,191 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647010,178,344 - 10,216,304 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647010,178,399 - 10,216,290 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC45A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl42,472,259 - 2,518,885 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.142,471,269 - 2,523,041 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.241,995,224 - 2,034,074 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC45A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18135,449,973 - 135,544,275 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl8135,450,220 - 135,492,234 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660394,585,037 - 4,684,960 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc45a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473515,067,526 - 15,145,932 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473515,067,474 - 15,150,553 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc45a4
175 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:77
Count of miRNA genes:64
Interacting mature miRNAs:75
Transcripts:ENSRNOT00000032620
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
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)780221299109401111Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)793595647106839474Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat

Markers in Region
RH131209  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27105,481,946 - 105,482,141 (+)MAPPERmRatBN7.2
Rnor_6.07114,820,879 - 114,821,073NCBIRnor6.0
Rnor_5.07114,744,815 - 114,745,009UniSTSRnor5.0
RGSC_v3.47111,283,887 - 111,284,081UniSTSRGSC3.4
Celera7101,889,491 - 101,889,685UniSTS
RH 3.4 Map7755.11UniSTS
Cytogenetic Map7q34UniSTS
AW552276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27105,482,210 - 105,482,334 (+)MAPPERmRatBN7.2
Rnor_6.07114,821,143 - 114,821,266NCBIRnor6.0
Rnor_5.07114,745,079 - 114,745,202UniSTSRnor5.0
RGSC_v3.47111,284,151 - 111,284,274UniSTSRGSC3.4
Celera7101,889,755 - 101,889,878UniSTS
Cytogenetic Map7q34UniSTS
RH142939  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27105,526,100 - 105,526,328 (+)MAPPERmRatBN7.2
Rnor_6.07114,865,076 - 114,865,303NCBIRnor6.0
Rnor_5.07114,789,012 - 114,789,239UniSTSRnor5.0
RGSC_v3.47111,328,039 - 111,328,266UniSTSRGSC3.4
Celera7101,933,641 - 101,933,868UniSTS
RH 3.4 Map7751.2UniSTS
Cytogenetic Map7q34UniSTS


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 integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 26 9 7 8 7 60 29 40 6
Low 3 17 48 34 11 34 8 11 14 6 1 5 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000032620   ⟹   ENSRNOP00000029754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7105,481,792 - 105,550,170 (-)Ensembl
Rnor_6.0 Ensembl7114,821,971 - 114,848,414 (-)Ensembl
RefSeq Acc Id: XM_006241741   ⟹   XP_006241803
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27105,483,238 - 105,549,852 (-)NCBI
Rnor_6.07114,817,817 - 114,888,998 (-)NCBI
Rnor_5.07114,741,753 - 114,812,934 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765604   ⟹   XP_008763826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27105,478,886 - 105,509,050 (-)NCBI
Rnor_6.07114,817,817 - 114,848,821 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080226   ⟹   XP_038936154
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27105,483,238 - 105,550,160 (-)NCBI
RefSeq Acc Id: XM_039080227   ⟹   XP_038936155
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27105,483,238 - 105,526,562 (-)NCBI
Protein Sequences
Protein RefSeqs XP_006241803 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763826 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936154 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936155 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM16115 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000029754
  ENSRNOP00000029754.6
RefSeq Acc Id: XP_006241803   ⟸   XM_006241741
- UniProtKB: D4ADC6 (UniProtKB/TrEMBL),   A6HRV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763826   ⟸   XM_008765604
- UniProtKB: D4ADC6 (UniProtKB/TrEMBL),   A6HRV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000029754   ⟸   ENSRNOT00000032620
RefSeq Acc Id: XP_038936154   ⟸   XM_039080226
- UniProtKB: A6HRV7 (UniProtKB/TrEMBL),   D4ADC6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038936155   ⟸   XM_039080227
- UniProtKB: A6HRV7 (UniProtKB/TrEMBL),   D4ADC6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADC6-F1-model_v2 AlphaFold D4ADC6 1-785 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:1309971 AgrOrtholog
BioCyc Gene G2FUF-33050 BioCyc
Ensembl Genes ENSRNOG00000007818 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032620 ENTREZGENE
  ENSRNOT00000032620.7 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.20 UniProtKB/TrEMBL
InterPro MFS_trans_sf UniProtKB/TrEMBL
NCBI Gene 315054 ENTREZGENE
PANTHER SOLUTE CARRIER FAMILY 45 MEMBER 4 UniProtKB/TrEMBL
  SUGAR TRANSPORTER UniProtKB/TrEMBL
PhenoGen Slc45a4 PhenoGen
RatGTEx ENSRNOG00000007818 RatGTEx
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
UniProt A6HRV7 ENTREZGENE, UniProtKB/TrEMBL
  D4ADC6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-26 Slc45a4  solute carrier family 45, member 4  RGD1309971_predicted  similar to KIAA1126 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1309971_predicted  similar to KIAA1126 protein (predicted)  LOC315054_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315054_predicted  similar to KIAA1126 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL