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SLC39A13 solute carrier family 39 member 13 [ Homo sapiens (human) ]

Gene ID: 91252, updated on 20-Dec-2019

Summary

Official Symbol
SLC39A13provided by HGNC
Official Full Name
solute carrier family 39 member 13provided by HGNC
Primary source
HGNC:HGNC:20859
See related
Ensembl:ENSG00000165915 MIM:608735
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ZIP13; SCDEDS; EDSSPD3; LZT-Hs9
Summary
This gene encodes a member of the LIV-1 subfamily of the ZIP transporter family. The encoded transmembrane protein functions as a zinc transporter. Mutations in this gene have been associated with the spondylocheiro dysplastic form of Ehlers-Danlos syndrome. Alternate transcript variants have been found for this gene. [provided by RefSeq, Jan 2016]
Expression
Ubiquitous expression in placenta (RPKM 19.2), testis (RPKM 13.3) and 25 other tissues See more
Orthologs

Genomic context

See SLC39A13 in Genome Data Viewer
Location:
11p11.2
Exon count:
14
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (47407132..47416501)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (47428683..47438051)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene Spi-1 proto-oncogene Neighboring gene microRNA 4487 Neighboring gene proteasome 26S subunit, ATPase 3 Neighboring gene receptor associated protein of the synapse

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Clone Names

  • FLJ25785

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion transmembrane transporter activity IC
Inferred by Curator
more info
PubMed 
zinc ion transmembrane transporter activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
cellular zinc ion homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular zinc ion homeostasis IDA
Inferred from Direct Assay
more info
PubMed 
cellular zinc ion homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
connective tissue development IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to zinc ion IEA
Inferred from Electronic Annotation
more info
 
zinc ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion transmembrane transport IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion transmembrane transport ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
Golgi apparatus ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
cell IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
integral component of Golgi membrane IC
Inferred by Curator
more info
PubMed 
integral component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
perinuclear region of cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 

General protein information

Preferred Names
zinc transporter ZIP13
Names
LIV-1 subfamily of ZIP zinc transporter 9
solute carrier family 39 (metal ion transporter), member 13
solute carrier family 39 (zinc transporter), member 13
zrt- and Irt-like protein 13

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.

Genomic

  1. NG_017073.1 RefSeqGene

    Range
    5001..13006
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001128225.3NP_001121697.2  zinc transporter ZIP13 isoform a precursor

    Status: REVIEWED

    Source sequence(s)
    AC090559
    Consensus CDS
    CCDS44592.1
    Related
    ENSP00000354689.4, ENST00000362021.9
    Conserved Domains (1) summary
    pfam02535
    Location:65365
    Zip; ZIP Zinc transporter
  2. NM_001330245.1NP_001317174.1  zinc transporter ZIP13 isoform c precursor

    Status: REVIEWED

    Source sequence(s)
    AC090559, AW339212, BI819625, BM925211, BX342307
    Consensus CDS
    CCDS81564.1
    UniProtKB/Swiss-Prot
    Q96H72
    Related
    ENSP00000434290.1, ENST00000533076.5
  3. NM_152264.4NP_689477.2  zinc transporter ZIP13 isoform b precursor

    See identical proteins and their annotated locations for NP_689477.2

    Status: REVIEWED

    Source sequence(s)
    AC090559, BC019016, BI918365
    Consensus CDS
    CCDS7934.1
    UniProtKB/Swiss-Prot
    Q96H72
    Related
    ENSP00000346956.4, ENST00000354884.8
    Conserved Domains (1) summary
    pfam02535
    Location:65358
    Zip; ZIP Zinc transporter

RNA

  1. NR_134854.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AK098651, AL133581

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    47407132..47416501
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011520467.1XP_011518769.1  zinc transporter ZIP13 isoform X4

    See identical proteins and their annotated locations for XP_011518769.1

    UniProtKB/Swiss-Prot
    Q96H72
    Conserved Domains (1) summary
    pfam02535
    Location:65365
    Zip; ZIP Zinc transporter
  2. XM_011520468.3XP_011518770.1  zinc transporter ZIP13 isoform X4

    See identical proteins and their annotated locations for XP_011518770.1

    UniProtKB/Swiss-Prot
    Q96H72
    Conserved Domains (1) summary
    pfam02535
    Location:65365
    Zip; ZIP Zinc transporter
  3. XM_017018541.2XP_016874030.1  zinc transporter ZIP13 isoform X10

  4. XM_024448762.1XP_024304530.1  zinc transporter ZIP13 isoform X1

    Conserved Domains (1) summary
    pfam02535
    Location:65408
    Zip; ZIP Zinc transporter
  5. XM_017018540.2XP_016874029.1  zinc transporter ZIP13 isoform X5

    UniProtKB/Swiss-Prot
    Q96H72
    Conserved Domains (1) summary
    pfam02535
    Location:65358
    Zip; ZIP Zinc transporter
  6. XM_011520470.2XP_011518772.1  zinc transporter ZIP13 isoform X9

    Conserved Domains (1) summary
    pfam02535
    Location:65329
    Zip; ZIP Zinc transporter
  7. XM_006718381.3XP_006718444.1  zinc transporter ZIP13 isoform X3

    Conserved Domains (1) summary
    pfam02535
    Location:80373
    Zip; ZIP Zinc transporter
  8. XM_006718383.3XP_006718446.1  zinc transporter ZIP13 isoform X7

    Conserved Domains (1) summary
    pfam02535
    Location:80337
    Zip; ZIP Zinc transporter
  9. XM_011520466.1XP_011518768.1  zinc transporter ZIP13 isoform X2

    Conserved Domains (1) summary
    pfam02535
    Location:80380
    Zip; ZIP Zinc transporter
  10. XM_006718384.2XP_006718447.1  zinc transporter ZIP13 isoform X8

    Conserved Domains (1) summary
    pfam02535
    Location:80313
    Zip; ZIP Zinc transporter
  11. XM_011520469.1XP_011518771.1  zinc transporter ZIP13 isoform X6

    Conserved Domains (1) summary
    pfam02535
    Location:80344
    Zip; ZIP Zinc transporter
  12. XM_006718385.2XP_006718448.1  zinc transporter ZIP13 isoform X11

    Related
    ENSP00000434684.1, ENST00000531865.5
    Conserved Domains (1) summary
    pfam02535
    Location:80277
    Zip; ZIP Zinc transporter

RNA

  1. XR_930928.2 RNA Sequence

  2. XR_428862.3 RNA Sequence

  3. XR_428863.3 RNA Sequence

  4. XR_001748027.1 RNA Sequence

  5. XR_001748028.1 RNA Sequence

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