Slc22a13l1 (solute carrier family 22 member 13-like 1) - Rat Genome Database

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Gene: Slc22a13l1 (solute carrier family 22 member 13-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Slc22a13l1
Name: solute carrier family 22 member 13-like 1
RGD ID: 1583222
Description: Predicted to enable transmembrane transporter activity. Predicted to be involved in transmembrane transport. Predicted to be located in membrane. Orthologous to human SLC22A13 (solute carrier family 22 member 13); INTERACTS WITH trichloroethene.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC685081; similar to solute carrier family 22 (organic cation transporter), member 13; solute carrier family 22 member 13; solute carrier family 22 member 13-like; uncharacterized protein LOC685081; uncharacterized protein Slc22a13l1
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88127,838,075 - 127,850,337 (-)NCBIGRCr8
mRatBN7.28118,958,209 - 118,972,614 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8118,961,000 - 118,966,046 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.08127,905,478 - 127,914,897 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8127,909,147 - 127,912,860 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08127,114,090 - 127,120,556 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48124,182,684 - 124,189,891 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8118,110,184 - 118,123,887 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:24769897  


Genomics

Variants

.
Variants in Slc22a13l1
34 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:41
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000040498
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
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
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
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
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
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat


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
Low 2 2 1 2 1 3 1 1
Below cutoff 2 34 52 36 18 36 5 6 67 30 33 9 5

Sequence


RefSeq Acc Id: ENSRNOT00000040498   ⟹   ENSRNOP00000050448
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8118,961,000 - 118,966,046 (-)Ensembl
Rnor_6.0 Ensembl8127,909,147 - 127,912,860 (-)Ensembl
RefSeq Acc Id: XM_008766700   ⟹   XP_008764922
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88127,838,721 - 127,850,337 (-)NCBI
mRatBN7.28118,960,991 - 118,972,614 (-)NCBI
Rnor_6.08127,905,478 - 127,914,897 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063266486   ⟹   XP_063122556
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88127,838,075 - 127,842,546 (-)NCBI
Protein Sequences
Protein RefSeqs XP_008764922 (Get FASTA)   NCBI Sequence Viewer  
  XP_063122556 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL76919 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000050448.4
RefSeq Acc Id: XP_008764922   ⟸   XM_008766700
- Peptide Label: isoform X2
- UniProtKB: A6I3V8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000050448   ⟸   ENSRNOT00000040498
RefSeq Acc Id: XP_063122556   ⟸   XM_063266486
- Peptide Label: isoform X1
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8A7-F1-model_v2 AlphaFold D3Z8A7 1-518 view protein structure

Transcriptome

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

Promoters
RGD ID:13696375
Promoter ID:EPDNEW_R6892
Type:single initiation site
Name:LOC685081_1
Description:similar to solute carrier family 22 , member 13
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_6.08127,912,874 - 127,912,934EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583222 AgrOrtholog
BioCyc Gene G2FUF-28796 BioCyc
Ensembl Genes ENSRNOG00000042660 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040498.5 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.20 UniProtKB/TrEMBL
InterPro Major_facilitator_SF UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
  Sub_transporter UniProtKB/TrEMBL
  Sugar_transporter_CS UniProtKB/TrEMBL
NCBI Gene 685081 ENTREZGENE
PANTHER SOLUTE CARRIER FAMILY 22 MEMBER UniProtKB/TrEMBL
  SOLUTE CARRIER FAMILY 22 MEMBER 13 UniProtKB/TrEMBL
Pfam Sugar_tr UniProtKB/TrEMBL
PhenoGen Slc22a13l1 PhenoGen
PROSITE MFS UniProtKB/TrEMBL
  SUGAR_TRANSPORT_1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000042660 RatGTEx
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
UniProt A6I3V8 ENTREZGENE, UniProtKB/TrEMBL
  D3Z8A7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-10-15 Slc22a13l1  solute carrier family 22 member 13-like 1  LOC685081  similar to solute carrier family 22 (organic cation transporter), member 13  Name and Symbol changed 629549 APPROVED
2008-01-09 LOC685081  similar to solute carrier family 22 (organic cation transporter), member 13  LOC687184  similar to solute carrier family 22 (organic cation transporter), member 13  Data merged from RGD:1588902 1643240 APPROVED
2006-11-19 LOC685081  similar to solute carrier family 22 (organic cation transporter), member 13      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC687184  similar to solute carrier family 22 (organic cation transporter), member 13      Symbol and Name status set to provisional 70820 PROVISIONAL