Slc6a20b (solute carrier family 6 member 20b) - Rat Genome Database

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Pathways
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Gene: Slc6a20b (solute carrier family 6 member 20b) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Slc6a20b (Ensembl: Slc6a20a)
Name: solute carrier family 6 member 20b (Ensembl:solute carrier family 6 member 20a)
RGD ID: 1566368
Description: Enables L-proline transmembrane transporter activity; amino-acid betaine transmembrane transporter activity; and proline:sodium symporter activity. Involved in L-proline import across plasma membrane and amino-acid betaine transport. Predicted to be located in apical plasma membrane.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC301083; RGD1566368; similar to Solute carrier family 6 (neurotransmitter transporter), member 20; sodium- and chloride-dependent transporter XTRP3; sodium- and chloride-dependent transporter XTRP3B
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88132,108,481 - 132,158,422 (-)NCBIGRCr8
mRatBN7.28123,234,731 - 123,278,306 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8123,234,714 - 123,278,680 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.08132,663,281 - 132,709,485 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08131,815,415 - 131,862,081 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48128,362,272 - 128,408,149 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8122,342,351 - 122,386,695 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Na+-dependent and Na+-independent betaine transport across the apical membrane of rat renal epithelium. Cano M, etal., Biochim Biophys Acta. 2015 Oct;1848(10 Pt A):2172-9. doi: 10.1016/j.bbamem.2015.05.020. Epub 2015 May 29.
2. 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.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Identification of mammalian proline transporter SIT1 (SLC6A20) with characteristics of classical system imino. Takanaga H, etal., J Biol Chem. 2005 Mar 11;280(10):8974-84. Epub 2005 Jan 4.

Genomics

Variants

.
Variants in Slc6a20b
225 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:24
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000008172
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
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat

Markers in Region
BI281911  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28123,234,947 - 123,235,159 (+)MAPPERmRatBN7.2
Rnor_6.08132,666,041 - 132,666,252NCBIRnor6.0
Rnor_5.08131,818,741 - 131,818,952UniSTSRnor5.0
RGSC_v3.48128,362,489 - 128,362,700UniSTSRGSC3.4
Celera8122,345,111 - 122,345,322UniSTS
RH 3.4 Map81276.89UniSTS
Cytogenetic Map8q32UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008172   ⟹   ENSRNOP00000008172
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8123,234,714 - 123,266,606 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108032   ⟹   ENSRNOP00000093413
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8123,234,714 - 123,278,680 (-)Ensembl
RefSeq Acc Id: XM_002729986   ⟹   XP_002730032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88132,108,481 - 132,156,039 (-)NCBI
mRatBN7.28123,234,731 - 123,278,306 (-)NCBI
Rnor_6.08132,663,281 - 132,709,243 (-)NCBI
Rnor_5.08131,815,415 - 131,862,081 (-)NCBI
RGSC_v3.48128,362,272 - 128,408,149 (-)RGD
Sequence:
RefSeq Acc Id: XM_063266353   ⟹   XP_063122423
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88132,108,481 - 132,158,422 (-)NCBI
Protein Sequences
Protein RefSeqs XP_002730032 (Get FASTA)   NCBI Sequence Viewer  
  XP_063122423 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008172.7
  ENSRNOP00000093413
  ENSRNOP00000093413.1
Reference Protein Sequences
RefSeq Acc Id: XP_002730032   ⟸   XM_002729986
- Peptide Label: isoform X1
- UniProtKB: Q64093 (UniProtKB/Swiss-Prot),   A0A8I6AX01 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000093413   ⟸   ENSRNOT00000108032
RefSeq Acc Id: ENSRNOP00000008172   ⟸   ENSRNOT00000008172
RefSeq Acc Id: XP_063122423   ⟸   XM_063266353
- Peptide Label: isoform X2

Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-28611 BioCyc
Ensembl Genes ENSRNOG00000006010 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008172.8 UniProtKB/TrEMBL
  ENSRNOT00000108032.1 UniProtKB/TrEMBL
InterPro Na/ntran_symport UniProtKB/TrEMBL
  Neutral_aa_SLC6 UniProtKB/TrEMBL
  SNS_sf UniProtKB/TrEMBL
KEGG Report rno:301083 UniProtKB/TrEMBL
NCBI Gene 301083 ENTREZGENE
PANTHER PTHR11616 UniProtKB/TrEMBL
  SODIUM- AND CHLORIDE-DEPENDENT TRANSPORTER XTRP3 UniProtKB/TrEMBL
Pfam SNF UniProtKB/TrEMBL
PhenoGen Slc6a20b PhenoGen
PRINTS NANEUSMPORT UniProtKB/TrEMBL
  ORPHTRNSPORT UniProtKB/TrEMBL
PROSITE NA_NEUROTRAN_SYMP_1 UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_2 UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006010 RatGTEx
Superfamily-SCOP SSF161070 UniProtKB/TrEMBL
UniProt A0A8I6AX01 ENTREZGENE, UniProtKB/TrEMBL
  F1LZT7_RAT UniProtKB/TrEMBL
  Q64093 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-03 Slc6a20b  solute carrier family 6 member 20b  RGD1566368  similar to Solute carrier family 6 (neurotransmitter transporter), member 20  Name and Symbol changed 629549 APPROVED
2008-04-30 RGD1566368  similar to Solute carrier family 6 (neurotransmitter transporter), member 20   RGD1566368_predicted  similar to Solute carrier family 6 (neurotransmitter transporter), member 20 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1566368_predicted  similar to Solute carrier family 6 (neurotransmitter transporter), member 20 (predicted)  LOC301083  similar to Solute carrier family 6 (neurotransmitter transporter), member 20  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC301083  similar to Solute carrier family 6 (neurotransmitter transporter), member 20      Symbol and Name status set to provisional 70820 PROVISIONAL