Human Gene SHKBP1 (ENST00000291842.10_4) from GENCODE V47lift37
  Description: SH3KBP1 binding protein 1 (from RefSeq NM_138392.4)
Gencode Transcript: ENST00000291842.10_4
Gencode Gene: ENSG00000160410.15_10
Transcript (Including UTRs)
   Position: hg19 chr19:41,082,779-41,097,303 Size: 14,525 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr19:41,082,806-41,097,113 Size: 14,308 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:41,082,779-41,097,303)mRNA (may differ from genome)Protein (707 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SHKB1_HUMAN
DESCRIPTION: RecName: Full=SH3KBP1-binding protein 1;
SUBUNIT: Interacts with SH3KBP1 (By similarity).
SIMILARITY: Belongs to the KCTD3 family.
SIMILARITY: Contains 1 BTB (POZ) domain.
SIMILARITY: Contains 5 WD repeats.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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: 173.16 RPKM in Whole Blood
Total median expression: 935.76 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
5' UTR -12.9027-0.478 Picture PostScript Text
3' UTR -63.50190-0.334 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
IPR000210 - BTB/POZ-like
IPR011333 - BTB/POZ_fold
IPR003131 - T1-type_BTB
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF02214 - BTB/POZ domain

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like
54695 - POZ domain

ModBase Predicted Comparative 3D Structure on Q8TBC3
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 DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0045742 positive regulation of epidermal growth factor receptor signaling pathway
GO:0051260 protein homooligomerization

Cellular Component:
GO:0005764 lysosome


-  Descriptions from all associated GenBank mRNAs
  KJ899956 - Synthetic construct Homo sapiens clone ccsbBroadEn_09350 SHKBP1 gene, encodes complete protein.
AF258553 - Homo sapiens PP203 mRNA, complete cds.
AK300819 - Homo sapiens cDNA FLJ53408 complete cds, highly similar to Homo sapiens SH3KBP1 binding protein 1 (SHKBP1), mRNA.
AK075057 - Homo sapiens cDNA FLJ90576 fis, clone OVARC1001991, weakly similar to VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.3.
BC022855 - Homo sapiens SH3KBP1 binding protein 1, mRNA (cDNA clone MGC:22658 IMAGE:4102901), complete cds.
AK312748 - Homo sapiens cDNA, FLJ93157, highly similar to Homo sapiens SH3KBP1 binding protein 1 (SHKBP1), mRNA.
AK300808 - Homo sapiens cDNA FLJ55912 complete cds, highly similar to Homo sapiens SH3KBP1 binding protein 1 (SHKBP1), mRNA.
AK123695 - Homo sapiens cDNA FLJ41701 fis, clone HCHON2006250, highly similar to Homo sapiens SH3KBP1 binding protein 1 (SHKBP1), mRNA.
AK297006 - Homo sapiens cDNA FLJ56104 complete cds, highly similar to Homo sapiens SH3KBP1 binding protein 1 (SHKBP1), mRNA.
BC007653 - Homo sapiens SH3KBP1 binding protein 1, mRNA (cDNA clone IMAGE:3610013), partial cds.
AY007117 - Homo sapiens clone CDABP0005 mRNA sequence.
JD531179 - Sequence 512203 from Patent EP1572962.
JD187636 - Sequence 168660 from Patent EP1572962.
JD203926 - Sequence 184950 from Patent EP1572962.
JD276740 - Sequence 257764 from Patent EP1572962.
JD121959 - Sequence 102983 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000291842.1, ENST00000291842.2, ENST00000291842.3, ENST00000291842.4, ENST00000291842.5, ENST00000291842.6, ENST00000291842.7, ENST00000291842.8, ENST00000291842.9, NM_138392, PP203, Q8N2I6, Q8TBC3, Q8WY93, Q96IB8, SB1 , SHKB1_HUMAN, uc317kzk.1, uc317kzk.2
UCSC ID: ENST00000291842.10_4
RefSeq Accession: NM_138392.4
Protein: Q8TBC3 (aka SHKB1_HUMAN)

-  Gene Model Information
  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.