Slc36a4 (solute carrier family 36 member 4) - Rat Genome Database

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Gene: Slc36a4 (solute carrier family 36 member 4) Rattus norvegicus
Analyze
Symbol: Slc36a4
Name: solute carrier family 36 member 4
RGD ID: 1311528
Description: Predicted to enable L-alanine transmembrane transporter activity; L-proline transmembrane transporter activity; and L-tryptophan transmembrane transporter activity. Predicted to be involved in amino acid transmembrane transport and carboxylic acid transport. Predicted to be located in lysosomal membrane. Predicted to be active in vacuolar membrane. Orthologous to human SLC36A4 (solute carrier family 36 member 4); PARTICIPATES IN nicotinamide adenine dinucleotide metabolic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC315439; neutral amino acid uniporter 4; proton-coupled amino acid transporter 4; solute carrier family 36 (proton/amino acid symporter), member 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8820,801,256 - 20,834,046 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl820,801,289 - 20,834,044 (+)EnsemblGRCr8
mRatBN7.2812,519,613 - 12,552,671 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl812,519,943 - 12,552,031 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx816,506,726 - 16,536,678 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0814,804,480 - 14,834,432 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0812,782,331 - 12,813,520 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0814,238,975 - 14,271,931 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl814,239,594 - 14,269,162 (+)Ensemblrn6Rnor6.0
Rnor_5.0814,329,327 - 14,360,233 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4812,504,817 - 12,534,782 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera813,985,685 - 14,015,651 (+)NCBICelera
RGSC_v3.1812,504,818 - 12,533,407 (+)NCBI
Cytogenetic Map8q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. The human NAD metabolome: Functions, metabolism and compartmentalization. Nikiforov A, etal., Crit Rev Biochem Mol Biol. 2015;50(4):284-97. doi: 10.3109/10409238.2015.1028612. Epub 2015 Apr 2.
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21097500  


Genomics

Comparative Map Data
Slc36a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8820,801,256 - 20,834,046 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl820,801,289 - 20,834,044 (+)EnsemblGRCr8
mRatBN7.2812,519,613 - 12,552,671 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl812,519,943 - 12,552,031 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx816,506,726 - 16,536,678 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0814,804,480 - 14,834,432 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0812,782,331 - 12,813,520 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0814,238,975 - 14,271,931 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl814,239,594 - 14,269,162 (+)Ensemblrn6Rnor6.0
Rnor_5.0814,329,327 - 14,360,233 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4812,504,817 - 12,534,782 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera813,985,685 - 14,015,651 (+)NCBICelera
RGSC_v3.1812,504,818 - 12,533,407 (+)NCBI
Cytogenetic Map8q12NCBI
SLC36A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381193,144,174 - 93,197,991 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1193,144,174 - 93,197,991 (-)Ensemblhg38GRCh38
GRCh371192,877,340 - 92,931,157 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361192,520,498 - 92,570,743 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341192,520,499 - 92,570,743NCBI
Celera1190,179,804 - 90,230,049 (-)NCBICelera
Cytogenetic Map11q21NCBI
HuRef1188,965,724 - 89,015,692 (-)NCBIHuRef
CHM1_11192,763,842 - 92,814,140 (-)NCBICHM1_1
T2T-CHM13v2.01193,066,962 - 93,120,802 (-)NCBIT2T-CHM13v2.0
Slc36a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39915,621,034 - 15,653,684 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl915,621,034 - 15,654,657 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38915,709,738 - 15,742,388 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl915,709,738 - 15,743,361 (+)Ensemblmm10GRCm38
MGSCv37915,514,213 - 15,543,233 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36915,460,162 - 15,489,182 (+)NCBIMGSCv36mm8
Celera912,988,023 - 13,017,043 (+)NCBICelera
Cytogenetic Map9A2NCBI
cM Map95.12NCBI
Slc36a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554141,236,141 - 1,285,610 (+)Ensembl
ChiLan1.0NW_0049554141,236,179 - 1,286,680 (+)NCBIChiLan1.0ChiLan1.0
SLC36A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2994,008,249 - 94,062,806 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11195,097,192 - 95,150,608 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01188,164,083 - 88,218,610 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11191,662,625 - 91,880,929 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1191,663,479 - 91,713,388 (-)EnsemblpanPan2panpan1.1
SLC36A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1217,476,291 - 7,523,463 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl217,475,648 - 7,520,331 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha217,474,725 - 7,538,019 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0217,635,696 - 7,698,997 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl217,635,686 - 7,698,993 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1217,421,675 - 7,481,882 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0217,490,947 - 7,554,286 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0217,535,348 - 7,598,628 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Slc36a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494778,289,864 - 78,363,803 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366741,567,675 - 1,601,635 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366741,567,718 - 1,601,561 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC36A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl925,639,387 - 25,689,028 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1925,639,370 - 25,689,177 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2928,983,529 - 29,033,251 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC36A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1184,393,698 - 84,487,984 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl184,398,027 - 84,445,971 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604341,344,168 - 41,395,986 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc36a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473537,791,206 - 37,831,776 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473537,791,690 - 37,831,749 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Slc36a4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1811,467,487 - 11,495,749 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Slc36a4
264 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:839
Count of miRNA genes:304
Interacting mature miRNAs:390
Transcripts:ENSRNOT00000015383
Prediction methods:Microtar, Miranda, 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
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8132882639Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000015383   ⟹   ENSRNOP00000015383
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl820,801,289 - 20,834,044 (+)Ensembl
mRatBN7.2 Ensembl812,519,943 - 12,552,031 (+)Ensembl
Rnor_6.0 Ensembl814,239,594 - 14,269,162 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000130914   ⟹   ENSRNOP00000105415
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl820,801,904 - 20,834,044 (+)Ensembl
RefSeq Acc Id: NM_001108127   ⟹   NP_001101597
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8820,801,320 - 20,831,285 (+)NCBI
mRatBN7.2812,519,943 - 12,549,909 (+)NCBI
Rnor_6.0814,239,594 - 14,269,170 (+)NCBI
Rnor_5.0814,329,327 - 14,360,233 (+)NCBI
RGSC_v3.4812,504,817 - 12,534,782 (+)RGD
Celera813,985,685 - 14,015,651 (+)RGD
Sequence:
RefSeq Acc Id: XM_006242558   ⟹   XP_006242620
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8820,801,256 - 20,834,046 (+)NCBI
mRatBN7.2812,519,613 - 12,548,333 (+)NCBI
Rnor_6.0814,238,975 - 14,267,552 (+)NCBI
Rnor_5.0814,329,327 - 14,360,233 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765939   ⟹   XP_008764161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8820,814,356 - 20,834,046 (+)NCBI
mRatBN7.2812,532,976 - 12,552,671 (+)NCBI
Rnor_6.0814,253,831 - 14,271,931 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101597 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242620 (Get FASTA)   NCBI Sequence Viewer  
  XP_008764161 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78430 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015383
  ENSRNOP00000015383.6
  ENSRNOP00000105415.1
RefSeq Acc Id: NP_001101597   ⟸   NM_001108127
- UniProtKB: A6JND6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242620   ⟸   XM_006242558
- Peptide Label: isoform X1
- UniProtKB: D3ZMH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764161   ⟸   XM_008765939
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000015383   ⟸   ENSRNOT00000015383
Ensembl Acc Id: ENSRNOP00000105415   ⟸   ENSRNOT00000130914
Protein Domains
Amino acid transporter transmembrane

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZMH7-F1-model_v2 AlphaFold D3ZMH7 1-500 view protein structure

Transcriptome

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

Promoters
RGD ID:13695756
Promoter ID:EPDNEW_R6280
Type:initiation region
Name:Slc36a4_1
Description:solute carrier family 36 member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0814,239,584 - 14,239,644EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311528 AgrOrtholog
BioCyc Gene G2FUF-31626 BioCyc
Ensembl Genes ENSRNOG00000011455 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015383 ENTREZGENE
  ENSRNOT00000015383.8 UniProtKB/TrEMBL
  ENSRNOT00000130914.1 UniProtKB/TrEMBL
InterPro AA_transpt_TM UniProtKB/TrEMBL
KEGG Report rno:315439 UniProtKB/TrEMBL
NCBI Gene 315439 ENTREZGENE
PANTHER AMINO ACID TRANSPORTER UniProtKB/TrEMBL
  PROTON-COUPLED AMINO ACID TRANSPORTER 4 UniProtKB/TrEMBL
Pfam Aa_trans UniProtKB/TrEMBL
PhenoGen Slc36a4 PhenoGen
RatGTEx ENSRNOG00000011455 RatGTEx
UniProt A0ABK0L655_RAT UniProtKB/TrEMBL
  A6JND6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZMH7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Slc36a4  solute carrier family 36 member 4  Slc36a4  solute carrier family 36 (proton/amino acid symporter), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Slc36a4  solute carrier family 36 (proton/amino acid symporter), member 4   Slc36a4_predicted  solute carrier family 36 (proton/amino acid symporter), member 4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Slc36a4_predicted  solute carrier family 36 (proton/amino acid symporter), member 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED