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

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Gene: Slc44a1 (solute carrier family 44 member 1) Rattus norvegicus
Analyze
Symbol: Slc44a1
Name: solute carrier family 44 member 1
RGD ID: 621426
Description: Enables choline transmembrane transporter activity. Involved in choline transport and transmembrane transport. Predicted to be located in cytosol; mitochondrial outer membrane; and nucleoplasm. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SLC44A1 (solute carrier family 44 member 1); INTERACTS WITH 1,3-dinitrobenzene; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cdw92; CDW92 antigen; choline transporter-like protein 1; Ctl1; solute carrier family 44 (choline transporter), member 1; solute carrier family 44, member 1; transporter-like protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-alpha-phellandrene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-phellandrene  (ISO)
alpha-pinene  (ISO)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
disulfiram  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
indometacin  (ISO)
inulin  (ISO)
irinotecan  (EXP)
isobutanol  (ISO)
methapyrilene  (EXP)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
Soman  (EXP)
succimer  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
mitochondrial outer membrane  (IEA,ISO,ISS)
mitochondrion  (ISO)
nucleoplasm  (IEA,ISO)
plasma membrane  (IBA,IEA,ISO,ISS)

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. Detection of choline transporter-like 1 protein CTL1 in neuroblastoma x glioma cells and in the CNS, and its role in choline uptake. Machová E, etal., J Neurochem. 2009 Aug;110(4):1297-309. doi: 10.1111/j.1471-4159.2009.06218.x. Epub 2009 Jun 10.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. An electric lobe suppressor for a yeast choline transport mutation belongs to a new family of transporter-like proteins. O'Regan S, etal., Proc Natl Acad Sci U S A 2000 Feb 15;97(4):1835-40.
5. Papillary glioneuronal tumors: histological and molecular characteristics and diagnostic value of SLC44A1-PRKCA fusion. Pages M, etal., Acta Neuropathol Commun. 2015 Dec 15;3:85. doi: 10.1186/s40478-015-0264-5.
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:12007839   PMID:15474312   PMID:15691711   PMID:15715662   PMID:16000150   PMID:16319125   PMID:17520363   PMID:19056867   PMID:19246089   PMID:19946888   PMID:20410607  
PMID:20458337   PMID:21185344   PMID:26746385   PMID:28119456   PMID:30776907  


Genomics

Comparative Map Data
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
(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
(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
(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

Variants

.
Variants in Slc44a1
853 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:117
Count of miRNA genes:92
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000024229, ENSRNOT00000024354
Prediction methods:Microtar, 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
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)55979352890450144Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1598814Mcs13Mammary carcinoma susceptibility QTL 130.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)56319089069927503Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)564719390109719390Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)566174080124160948Rat

Markers in Region
D5Rat141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,071,418 - 68,071,553 (+)MAPPERmRatBN7.2
Rnor_6.0570,253,642 - 70,253,776NCBIRnor6.0
Rnor_5.0574,412,792 - 74,412,926UniSTSRnor5.0
RGSC_v3.4570,885,351 - 70,885,486RGDRGSC3.4
RGSC_v3.4570,885,352 - 70,885,486UniSTSRGSC3.4
RGSC_v3.1570,890,464 - 70,890,599RGD
Celera566,966,154 - 66,966,288UniSTS
SHRSP x BN Map539.5399RGD
SHRSP x BN Map539.5399UniSTS
Cytogenetic Map5q24UniSTS
D5Mco17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,228,009 - 68,228,173 (+)MAPPERmRatBN7.2
Rnor_6.0570,410,210 - 70,410,373NCBIRnor6.0
Rnor_5.0574,568,834 - 74,568,997UniSTSRnor5.0
RGSC_v3.4571,042,313 - 71,042,477RGDRGSC3.4
RGSC_v3.4571,042,314 - 71,042,477UniSTSRGSC3.4
RGSC_v3.1571,047,426 - 71,047,590RGD
Celera567,122,328 - 67,122,489UniSTS
Cytogenetic Map5q24UniSTS
RH140808  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,194,392 - 68,194,603 (+)MAPPERmRatBN7.2
Rnor_6.0570,376,596 - 70,376,806NCBIRnor6.0
Rnor_5.0574,535,403 - 74,535,613UniSTSRnor5.0
RGSC_v3.4571,008,670 - 71,008,880UniSTSRGSC3.4
Celera567,088,751 - 67,088,961UniSTS
RH 3.4 Map5466.9UniSTS
Cytogenetic Map5q24UniSTS
RH133659  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,103,362 - 68,103,550 (+)MAPPERmRatBN7.2
Rnor_6.0570,285,582 - 70,285,769NCBIRnor6.0
Rnor_5.0574,444,732 - 74,444,919UniSTSRnor5.0
RGSC_v3.4570,917,292 - 70,917,479UniSTSRGSC3.4
Celera566,997,939 - 66,998,126UniSTS
RH 3.4 Map5451.2UniSTS
Cytogenetic Map5q24UniSTS
RH133714  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,241,651 - 68,241,842 (+)MAPPERmRatBN7.2
Rnor_6.0570,423,855 - 70,424,045NCBIRnor6.0
Rnor_5.0574,582,434 - 74,582,624UniSTSRnor5.0
RGSC_v3.4571,055,852 - 71,056,042UniSTSRGSC3.4
Celera567,135,967 - 67,136,157UniSTS
RH 3.4 Map5466.8UniSTS
Cytogenetic Map5q24UniSTS
BE103193  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,139,564 - 68,139,743 (+)MAPPERmRatBN7.2
Rnor_6.0570,321,777 - 70,321,955NCBIRnor6.0
Rnor_5.0574,480,927 - 74,481,105UniSTSRnor5.0
RGSC_v3.4570,953,487 - 70,953,665UniSTSRGSC3.4
Celera567,034,142 - 67,034,320UniSTS
RH 3.4 Map5451.2UniSTS
Cytogenetic Map5q24UniSTS
RH137710  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,146,986 - 68,147,232 (+)MAPPERmRatBN7.2
Rnor_6.0570,329,199 - 70,329,444NCBIRnor6.0
Rnor_5.0574,488,349 - 74,488,594UniSTSRnor5.0
RGSC_v3.4570,960,909 - 70,961,154UniSTSRGSC3.4
Celera567,041,564 - 67,041,809UniSTS
RH 3.4 Map5466.8UniSTS
Cytogenetic Map5q24UniSTS
RH138567  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,062,820 - 68,062,942 (+)MAPPERmRatBN7.2
Rnor_6.0570,245,072 - 70,245,193NCBIRnor6.0
Rnor_5.0574,404,412 - 74,404,533UniSTSRnor5.0
Celera566,957,289 - 66,957,410UniSTS
RH 3.4 Map5459.5UniSTS
Cytogenetic Map5q24UniSTS
AI137096  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,190,738 - 68,190,956 (+)MAPPERmRatBN7.2
Rnor_6.0570,372,942 - 70,373,159NCBIRnor6.0
Rnor_5.0574,531,749 - 74,531,966UniSTSRnor5.0
RGSC_v3.4571,005,015 - 71,005,232UniSTSRGSC3.4
Celera567,085,097 - 67,085,314UniSTS
RH 3.4 Map5451.3UniSTS
Cytogenetic Map5q24UniSTS
CDW92_9350  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,191,374 - 68,192,098 (+)MAPPERmRatBN7.2
Rnor_6.0570,373,578 - 70,374,301NCBIRnor6.0
Rnor_5.0574,532,385 - 74,533,108UniSTSRnor5.0
RGSC_v3.4571,005,651 - 71,006,374UniSTSRGSC3.4
Celera567,085,733 - 67,086,456UniSTS
Cytogenetic Map5q24UniSTS
RH79975  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2568,190,850 - 68,191,057 (+)MAPPERmRatBN7.2
Rnor_6.0570,373,054 - 70,373,260NCBIRnor6.0
Rnor_5.0574,531,861 - 74,532,067UniSTSRnor5.0
RGSC_v3.4571,005,127 - 71,005,333UniSTSRGSC3.4
Celera567,085,209 - 67,085,415UniSTS
Cytogenetic Map5q24UniSTS


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 3 32 41 31 13 31 1 1 74 35 35 11 1
Low 11 16 10 6 10 7 10 6 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000082108   ⟹   ENSRNOP00000074317
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl568,063,618 - 68,241,909 (+)Ensembl
Rnor_6.0 Ensembl570,245,843 - 70,424,112 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083983   ⟹   ENSRNOP00000071535
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl568,063,618 - 68,192,198 (+)Ensembl
Rnor_6.0 Ensembl570,245,843 - 70,374,401 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097567   ⟹   ENSRNOP00000089361
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl568,109,753 - 68,187,643 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109054   ⟹   ENSRNOP00000087119
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl568,109,753 - 68,188,034 (+)Ensembl
RefSeq Acc Id: NM_001033852   ⟹   NP_001029024
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,859,000 - 72,987,569 (+)NCBI
mRatBN7.2568,063,618 - 68,192,198 (+)NCBI
Rnor_6.0570,245,843 - 70,374,401 (+)NCBI
Rnor_5.0574,404,993 - 74,582,694 (+)NCBI
RGSC_v3.4570,877,553 - 71,056,112 (+)RGD
Celera566,958,117 - 67,086,556 (+)NCBI
Sequence:
RefSeq Acc Id: NM_053492   ⟹   NP_445944
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,859,000 - 73,037,279 (+)NCBI
mRatBN7.2568,063,618 - 68,241,912 (+)NCBI
Rnor_6.0570,245,843 - 70,424,115 (+)NCBI
Rnor_5.0574,404,993 - 74,582,694 (+)NCBI
RGSC_v3.4570,877,553 - 71,056,112 (+)RGD
Celera566,958,117 - 67,136,227 (+)RGD
Sequence:
RefSeq Acc Id: XM_008763716   ⟹   XP_008761938
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,857,323 - 72,987,427 (+)NCBI
mRatBN7.2568,061,941 - 68,197,423 (+)NCBI
Rnor_6.0570,243,643 - 70,379,626 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763717   ⟹   XP_008761939
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,857,323 - 73,037,277 (+)NCBI
mRatBN7.2568,061,941 - 68,241,910 (+)NCBI
Rnor_6.0570,243,643 - 70,424,113 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039110883   ⟹   XP_038966811
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,857,323 - 72,985,108 (+)NCBI
mRatBN7.2568,061,941 - 68,189,627 (+)NCBI
RefSeq Acc Id: XM_039110884   ⟹   XP_038966812
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,858,767 - 72,985,108 (+)NCBI
mRatBN7.2568,063,411 - 68,189,627 (+)NCBI
RefSeq Acc Id: XM_039110885   ⟹   XP_038966813
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,934,620 - 72,987,427 (+)NCBI
mRatBN7.2568,139,247 - 68,197,423 (+)NCBI
RefSeq Acc Id: XM_039110886   ⟹   XP_038966814
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8572,939,395 - 72,987,427 (+)NCBI
mRatBN7.2568,144,018 - 68,197,423 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_445944   ⟸   NM_053492
- Peptide Label: isoform 2
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot),   A0A0G2K7R8 (UniProtKB/TrEMBL),   A6KDP1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029024   ⟸   NM_001033852
- Peptide Label: isoform 1
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot),   A0A0G2K0P8 (UniProtKB/TrEMBL),   A6KDP2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761939   ⟸   XM_008763717
- Peptide Label: isoform X4
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008761938   ⟸   XM_008763716
- Peptide Label: isoform X3
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074317   ⟸   ENSRNOT00000082108
RefSeq Acc Id: ENSRNOP00000071535   ⟸   ENSRNOT00000083983
RefSeq Acc Id: XP_038966811   ⟸   XM_039110883
- Peptide Label: isoform X1
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038966812   ⟸   XM_039110884
- Peptide Label: isoform X2
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038966813   ⟸   XM_039110885
- Peptide Label: isoform X5
- UniProtKB: Q9JJZ7 (UniProtKB/Swiss-Prot),   Q8VII6 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038966814   ⟸   XM_039110886
- Peptide Label: isoform X6
RefSeq Acc Id: ENSRNOP00000087119   ⟸   ENSRNOT00000109054
RefSeq Acc Id: ENSRNOP00000089361   ⟸   ENSRNOT00000097567

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VII6-F1-model_v2 AlphaFold Q8VII6 1-656 view protein structure

Transcriptome

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

Promoters
RGD ID:13693743
Promoter ID:EPDNEW_R4268
Type:single initiation site
Name:Slc44a1_1
Description:solute carrier family 44 member 1
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_6.0570,245,868 - 70,245,928EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621426 AgrOrtholog
BioCyc Gene G2FUF-41272 BioCyc
Ensembl Genes ENSRNOG00000055089 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082108 ENTREZGENE
  ENSRNOT00000082108.2 UniProtKB/TrEMBL
  ENSRNOT00000083983 ENTREZGENE
  ENSRNOT00000083983.2 UniProtKB/TrEMBL
  ENSRNOT00000097567.1 UniProtKB/TrEMBL
  ENSRNOT00000109054.1 UniProtKB/TrEMBL
InterPro Choline_transptr-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85254 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 85254 ENTREZGENE
PANTHER CHOLINE TRANSPORTER-LIKE PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12385 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Choline_transpo UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc44a1 PhenoGen
RatGTEx ENSRNOG00000055089 RatGTEx
UniProt A0A0G2K0P8 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K7R8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A7E1_RAT UniProtKB/TrEMBL
  A0A8I6A810_RAT UniProtKB/TrEMBL
  A6KDP1 ENTREZGENE, UniProtKB/TrEMBL
  A6KDP2 ENTREZGENE, UniProtKB/TrEMBL
  CTL1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9JJZ7 ENTREZGENE
UniProt Secondary Q9JJZ7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc44a1  solute carrier family 44 member 1  Slc44a1  solute carrier family 44 (choline transporter), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc44a1  solute carrier family 44 (choline transporter), member 1  Slc44a1  solute carrier family 44, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-20 Slc44a1  solute carrier family 44, member 1  Cdw92  CDW92 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cdw92  CDW92 antigen  Ctl1  transporter-like protein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Ctl1  transporter-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the spinal cord, brain and colon 632580