Human Gene IQCJ-SCHIP1 (uc003fcq.2) Description and Page Index
  Description: Homo sapiens IQCJ-SCHIP1 readthrough (IQCJ-SCHIP1), transcript variant 1, mRNA.
RefSeq Summary (NM_001197113): This locus represents naturally occurring read-through transcription from the neighboring IQ motif containing J (IQCJ) and schwannomin interacting protein 1 (SCHIP1) genes. Alternative splicing results in multiple transcript variants that are composed of in-frame exons from each individual gene. The resulting fusion products are thought to be components of the multimolecular complexes of axon initial segments and nodes of Ranvier, and they may play a role in calcium-mediated responses. [provided by RefSeq, Oct 2010].
Transcript (Including UTRs)
   Position: hg19 chr3:158,787,041-159,615,155 Size: 828,115 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr3:158,787,222-159,614,563 Size: 827,342 Coding Exon Count: 11 

Page IndexSequence and LinksGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:158,787,041-159,615,155)mRNA (may differ from genome)Protein (563 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCLynxMGIPubMedStanford SOURCEUniProtKB

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.56 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 68.00 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 -45.50181-0.251 Picture PostScript Text
3' UTR -131.76592-0.223 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:
PF00612 - IQ calmodulin-binding motif
PF10148 - Schwannomin-interacting protein 1
PF15157 - Fusion protein IQCJ-SCHIP1 with IQ-like motif

ModBase Predicted Comparative 3D Structure on Q9P0W5-5
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AK096479 - Homo sapiens cDNA FLJ39160 fis, clone OCBBF2002290, highly similar to Homo sapiens schwannomin interacting protein 1 (SCHIP1), mRNA.
DQ157847 - Homo sapiens schwannomin interacting protein 1 variant 2 mRNA, complete cds.
DQ157848 - Homo sapiens schwannomin interacting protein 1 variant 1 mRNA, complete cds.
BC036535 - Homo sapiens schwannomin interacting protein 1, mRNA (cDNA clone MGC:33753 IMAGE:5263291), complete cds.
AK314662 - Homo sapiens cDNA, FLJ95509, highly similar to Homo sapiens schwannomin interacting protein 1 (SCHIP1), mRNA.
AF145713 - Homo sapiens SCHIP-1 mRNA, complete cds.
AF145715 - Homo sapiens SCHIP-1-D241/253 mRNA, complete cds.
DQ309554 - Homo sapiens calmodulin binding protein variant 2 mRNA, complete cds.
DQ309553 - Homo sapiens calmodulin binding protein variant 1 mRNA, complete cds.
AK309049 - Homo sapiens cDNA, FLJ99090.
BC137464 - Homo sapiens IQ motif containing J, mRNA (cDNA clone MGC:169087 IMAGE:9021464), complete cds.
BC137469 - Homo sapiens IQ motif containing J, mRNA (cDNA clone MGC:169092 IMAGE:9021469), complete cds.
BC144658 - Homo sapiens IQ motif containing J, mRNA (cDNA clone MGC:178206 IMAGE:9053189), complete cds.
AK309223 - Homo sapiens cDNA, FLJ99264.
DQ891190 - Synthetic construct clone IMAGE:100003820; FLH170021.01X; RZPDo839A1198D schwannomin interacting protein 1 (SCHIP1) gene, encodes complete protein.
DQ894374 - Synthetic construct Homo sapiens clone IMAGE:100008834; FLH170017.01L; RZPDo839A1197D schwannomin interacting protein 1 (SCHIP1) gene, encodes complete protein.
AF070614 - Homo sapiens clone 24732 unknown mRNA, partial cds.
AK091871 - Homo sapiens cDNA FLJ34552 fis, clone IMR322000518, highly similar to Mus musculus schwannomin interacting protein 1 (Schip1), mRNA.
BC005947 - Homo sapiens schwannomin interacting protein 1, mRNA (cDNA clone MGC:14583 IMAGE:4246326), complete cds.
CU675205 - Synthetic construct Homo sapiens gateway clone IMAGE:100022137 5' read SCHIP1 mRNA.
KJ898760 - Synthetic construct Homo sapiens clone ccsbBroadEn_08154 SCHIP1 gene, encodes complete protein.
BX648179 - Homo sapiens mRNA; cDNA DKFZp686D05168 (from clone DKFZp686D05168).
AF145714 - Homo sapiens SCHIP-1-D22/253 mRNA, complete cds.
JD314185 - Sequence 295209 from Patent EP1572962.
JD239003 - Sequence 220027 from Patent EP1572962.
JD053947 - Sequence 34971 from Patent EP1572962.
JD114606 - Sequence 95630 from Patent EP1572962.
JD184516 - Sequence 165540 from Patent EP1572962.
JD284860 - Sequence 265884 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001197113, NP_001184042, Q9P0W5-5, SCHIP1
UCSC ID: uc003fcq.2
RefSeq Accession: NM_001197113
Protein: Q9P0W5-5, splice isoform of Q9P0W5 CCDS: CCDS56289.1, CCDS56291.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001197113.1
exon count: 11CDS single in 3' UTR: no RNA size: 2465
ORF size: 1692CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3543.50frame 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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.