Slc6a16 (solute carrier family 6, member 16) - Rat Genome Database

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Gene: Slc6a16 (solute carrier family 6, member 16) Rattus norvegicus
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Symbol: Slc6a16
Name: solute carrier family 6, member 16
RGD ID: 1561338
Description: Predicted to enable metal ion binding activity. Predicted to be involved in amino acid transport and sodium ion transmembrane transport. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to human SLC6A16 (solute carrier family 6 member 16); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amitrole; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC292902; orphan sodium- and chloride-dependent neurotransmitter transporter NTT5; RGD1561338; similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16)
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
GRCr81104,858,108 - 104,886,741 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1104,873,144 - 104,886,740 (+)EnsemblGRCr8
mRatBN7.2195,721,690 - 95,750,191 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl195,726,140 - 95,750,266 (+)EnsemblmRatBN7.2
Rnor_6.01101,236,275 - 101,261,668 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1101,249,522 - 101,261,233 (+)Ensemblrn6Rnor6.0
Rnor_5.01102,302,510 - 102,325,628 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4195,728,395 - 95,740,069 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera189,983,257 - 90,008,357 (+)NCBICelera
Cytogenetic Map1q22NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Slc6a16
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81104,858,108 - 104,886,741 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1104,873,144 - 104,886,740 (+)EnsemblGRCr8
mRatBN7.2195,721,690 - 95,750,191 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl195,726,140 - 95,750,266 (+)EnsemblmRatBN7.2
Rnor_6.01101,236,275 - 101,261,668 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1101,249,522 - 101,261,233 (+)Ensemblrn6Rnor6.0
Rnor_5.01102,302,510 - 102,325,628 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4195,728,395 - 95,740,069 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera189,983,257 - 90,008,357 (+)NCBICelera
Cytogenetic Map1q22NCBI
SLC6A16
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381949,289,638 - 49,340,330 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1949,289,638 - 49,325,215 (-)Ensemblhg38GRCh38
GRCh371949,792,895 - 49,828,448 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361954,484,701 - 54,520,286 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341954,484,705 - 54,520,286NCBI
Celera1946,659,740 - 46,695,326 (-)NCBICelera
Cytogenetic Map19q13.33ENTREZGENE
HuRef1946,169,902 - 46,205,285 (-)NCBIHuRef
CHM1_11949,794,733 - 49,830,323 (-)NCBICHM1_1
T2T-CHM13v2.01952,287,044 - 52,337,761 (-)NCBIT2T-CHM13v2.0
Slc6a16
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39744,890,177 - 44,922,789 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl744,890,509 - 44,922,791 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38745,240,753 - 45,273,365 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl745,241,085 - 45,273,367 (+)Ensemblmm10GRCm38
MGSCv37752,514,491 - 52,528,735 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36745,127,196 - 45,141,407 (+)NCBIMGSCv36mm8
Celera740,715,033 - 40,729,277 (+)NCBICelera
Cytogenetic Map7B3NCBI
cM Map729.22NCBI
Slc6a16
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555591,493,030 - 1,509,213 (+)NCBIChiLan1.0ChiLan1.0
SLC6A16
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22055,407,460 - 55,453,196 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11957,327,318 - 57,373,343 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01946,303,921 - 46,354,944 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11955,228,674 - 55,271,273 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1955,228,680 - 55,270,789 (-)EnsemblpanPan2panpan1.1
SLC6A16
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11107,149,550 - 107,184,928 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1106,732,851 - 106,768,221 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01107,669,882 - 107,710,317 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1107,682,619 - 107,710,319 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11107,342,765 - 107,378,289 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01106,984,946 - 107,025,351 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01107,826,084 - 107,861,458 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Slc6a16
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934921,578,120 - 21,612,541 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366643,196,346 - 3,214,941 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC110261362
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1654,407,406 - 54,431,288 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SLC6A16
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1642,480,477 - 42,522,368 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl642,480,324 - 42,494,950 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607322,405,145 - 22,444,402 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a16
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248324,839,014 - 4,868,987 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Slc6a16
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12154,273,792 - 154,290,282 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Slc6a16
447 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:77
Count of miRNA genes:64
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000033882
Prediction methods:Microtar, Miranda, Rnahybrid
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
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)187889942132889942Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1102780511182384005Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)192963855109494029Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1101228864146228864Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)187785026142582336Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183019780128019780Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)193903998191260518Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)184107164115183752Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)191302413136302413Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1102359314153680016Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)199645382182701046Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)186622262131622262Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1103779152223964440Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)198879955208479939Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of, or within a discrete space in an open field apparatus (CMO:0001514)192683681137683681Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)186993904131993904Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)192683681137683681Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)187558587132558587Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)197582336142582336Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1101594089146594089Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1100345976145345976Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)196717367160111531Rat


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
10 5 55 139 73 75 44 92 44 6 303 174 11 116 71 90 31 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000033882   ⟹   ENSRNOP00000030009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1104,873,144 - 104,886,740 (+)Ensembl
mRatBN7.2 Ensembl195,726,140 - 95,750,266 (+)Ensembl
Rnor_6.0 Ensembl1101,249,522 - 101,261,233 (+)Ensembl
RefSeq Acc Id: NM_001427612   ⟹   NP_001414541
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81104,862,599 - 104,886,741 (+)NCBI
RefSeq Acc Id: XM_039094065   ⟹   XP_038949993
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81104,858,108 - 104,886,741 (+)NCBI
mRatBN7.2195,721,690 - 95,750,191 (+)NCBI
RefSeq Acc Id: XM_063284191   ⟹   XP_063140261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81104,874,968 - 104,886,741 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001414541 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949993 (Get FASTA)   NCBI Sequence Viewer  
  XP_063140261 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM07381 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000030009
  ENSRNOP00000030009.5
Ensembl Acc Id: ENSRNOP00000030009   ⟸   ENSRNOT00000033882
RefSeq Acc Id: XP_038949993   ⟸   XM_039094065
- Peptide Label: isoform X1
- UniProtKB: A6JB03 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001414541   ⟸   NM_001427612
- UniProtKB: F1M3H9 (UniProtKB/TrEMBL),   A6JB03 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063140261   ⟸   XM_063284191
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M3H9-F1-model_v2 AlphaFold F1M3H9 1-722 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:1561338 AgrOrtholog
BioCyc Gene G2FUF-59697 BioCyc
Ensembl Genes ENSRNOG00000025220 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000033882 ENTREZGENE
  ENSRNOT00000033882.6 UniProtKB/TrEMBL
InterPro Na/ntran_symport UniProtKB/TrEMBL
  SNS_sf UniProtKB/TrEMBL
NCBI Gene 292902 ENTREZGENE
PANTHER Na/ntran_symport UniProtKB/TrEMBL
  ORPHAN SODIUM- AND CHLORIDE-DEPENDENT NEUROTRANSMITTER TRANSPORTER NTT5 UniProtKB/TrEMBL
Pfam SNF UniProtKB/TrEMBL
PhenoGen Slc6a16 PhenoGen
PRINTS NANEUSMPORT UniProtKB/TrEMBL
PROSITE NA_NEUROTRAN_SYMP_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000025220 RatGTEx
Superfamily-SCOP SSF161070 UniProtKB/TrEMBL
UniProt A6JB03 ENTREZGENE, UniProtKB/TrEMBL
  F1M3H9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Slc6a16  solute carrier family 6, member 16  RGD1561338_predicted  similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16) (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-10 RGD1561338_predicted  similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16) (predicted)      Name updated 1299863 APPROVED
2006-03-07 RGD1561338_predicted  similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16) (predicted)  LOC292902  similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC292902  similar to Orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 (Solute carrier family 6 member 16)      Symbol and Name status set to provisional 70820 PROVISIONAL