Human Gene SLC44A5 (ENST00000370855.5) from GENCODE V44
  Description: Homo sapiens solute carrier family 44 member 5 (SLC44A5), transcript variant 1, mRNA. (from RefSeq NM_152697)
Gencode Transcript: ENST00000370855.5
Gencode Gene: ENSG00000137968.17
Transcript (Including UTRs)
   Position: hg38 chr1:75,204,475-75,611,084 Size: 406,610 Total Exon Count: 24 Strand: -
Coding Region
   Position: hg38 chr1:75,206,607-75,541,447 Size: 334,841 Coding Exon Count: 23 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:75,204,475-75,611,084)mRNA (may differ from genome)Protein (719 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGencodeGeneCardsHGNC
HPRDLynxMalacardsMGIneXtProtPubMed
ReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CTL5_HUMAN
DESCRIPTION: RecName: Full=Choline transporter-like protein 5; AltName: Full=Solute carrier family 44 member 5;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (By similarity).
SIMILARITY: Belongs to the CTL (choline transporter-like) family.
SEQUENCE CAUTION: Sequence=BAC03655.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 2.87 RPKM in Testis
Total median expression: 29.43 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -24.30114-0.213 Picture PostScript Text
3' UTR -534.302132-0.251 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007603 - Choline_transptr-like

Pfam Domains:
PF04515 - Plasma-membrane choline transporter

ModBase Predicted Comparative 3D Structure on Q8NCS7
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologGenome Browser
Gene Details    Gene Details
Gene Sorter    Gene Sorter
MGIRGDEnsemblEnsembl SGD
Protein SequenceProtein SequenceProtein SequenceProtein Sequence Protein Sequence
AlignmentAlignmentAlignmentAlignment Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0015220 choline transmembrane transporter activity

Biological Process:
GO:0006656 phosphatidylcholine biosynthetic process
GO:0015871 choline transport
GO:0055085 transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK128063 - Homo sapiens cDNA FLJ46183 fis, clone TESTI4004653, moderately similar to Homo sapiens CTL2 gene (CTL2).
BC034580 - Homo sapiens solute carrier family 44, member 5, mRNA (cDNA clone MGC:42574 IMAGE:4824861), complete cds.
BC051740 - Homo sapiens solute carrier family 44, member 5, mRNA (cDNA clone MGC:51115 IMAGE:4824908), complete cds.
AK093170 - Homo sapiens cDNA FLJ35851 fis, clone TESTI2007040, moderately similar to Homo sapiens CTL2 gene.
AX747970 - Sequence 1495 from Patent EP1308459.
AK296924 - Homo sapiens cDNA FLJ60665 complete cds, highly similar to Choline transporter-like protein 5.
AK299573 - Homo sapiens cDNA FLJ55381 complete cds, highly similar to Choline transporter-like protein 5.
AK296941 - Homo sapiens cDNA FLJ60667 complete cds, highly similar to Choline transporter-like protein 5.
BC028743 - Homo sapiens solute carrier family 44, member 5, mRNA (cDNA clone MGC:34032 IMAGE:4828797), complete cds.
DQ892458 - Synthetic construct clone IMAGE:100005088; FLH186505.01X; RZPDo839F0371D solute carrier family 44, member 5 (SLC44A5) gene, encodes complete protein.
KJ900438 - Synthetic construct Homo sapiens clone ccsbBroadEn_09832 SLC44A5 gene, encodes complete protein.
DQ895670 - Synthetic construct Homo sapiens clone IMAGE:100010130; FLH186501.01L; RZPDo839F0361D solute carrier family 44, member 5 (SLC44A5) gene, encodes complete protein.
CU688566 - Synthetic construct Homo sapiens gateway clone IMAGE:100020754 5' read SLC44A5 mRNA.
AK091400 - Homo sapiens cDNA FLJ34081 fis, clone FCBBF3004261, moderately similar to Homo sapiens CTL2 gene.
AX746959 - Sequence 484 from Patent EP1308459.
JD224317 - Sequence 205341 from Patent EP1572962.
JD107247 - Sequence 88271 from Patent EP1572962.
JD298140 - Sequence 279164 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8NCS7 (Reactome details) participates in the following event(s):

R-HSA-444433 Cho transports from the extracellular space to the cytosol
R-HSA-425366 Transport of bile salts and organic acids, metal ions and amine compounds
R-HSA-425428 Amine compound SLC transporters
R-HSA-1483191 Synthesis of PC
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-1483206 Glycerophospholipid biosynthesis
R-HSA-382551 Transport of small molecules
R-HSA-1483257 Phospholipid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: B5MCU3, CTL5, CTL5_HUMAN, ENST00000370855.1, ENST00000370855.2, ENST00000370855.3, ENST00000370855.4, NM_152697, Q4G0K0, Q8NA44, Q8NB86, Q8NCS7, uc001dgu.1, uc001dgu.2, uc001dgu.3, uc001dgu.4
UCSC ID: ENST00000370855.5
RefSeq Accession: NM_152697
Protein: Q8NCS7 (aka CTL5_HUMAN)
CCDS: CCDS667.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.