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Slc44a1 solute carrier family 44, member 1 [ Mus musculus (house mouse) ]

Gene ID: 100434, updated on 8-May-2024

Summary

Official Symbol
Slc44a1provided by MGI
Official Full Name
solute carrier family 44, member 1provided by MGI
Primary source
MGI:MGI:2140592
See related
Ensembl:ENSMUSG00000028412 AllianceGenome:MGI:2140592
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
CTL1; CHTL1; Cdw92; 2210409B22Rik; 4833416H08Rik
Summary
Enables choline transmembrane transporter activity. Involved in transmembrane transport. Acts upstream of or within choline transport. Is integral component of membrane. Is expressed in several structures, including alimentary system; brain; genitourinary system; hindlimb long bone; and thoracic segment skeleton. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SLC44A1 (solute carrier family 44 member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in colon adult (RPKM 21.8), bladder adult (RPKM 12.6) and 27 other tissues See more
Orthologs
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Genomic context

See Slc44a1 in Genome Data Viewer
Location:
4 B2; 4 28.66 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (53440387..53622478)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (53440387..53622478)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr4:53290912-53291213 Neighboring gene STARR-seq mESC enhancer starr_10223 Neighboring gene macrophage expressed LXRa(NR1H3)-dependent amplifier of Abca1 transcription lncRNA Neighboring gene STARR-seq mESC enhancer starr_10230 Neighboring gene predicted gene 12496 Neighboring gene STARR-positive B cell enhancer mm9_chr4:53397629-53397930 Neighboring gene STARR-seq mESC enhancer starr_10233 Neighboring gene STARR-positive B cell enhancer mm9_chr4:53424836-53425137 Neighboring gene STARR-seq mESC enhancer starr_10238 Neighboring gene predicted gene, 54227 Neighboring gene STARR-seq mESC enhancer starr_10241 Neighboring gene RIKEN cDNA 1700060J05 gene Neighboring gene predicted gene, 54226 Neighboring gene fibronectin type III and SPRY domain containing 1-like Neighboring gene single stranded DNA binding protein 4 pseudogene Neighboring gene fukutin

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Targeted (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables antiporter activity IEA
Inferred from Electronic Annotation
more info
 
enables choline transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables choline transmembrane transporter activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables choline transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
 
enables ethanolamine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
 
enables transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in choline transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in choline transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in choline transport ISO
Inferred from Sequence Orthology
more info
 
involved_in ethanolamine transport ISO
Inferred from Sequence Orthology
more info
 
involved_in transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in transmembrane transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in transmembrane transport ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in mitochondrial outer membrane ISO
Inferred from Sequence Orthology
more info
 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
choline transporter-like protein 1
Names
CDW92 antigen

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001159633.1NP_001153105.1  choline transporter-like protein 1 isoform B

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has a different exon for its 3'-terminal exon, compared to variant 1, which results in a distinct 3' UTR and a protein (isoform B) with a shorter and distinct C-terminus, compared to isoform A.
    Source sequence(s)
    AK077951, CF532681, CJ054525
    Consensus CDS
    CCDS51178.1
    UniProtKB/TrEMBL
    A2AMH3
    Related
    ENSMUSP00000103273.3, ENSMUST00000107646.9
    Conserved Domains (1) summary
    pfam04515
    Location:292497
    Choline_transpo; Plasma-membrane choline transporter
  2. NM_001374697.1NP_001361626.1  choline transporter-like protein 1 isoform C

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) encodes the longest isoform (C).
    Source sequence(s)
    AL805900, AL807745
    Consensus CDS
    CCDS89743.1
    UniProtKB/TrEMBL
    A2AMH5
    Related
    ENSMUSP00000103278.3, ENSMUST00000107651.9
    Conserved Domains (1) summary
    pfam04515
    Location:293603
    Choline_transpo; Plasma-membrane choline transporter
  3. NM_133891.3NP_598652.3  choline transporter-like protein 1 isoform A

    See identical proteins and their annotated locations for NP_598652.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes isoform A.
    Source sequence(s)
    AK077951, BB271503, BC113167, BQ031280
    Consensus CDS
    CCDS18189.1
    UniProtKB/Swiss-Prot
    Q14DK0, Q6X893, Q6X894, Q8R0Y4, Q91Z29
    Related
    ENSMUSP00000099975.4, ENSMUST00000102911.10
    Conserved Domains (1) summary
    pfam04515
    Location:292603
    Choline_transpo; Plasma-membrane choline transporter

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    53440387..53622478
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006537531.4XP_006537594.1  choline transporter-like protein 1 isoform X1

    UniProtKB/TrEMBL
    A2AMH4
    Related
    ENSMUSP00000103274.2, ENSMUST00000107647.8
    Conserved Domains (1) summary
    pfam04515
    Location:293603
    Choline_transpo; Plasma-membrane choline transporter
  2. XM_030253067.1XP_030108927.1  choline transporter-like protein 1 isoform X3

    UniProtKB/TrEMBL
    A2AMH8
    Related
    ENSMUSP00000103272.2, ENSMUST00000107645.2
    Conserved Domains (1) summary
    pfam04515
    Location:68378
    Choline_transpo; Plasma-membrane choline transporter
  3. XM_006537533.4XP_006537596.1  choline transporter-like protein 1 isoform X2

    Conserved Domains (1) summary
    pfam04515
    Location:253563
    Choline_transpo; Plasma-membrane choline transporter