Format

Send to:

Choose Destination

SLC44A3 solute carrier family 44 member 3 [ Homo sapiens (human) ]

Gene ID: 126969, updated on 7-Jun-2020

Summary

Official Symbol
SLC44A3provided by HGNC
Official Full Name
solute carrier family 44 member 3provided by HGNC
Primary source
HGNC:HGNC:28689
See related
Ensembl:ENSG00000143036
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CTL3
Expression
Broad expression in kidney (RPKM 8.6), colon (RPKM 8.5) and 20 other tissues See more
Orthologs

Genomic context

See SLC44A3 in Genome Data Viewer
Location:
1p21.3
Exon count:
20
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (94820351..94895247)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (95285898..95360803)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene SLC44A3 antisense RNA 1 Neighboring gene uncharacterized LOC105378860 Neighboring gene microRNA 378g Neighboring gene calponin 3 Neighboring gene CNN3 divergent transcript Neighboring gene ALG14 UDP-N-acetylglucosaminyltransferase subunit Neighboring gene uncharacterized LOC105378863

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association search for type 2 diabetes genes in African Americans.
NHGRI GWA Catalog
Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC45474

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
phosphatidylcholine biosynthetic process TAS
Traceable Author Statement
more info
 
transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transmembrane transport TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
choline transporter-like protein 3

NCBI Reference Sequences (RefSeq)

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_001114106.3NP_001107578.1  choline transporter-like protein 3 isoform 1

    See identical proteins and their annotated locations for NP_001107578.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AY358659, BC033858, DB331517, DC311042
    Consensus CDS
    CCDS44176.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    Related
    ENSP00000271227.6, ENST00000271227.11
    Conserved Domains (1) summary
    pfam04515
    Location:288601
    Choline_transpo; Plasma-membrane choline transporter
  2. NM_001258340.2NP_001245269.1  choline transporter-like protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001245269.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AK313574, AL530322, AY358659, BX648225, DB331517, DC311042
    UniProtKB/Swiss-Prot
    Q8N4M1
    Conserved Domains (1) summary
    pfam04515
    Location:288600
    Choline_transpo; Plasma-membrane choline transporter
  3. NM_001258341.2NP_001245270.1  choline transporter-like protein 3 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses two alternate splice sites in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AK316123, BX648225, DB331517, DC311042
    Consensus CDS
    CCDS58011.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    Related
    ENSP00000431836.1, ENST00000529450.5
    Conserved Domains (1) summary
    pfam04515
    Location:257568
    Choline_transpo; Plasma-membrane choline transporter
  4. NM_001258342.2NP_001245271.1  choline transporter-like protein 3 isoform 5

    See identical proteins and their annotated locations for NP_001245271.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an exon in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
    Source sequence(s)
    AK303906, AY358659, DB331517, DC311042
    Consensus CDS
    CCDS58013.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    Related
    ENSP00000389143.2, ENST00000446120.6
    Conserved Domains (1) summary
    pfam04515
    Location:252565
    Choline_transpo; Plasma-membrane choline transporter
  5. NM_001258343.2NP_001245272.1  choline transporter-like protein 3 isoform 6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an exon and uses an alternate splice site in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (6) is shorter than isoform 1.
    Source sequence(s)
    AK301288, AY358659, DB331517, DC311042
    Consensus CDS
    CCDS58012.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    Related
    ENSP00000433641.1, ENST00000527077.5
    Conserved Domains (1) summary
    pfam04515
    Location:221533
    Choline_transpo; Plasma-membrane choline transporter
  6. NM_001301079.2NP_001288008.1  choline transporter-like protein 3 isoform 7

    See identical proteins and their annotated locations for NP_001288008.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, contains multiple differences in the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (7) is shorter than isoform 1.
    Source sequence(s)
    AK300193, AY358659, DA538278, DB331517
    Consensus CDS
    CCDS72827.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    UniProtKB/TrEMBL
    B4DTF4, E9PIC5
    Related
    ENSP00000436661.1, ENST00000532427.5
    Conserved Domains (1) summary
    pfam04515
    Location:209521
    Choline_transpo; Plasma-membrane choline transporter
  7. NM_001350223.1NP_001337152.1  choline transporter-like protein 3 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC093429, AK300193, AY358659, BX648225, DB331517
    Conserved Domains (1) summary
    pfam04515
    Location:192504
    Choline_transpo; Plasma-membrane choline transporter
  8. NM_152369.5NP_689582.2  choline transporter-like protein 3 isoform 2

    See identical proteins and their annotated locations for NP_689582.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AY358659, BC053877, DA538278, DB331517
    Consensus CDS
    CCDS751.1
    UniProtKB/Swiss-Prot
    Q8N4M1
    Related
    ENSP00000432789.1, ENST00000467909.5
    Conserved Domains (1) summary
    pfam04515
    Location:240553
    Choline_transpo; Plasma-membrane choline transporter

RNA

  1. NR_146575.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC093429, AY358659, BC033858, DB331517, DC311042

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    94820351..94895247
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005270440.2XP_005270497.1  choline transporter-like protein 3 isoform X1

    Conserved Domains (1) summary
    pfam04515
    Location:256569
    Choline_transpo; Plasma-membrane choline transporter
  2. XM_017000265.1XP_016855754.1  choline transporter-like protein 3 isoform X7

  3. XM_011540636.3XP_011538938.1  choline transporter-like protein 3 isoform X11

    Conserved Domains (1) summary
    pfam04515
    Location:256462
    Choline_transpo; Plasma-membrane choline transporter
  4. XM_017000262.2XP_016855751.1  choline transporter-like protein 3 isoform X2

    Conserved Domains (1) summary
    pfam04515
    Location:252564
    Choline_transpo; Plasma-membrane choline transporter
  5. XM_005270442.2XP_005270499.1  choline transporter-like protein 3 isoform X5

    Conserved Domains (1) summary
    pfam04515
    Location:288543
    Choline_transpo; Plasma-membrane choline transporter
  6. XM_017000264.2XP_016855753.1  choline transporter-like protein 3 isoform X6

  7. XM_011540635.3XP_011538937.1  choline transporter-like protein 3 isoform X10

    Conserved Domains (1) summary
    pfam04515
    Location:288494
    Choline_transpo; Plasma-membrane choline transporter
  8. XM_017000266.2XP_016855755.1  choline transporter-like protein 3 isoform X9

  9. XM_005270441.2XP_005270498.1  choline transporter-like protein 3 isoform X3

    See identical proteins and their annotated locations for XP_005270498.1

    UniProtKB/Swiss-Prot
    Q8N4M1
    Conserved Domains (1) summary
    pfam04515
    Location:240553
    Choline_transpo; Plasma-membrane choline transporter
  10. XM_017000263.1XP_016855752.1  choline transporter-like protein 3 isoform X4

  11. XM_011540633.2XP_011538935.1  choline transporter-like protein 3 isoform X8

    Conserved Domains (1) summary
    pfam04515
    Location:159472
    Choline_transpo; Plasma-membrane choline transporter

RNA

  1. XR_001736961.2 RNA Sequence

  2. XR_001736962.2 RNA Sequence

  3. XR_946543.2 RNA Sequence

Support Center