Human Gene SLC30A6 (uc002rof.2) Description and Page Index
  Description: Homo sapiens solute carrier family 30 (zinc transporter), member 6 (SLC30A6), transcript variant 1, mRNA.
RefSeq Summary (NM_001193513): This gene encodes a member of a family of proteins that function as zinc transporters. This protein can regulate subcellular levels of zinc in the Golgi and vesicles. Expression of this gene is altered in the Alzheimer's disease brain plaques. [provided by RefSeq, Aug 2016].
Transcript (Including UTRs)
   Position: hg19 chr2:32,390,910-32,449,181 Size: 58,272 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr2:32,390,970-32,445,782 Size: 54,813 Coding Exon Count: 15 

Page IndexSequence and LinksGenetic AssociationsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:32,390,910-32,449,181)mRNA (may differ from genome)Protein (501 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
ReactomeStanford SOURCETreefamUniProtKB

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SLC30A6
CDC HuGE Published Literature: SLC30A6

-  MalaCards Disease Associations
  MalaCards Gene Search: SLC30A6
Diseases sorted by gene-association score: x-linked hereditary ataxia (7), fragile x-associated tremor/ataxia syndrome (6)

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.03 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 205.09 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -23.8060-0.397 Picture PostScript Text
3' UTR -894.163399-0.263 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
  Pfam Domains:
PF01545 - Cation efflux family

ModBase Predicted Comparative 3D Structure on Q6NXT4-2
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  EF560719 - Homo sapiens clone DKFZp781H0675 SLC30A6 protein (SLC30A6) mRNA, complete cds.
EF560726 - Homo sapiens clone DKFZp686O05128 SLC30A6 protein (SLC30A6) mRNA, complete cds.
AK304225 - Homo sapiens cDNA FLJ55532 complete cds, highly similar to Homo sapiens solute carrier family 30 (zinc transporter), member 6 (SLC30A6), mRNA.
BC066903 - Homo sapiens solute carrier family 30 (zinc transporter), member 6, mRNA (cDNA clone MGC:87049 IMAGE:4801303), complete cds.
AK096672 - Homo sapiens cDNA FLJ39353 fis, clone PEBLM2002432, highly similar to Homo sapiens solute carrier family 30 (zinc transporter), member 6 (SLC30A6), mRNA.
AK055663 - Homo sapiens cDNA FLJ31101 fis, clone IMR321000266, weakly similar to ZINC/CADMIUM RESISTANCE PROTEIN.
AK127716 - Homo sapiens cDNA FLJ45816 fis, clone NT2RP7019682, highly similar to Homo sapiens solute carrier family 30 (zinc transporter), member 6 (SLC30A6), mRNA.
AL832755 - Homo sapiens mRNA; cDNA DKFZp686A0927 (from clone DKFZp686A0927).
JD462880 - Sequence 443904 from Patent EP1572962.
AF173387 - Homo sapiens MSTP103 (MST103) mRNA, complete cds.
GQ129225 - Synthetic construct Homo sapiens clone HAIB:100068642; DKFZo004A0336 solute carrier family 30 (zinc transporter), member 6 protein (SLC30A6) gene, partial cds.
GQ129379 - Synthetic construct Homo sapiens clone HAIB:100068699; DKFZo004F0136 solute carrier family 30 (zinc transporter), member 6 protein (SLC30A6) gene, partial cds.
GQ129226 - Synthetic construct Homo sapiens clone HAIB:100068546; DKFZo008A0335 solute carrier family 30 (zinc transporter), member 6 protein (SLC30A6) gene, complete cds.
GQ129380 - Synthetic construct Homo sapiens clone HAIB:100068602; DKFZo008F0135 solute carrier family 30 (zinc transporter), member 6 protein (SLC30A6) gene, complete cds.
BC032525 - Homo sapiens solute carrier family 30 (zinc transporter), member 6, mRNA (cDNA clone IMAGE:5501599), complete cds.
KJ902854 - Synthetic construct Homo sapiens clone ccsbBroadEn_12248 SLC30A6 gene, encodes complete protein.
JD191996 - Sequence 173020 from Patent EP1572962.
JD254930 - Sequence 235954 from Patent EP1572962.
JD490669 - Sequence 471693 from Patent EP1572962.
JD069787 - Sequence 50811 from Patent EP1572962.
JD414979 - Sequence 396003 from Patent EP1572962.
JD304130 - Sequence 285154 from Patent EP1572962.
JD312200 - Sequence 293224 from Patent EP1572962.
JD346694 - Sequence 327718 from Patent EP1572962.
JD466380 - Sequence 447404 from Patent EP1572962.
JD357047 - Sequence 338071 from Patent EP1572962.
JD559101 - Sequence 540125 from Patent EP1572962.

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

Protein Q6NXT4 (Reactome details) participates in the following event(s):

R-HSA-437139 ZnT6 transports zinc into the golgi apparatus
R-HSA-264876 Insulin processing
R-HSA-435368 Zinc efflux and compartmentalization by the SLC30 family
R-HSA-2980736 Peptide hormone metabolism
R-HSA-435354 Zinc transporters
R-HSA-392499 Metabolism of proteins
R-HSA-425410 Metal ion SLC transporters
R-HSA-425366 Transport of bile salts and organic acids, metal ions and amine compounds
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001193513, NP_001180442, Q6NXT4-2, ZNT6
UCSC ID: uc002rof.2
RefSeq Accession: NM_001193513
Protein: Q6NXT4-2, splice isoform of Q6NXT4 CCDS: CCDS54341.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001193513.1
exon count: 15CDS single in 3' UTR: no RNA size: 4965
ORF size: 1506CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2560.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

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