Human Gene SLC30A9 (uc003gwl.3) Description and Page Index
  Description: Homo sapiens solute carrier family 30 (zinc transporter), member 9 (SLC30A9), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr4:41,992,523-42,089,551 Size: 97,029 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr4:41,992,669-42,088,143 Size: 95,475 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:41,992,523-42,089,551)mRNA (may differ from genome)Protein (568 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZNT9_HUMAN
DESCRIPTION: RecName: Full=Zinc transporter 9; Short=ZnT-9; AltName: Full=Human embryonic lung protein; Short=HuEL; AltName: Full=Solute carrier family 30 member 9;
FUNCTION: Plays a role in the p160 coactivator signaling pathway that mediates transcriptional activation by nuclear receptors (By similarity). Plays a role in transcriptional activation of Wnt- responsive genes (By similarity).
SUBUNIT: Interacts with GRIP1, ESR1 and AR (By similarity).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential). Nucleus.
TISSUE SPECIFICITY: Ubiquitously expressed in fetal and adult tissues and cancer cell lines.
SIMILARITY: Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family. SLC30A subfamily.
SEQUENCE CAUTION: Sequence=AAP83846.1; Type=Miscellaneous discrepancy; Note=Unlikely isoform. Aberrant splice sites; Sequence=AAY40966.1; Type=Erroneous gene model prediction;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SLC30A9
CDC HuGE Published Literature: SLC30A9

-  MalaCards Disease Associations
  MalaCards Gene Search: SLC30A9
Diseases sorted by gene-association score: birk-landau-perez syndrome* (950)
* = Manually curated disease association

-  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: 16.87 RPKM in Pituitary
Total median expression: 509.92 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 -69.80146-0.478 Picture PostScript Text
3' UTR -345.481408-0.245 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
IPR002524 - Cation_efflux
IPR009061 - DNA-bd_dom_put

Pfam Domains:
PF01545 - Cation efflux family

SCOP Domains:
46955 - Putative DNA-binding domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2ENK
- NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q6PML9
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 orthologGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
  Protein SequenceProtein SequenceProtein Sequence 
  AlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003682 chromatin binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0008324 cation transmembrane transporter activity
GO:0016922 ligand-dependent nuclear receptor binding
GO:0030374 ligand-dependent nuclear receptor transcription coactivator activity

Biological Process:
GO:0006289 nucleotide-excision repair
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006811 ion transport
GO:0006812 cation transport
GO:0006829 zinc II ion transport
GO:0006882 cellular zinc ion homeostasis
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0055085 transmembrane transport
GO:0098655 cation transmembrane transport

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005856 cytoskeleton
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031410 cytoplasmic vesicle


-  Descriptions from all associated GenBank mRNAs
  AK312838 - Homo sapiens cDNA, FLJ93277, highly similar to Homo sapiens solute carrier family 30 (zinc transporter), member 9(SLC30A9), mRNA.
BC016949 - Homo sapiens solute carrier family 30 (zinc transporter), member 9, mRNA (cDNA clone MGC:21480 IMAGE:3850521), complete cds.
AK299917 - Homo sapiens cDNA FLJ50854 complete cds, highly similar to Homo sapiens solute carrier family 30 (zinc transporter), member 9 (SLC30A9), mRNA.
AF006621 - Homo sapiens embryonic lung protein (HUEL) mRNA, complete cds.
BC007732 - Homo sapiens solute carrier family 30 (zinc transporter), member 9, mRNA (cDNA clone MGC:12570 IMAGE:4109702), complete cds.
BC000240 - Homo sapiens cDNA clone IMAGE:3352004.
AY319413 - Homo sapiens chromosome 4 open reading frame 1 (C4orf1) mRNA, complete cds; alternatively spliced.
AK225470 - Homo sapiens mRNA for solute carrier family 30 (zinc transporter), member 9 variant, clone: HSI11426.
AB464232 - Synthetic construct DNA, clone: pF1KB8387, Homo sapiens SLC30A9 gene for solute carrier family 30 (zinc transporter), member 9, without stop codon, in Flexi system.
KU178526 - Homo sapiens solute carrier family 30 member 9 isoform 1 (SLC30A9) mRNA, partial cds.
KU178527 - Homo sapiens solute carrier family 30 member 9 isoform 2 (SLC30A9) mRNA, complete cds, alternatively spliced.
AY594282 - Homo sapiens HUEL (SLC30A9) mRNA, complete cds.
KJ898220 - Synthetic construct Homo sapiens clone ccsbBroadEn_07614 SLC30A9 gene, encodes complete protein.
BC022981 - Homo sapiens solute carrier family 30 (zinc transporter), member 9, mRNA (cDNA clone IMAGE:3456192), partial cds.
JD478336 - Sequence 459360 from Patent EP1572962.
JD211562 - Sequence 192586 from Patent EP1572962.
JD226820 - Sequence 207844 from Patent EP1572962.
AK075222 - Homo sapiens cDNA FLJ90741 fis, clone PLACE1011116.
JD438664 - Sequence 419688 from Patent EP1572962.
JD182025 - Sequence 163049 from Patent EP1572962.
JD566138 - Sequence 547162 from Patent EP1572962.
JD296480 - Sequence 277504 from Patent EP1572962.
JD469849 - Sequence 450873 from Patent EP1572962.
JD097967 - Sequence 78991 from Patent EP1572962.
JD039035 - Sequence 20059 from Patent EP1572962.
JD437957 - Sequence 418981 from Patent EP1572962.
JD244566 - Sequence 225590 from Patent EP1572962.
JD110326 - Sequence 91350 from Patent EP1572962.
JD562567 - Sequence 543591 from Patent EP1572962.
JD090823 - Sequence 71847 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: C4orf1, HUEL, NM_006345, NP_006336, Q4W5B6, Q6PML9, Q7Z5I7, Q8TBB2, Q9Y6R2, ZNT9_HUMAN
UCSC ID: uc003gwl.3
RefSeq Accession: NM_006345
Protein: Q6PML9 (aka ZNT9_HUMAN)
CCDS: CCDS3465.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_006345.3
exon count: 18CDS single in 3' UTR: no RNA size: 3272
ORF size: 1707CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3309.50frame shift in genome: no % Coverage: 99.66
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.