Slc44a1 (solute carrier family 44 member 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Slc44a1 (solute carrier family 44 member 1) Chinchilla lanigera
Analyze
Symbol: Slc44a1
Name: solute carrier family 44 member 1
RGD ID: 8980514
Description: ENCODES a protein that exhibits choline transmembrane transporter activity (ortholog); ethanolamine transmembrane transporter activity (ortholog); INVOLVED IN choline transport (ortholog); ethanolamine transport (ortholog); transmembrane transport (ortholog); ASSOCIATED WITH Childhood-onset Neurodegeneration with Ataxia, Tremor, Optic Atrophy, and Cognitive Decline (ortholog); genetic disease (ortholog); high grade glioma (ortholog); FOUND IN cytosol (ortholog); mitochondrial outer membrane (ortholog); mitochondrion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: choline transporter-like protein 1; solute carrier family 44 (choline transporter), member 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541921,092,380 - 21,231,070 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541921,092,583 - 21,277,294 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Slc44a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541921,092,380 - 21,231,070 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541921,092,583 - 21,277,294 (-)NCBIChiLan1.0ChiLan1.0
SLC44A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389105,244,651 - 105,438,504 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9105,244,622 - 105,439,171 (+)EnsemblGRCh38hg38GRCh38
GRCh379108,006,932 - 108,200,785 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369107,046,750 - 107,193,503 (+)NCBINCBI36Build 36hg18NCBI36
Build 349105,086,662 - 105,233,235NCBI
Celera978,512,264 - 78,659,033 (+)NCBICelera
Cytogenetic Map9q31.1-q31.2NCBI
HuRef977,662,832 - 77,755,005 (+)NCBIHuRef
CHM1_19108,153,858 - 108,300,587 (+)NCBICHM1_1
T2T-CHM13v2.09117,419,258 - 117,613,150 (+)NCBIT2T-CHM13v2.0
Slc44a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39453,440,387 - 53,622,478 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl453,440,413 - 53,622,478 (+)EnsemblGRCm39 Ensembl
GRCm38453,440,387 - 53,622,478 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl453,440,413 - 53,622,478 (+)EnsemblGRCm38mm10GRCm38
MGSCv37453,453,285 - 53,635,350 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36453,461,757 - 53,643,578 (+)NCBIMGSCv36mm8
Celera453,407,313 - 53,583,394 (+)NCBICelera
Cytogenetic Map4B2NCBI
cM Map428.66NCBI
Slc44a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8572,857,323 - 73,037,279 (+)NCBIGRCr8
mRatBN7.2568,061,941 - 68,241,912 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl568,063,618 - 68,241,909 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx569,950,696 - 70,129,475 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0571,770,988 - 71,949,352 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0571,739,507 - 71,918,288 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0570,243,643 - 70,424,115 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl570,245,843 - 70,424,112 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0574,404,993 - 74,582,694 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4570,877,553 - 71,056,112 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1570,882,673 - 71,061,224 (+)NCBI
Celera566,958,117 - 67,136,227 (+)NCBICelera
Cytogenetic Map5q24NCBI
SLC44A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21133,946,592 - 34,140,946 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1933,948,960 - 34,143,295 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0976,417,869 - 76,612,233 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19104,599,572 - 104,737,620 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9104,597,755 - 104,737,620 (+)Ensemblpanpan1.1panPan2
SLC44A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11161,120,858 - 61,313,250 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1161,120,176 - 61,312,590 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1159,582,008 - 59,773,782 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01162,256,080 - 62,448,662 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1162,256,143 - 62,448,667 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11160,775,818 - 60,926,372 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01160,794,294 - 60,986,332 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01161,487,297 - 61,679,198 (+)NCBIUU_Cfam_GSD_1.0
Slc44a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947176,322,852 - 176,499,812 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365596,818,459 - 6,904,139 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365596,766,307 - 6,903,286 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC44A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1246,548,497 - 246,760,514 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11246,548,461 - 246,760,527 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21276,190,887 - 276,354,123 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC44A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11234,068,642 - 34,261,635 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1234,067,318 - 34,261,402 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660358,378,802 - 8,572,470 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc44a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247585,960,094 - 6,151,653 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247585,963,281 - 6,152,870 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000022149   ⟹   ENSCLAP00000021945
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541921,092,380 - 21,231,070 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022150   ⟹   ENSCLAP00000021946
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541921,144,469 - 21,231,070 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022151   ⟹   ENSCLAP00000021947
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541921,146,111 - 21,230,860 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000022152   ⟹   ENSCLAP00000021948
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541921,162,461 - 21,230,860 (-)Ensembl
RefSeq Acc Id: XM_005382780   ⟹   XP_005382837
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541921,092,583 - 21,277,294 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005382837 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000021945.1
  ENSCLAP00000021946.1
  ENSCLAP00000021947.1
  ENSCLAP00000021948.1
Reference Protein Sequences
RefSeq Acc Id: XP_005382837   ⟸   XM_005382780
- Sequence:
RefSeq Acc Id: ENSCLAP00000021945   ⟸   ENSCLAT00000022149
RefSeq Acc Id: ENSCLAP00000021947   ⟸   ENSCLAT00000022151
RefSeq Acc Id: ENSCLAP00000021946   ⟸   ENSCLAT00000022150
RefSeq Acc Id: ENSCLAP00000021948   ⟸   ENSCLAT00000022152


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000015036 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000022149.1 UniProtKB/TrEMBL
  ENSCLAT00000022150.1 UniProtKB/TrEMBL
  ENSCLAT00000022151.1 UniProtKB/TrEMBL
  ENSCLAT00000022152.1 UniProtKB/TrEMBL
InterPro Choline_transptr-like UniProtKB/TrEMBL
NCBI Gene Slc44a1 ENTREZGENE
PANTHER CHOLINE TRANSPORTER-LIKE PROTEIN 1 UniProtKB/TrEMBL
  PTHR12385 UniProtKB/TrEMBL
Pfam Choline_transpo UniProtKB/TrEMBL
UniProt A0A8C2VZD6_CHILA UniProtKB/TrEMBL
  A0A8C2VZW7_CHILA UniProtKB/TrEMBL
  A0A8C2W1P5_CHILA UniProtKB/TrEMBL
  A0A8C2W465_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Slc44a1  solute carrier family 44 member 1    solute carrier family 44 (choline transporter), member 1  Symbol and/or name change 5135510 APPROVED