Human Gene SHISA7 (uc002qkz.3) Description and Page Index
  Description: Homo sapiens shisa homolog 7 (Xenopus laevis) (SHISA7), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:55,940,105-55,954,230 Size: 14,126 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr19:55,944,523-55,954,230 Size: 9,708 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:55,940,105-55,954,230)mRNA (may differ from genome)Protein (538 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SHSA7_HUMAN
DESCRIPTION: RecName: Full=Protein shisa-7; AltName: Full=Protein shisa-6-like; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SIMILARITY: Belongs to the shisa family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 20.07 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 151.11 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -1689.244418-0.382 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
IPR026910 - Shisa

Pfam Domains:
PF13908 - Wnt and FGF inhibitory regulator

ModBase Predicted Comparative 3D Structure on A6NL88
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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 BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0035255 ionotropic glutamate receptor binding

Biological Process:
GO:0007613 memory
GO:0048172 regulation of short-term neuronal synaptic plasticity
GO:1900273 positive regulation of long-term synaptic potentiation
GO:1904717 regulation of AMPA glutamate receptor clustering

Cellular Component:
GO:0005886 plasma membrane
GO:0014069 postsynaptic density
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0032281 AMPA glutamate receptor complex
GO:0045202 synapse
GO:0045211 postsynaptic membrane
GO:0098985 asymmetric, glutamatergic, excitatory synapse


-  Descriptions from all associated GenBank mRNAs
  AK091660 - Homo sapiens cDNA FLJ34341 fis, clone FEBRA2009804.
AX747116 - Sequence 641 from Patent EP1308459.
AK094959 - Homo sapiens cDNA FLJ37640 fis, clone BRHIP1000174.
LF207491 - JP 2014500723-A/14994: Polycomb-Associated Non-Coding RNAs.
AL831832 - Homo sapiens mRNA; cDNA DKFZp547H0214 (from clone DKFZp547H0214).
AK127223 - Homo sapiens cDNA FLJ45290 fis, clone BRHIP3002691.
JD358010 - Sequence 339034 from Patent EP1572962.
JD418734 - Sequence 399758 from Patent EP1572962.
JD254309 - Sequence 235333 from Patent EP1572962.
JD248980 - Sequence 230004 from Patent EP1572962.
JD372204 - Sequence 353228 from Patent EP1572962.
JD046711 - Sequence 27735 from Patent EP1572962.
JD277342 - Sequence 258366 from Patent EP1572962.
JD143617 - Sequence 124641 from Patent EP1572962.
JD094401 - Sequence 75425 from Patent EP1572962.
JD184934 - Sequence 165958 from Patent EP1572962.
JD094399 - Sequence 75423 from Patent EP1572962.
JD270616 - Sequence 251640 from Patent EP1572962.
JD172944 - Sequence 153968 from Patent EP1572962.
JD291699 - Sequence 272723 from Patent EP1572962.
JD507498 - Sequence 488522 from Patent EP1572962.
JD385614 - Sequence 366638 from Patent EP1572962.
LF366657 - JP 2014500723-A/174160: Polycomb-Associated Non-Coding RNAs.
JD455861 - Sequence 436885 from Patent EP1572962.
JD148992 - Sequence 130016 from Patent EP1572962.
JD126913 - Sequence 107937 from Patent EP1572962.
JD104520 - Sequence 85544 from Patent EP1572962.
JD121707 - Sequence 102731 from Patent EP1572962.
JD188692 - Sequence 169716 from Patent EP1572962.
JD295133 - Sequence 276157 from Patent EP1572962.
JD049453 - Sequence 30477 from Patent EP1572962.
JD060474 - Sequence 41498 from Patent EP1572962.
JD165177 - Sequence 146201 from Patent EP1572962.
JD485585 - Sequence 466609 from Patent EP1572962.
JD311233 - Sequence 292257 from Patent EP1572962.
JD156909 - Sequence 137933 from Patent EP1572962.
JD453200 - Sequence 434224 from Patent EP1572962.
JD467184 - Sequence 448208 from Patent EP1572962.
JD450025 - Sequence 431049 from Patent EP1572962.
JD278060 - Sequence 259084 from Patent EP1572962.
LF366662 - JP 2014500723-A/174165: Polycomb-Associated Non-Coding RNAs.
JD387340 - Sequence 368364 from Patent EP1572962.
JD126436 - Sequence 107460 from Patent EP1572962.
JD365729 - Sequence 346753 from Patent EP1572962.
JD237381 - Sequence 218405 from Patent EP1572962.
JD235091 - Sequence 216115 from Patent EP1572962.
JD544077 - Sequence 525101 from Patent EP1572962.
JD385838 - Sequence 366862 from Patent EP1572962.
JD119813 - Sequence 100837 from Patent EP1572962.
JD368122 - Sequence 349146 from Patent EP1572962.
JD135541 - Sequence 116565 from Patent EP1572962.
JD109987 - Sequence 91011 from Patent EP1572962.
JD352718 - Sequence 333742 from Patent EP1572962.
JD377138 - Sequence 358162 from Patent EP1572962.
JD510209 - Sequence 491233 from Patent EP1572962.
JD111197 - Sequence 92221 from Patent EP1572962.
JD510210 - Sequence 491234 from Patent EP1572962.
JD087915 - Sequence 68939 from Patent EP1572962.
JD386428 - Sequence 367452 from Patent EP1572962.
JD352719 - Sequence 333743 from Patent EP1572962.
JD111197 - Sequence 92221 from Patent EP1572962.
JD510210 - Sequence 491234 from Patent EP1572962.
JD510209 - Sequence 491233 from Patent EP1572962.
JD087915 - Sequence 68939 from Patent EP1572962.
JD386427 - Sequence 367451 from Patent EP1572962.
JD352719 - Sequence 333743 from Patent EP1572962.
JD510210 - Sequence 491234 from Patent EP1572962.
JD111197 - Sequence 92221 from Patent EP1572962.
JD510209 - Sequence 491233 from Patent EP1572962.
JD055881 - Sequence 36905 from Patent EP1572962.
JD082578 - Sequence 63602 from Patent EP1572962.
JD352718 - Sequence 333742 from Patent EP1572962.
JD232402 - Sequence 213426 from Patent EP1572962.
JD352718 - Sequence 333742 from Patent EP1572962.
JD510209 - Sequence 491233 from Patent EP1572962.
JD510210 - Sequence 491234 from Patent EP1572962.
JD111197 - Sequence 92221 from Patent EP1572962.
JD055881 - Sequence 36905 from Patent EP1572962.
JD082578 - Sequence 63602 from Patent EP1572962.
JD377798 - Sequence 358822 from Patent EP1572962.
JD155227 - Sequence 136251 from Patent EP1572962.
JD101183 - Sequence 82207 from Patent EP1572962.
JD085496 - Sequence 66520 from Patent EP1572962.
BC093900 - Homo sapiens UPF0626 protein A, mRNA (cDNA clone IMAGE:7939745), complete cds.
BC112197 - Homo sapiens UPF0626 protein A, mRNA (cDNA clone IMAGE:8327665), complete cds.
KJ904351 - Synthetic construct Homo sapiens clone ccsbBroadEn_13745 SHISA7 gene, encodes complete protein.
JD521553 - Sequence 502577 from Patent EP1572962.
JD096826 - Sequence 77850 from Patent EP1572962.
JD237436 - Sequence 218460 from Patent EP1572962.
LF366665 - JP 2014500723-A/174168: Polycomb-Associated Non-Coding RNAs.
LF366667 - JP 2014500723-A/174170: Polycomb-Associated Non-Coding RNAs.
JD522889 - Sequence 503913 from Patent EP1572962.
JD240120 - Sequence 221144 from Patent EP1572962.
JD128953 - Sequence 109977 from Patent EP1572962.
JD405122 - Sequence 386146 from Patent EP1572962.
MA602234 - JP 2018138019-A/174160: Polycomb-Associated Non-Coding RNAs.
MA602239 - JP 2018138019-A/174165: Polycomb-Associated Non-Coding RNAs.
MA602242 - JP 2018138019-A/174168: Polycomb-Associated Non-Coding RNAs.
MA602244 - JP 2018138019-A/174170: Polycomb-Associated Non-Coding RNAs.
MA443068 - JP 2018138019-A/14994: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NL88, NM_001145176, NP_001138648, SHSA7_HUMAN
UCSC ID: uc002qkz.3
RefSeq Accession: NM_001145176
Protein: A6NL88 (aka SHSA7_HUMAN)
CCDS: CCDS46193.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001145176.1
exon count: 4CDS single in 3' UTR: no RNA size: 6035
ORF size: 1617CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3325.00frame 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.