Human Gene SHCBP1 (ENST00000303383.8_8) from GENCODE V47lift37
  Description: SHC binding and spindle associated 1, transcript variant 4 (from RefSeq NR_136738.2)
Gencode Transcript: ENST00000303383.8_8
Gencode Gene: ENSG00000171241.9_10
Transcript (Including UTRs)
   Position: hg19 chr16:46,612,503-46,655,291 Size: 42,789 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr16:46,615,641-46,655,271 Size: 39,631 Coding Exon Count: 13 

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 (chr16:46,612,503-46,655,291)mRNA (may differ from genome)Protein (672 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SHCBP_HUMAN
DESCRIPTION: RecName: Full=SHC SH2 domain-binding protein 1;
FUNCTION: May play a role in signaling pathways governing cellular proliferation, cell growth and differentiation. May be a component of a novel signaling pathway downstream of Shc. Acts as a positive regulator of FGF signaling in neural progenitor cells (By similarity).
SUBUNIT: Interacts directly with isoform p52shc of SHC1 via its SH2 domain. Interacts with TRIM71; leading to enhance SHCBP1 protein stability (By similarity).
SIMILARITY: Contains 5 PbH1 repeats.
SEQUENCE CAUTION: Sequence=BAB15208.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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
  • D001564 Benzo(a)pyrene
  • D013749 Tetrachlorodibenzodioxin
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C010914 2,4-diaminotoluene
  • C036990 2-amino-3,8-dimethylimidazo(4,5-f)quinoxaline
  • C009505 4,4'-diaminodiphenylmethane
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • C547126 AZM551248
  • D000082 Acetaminophen
          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: 17.25 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 52.18 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 -2.5020-0.125 Picture PostScript Text
3' UTR -1021.203138-0.325 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
IPR006626 - PbH1
IPR012334 - Pectin_lyas_fold
IPR011050 - Pectin_lyase_fold/virulence

Pfam Domains:
PF05048 - Periplasmic copper-binding protein (NosD)
PF13229 - Right handed beta helix region

SCOP Domains:
51126 - Pectin lyase-like

ModBase Predicted Comparative 3D Structure on Q8NEM2
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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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042169 SH2 domain binding

Biological Process:
GO:0008543 fibroblast growth factor receptor signaling pathway
GO:2000177 regulation of neural precursor cell proliferation

Cellular Component:
GO:0005737 cytoplasm
GO:0005819 spindle
GO:0005856 cytoskeleton
GO:0030496 midbody


-  Descriptions from all associated GenBank mRNAs
  JD558837 - Sequence 539861 from Patent EP1572962.
JD293521 - Sequence 274545 from Patent EP1572962.
JD119327 - Sequence 100351 from Patent EP1572962.
BC030699 - Homo sapiens SHC SH2-domain binding protein 1, mRNA (cDNA clone MGC:26900 IMAGE:4829528), complete cds.
AK025662 - Homo sapiens cDNA: FLJ22009 fis, clone HEP07114.
AK225315 - Homo sapiens mRNA for SHC SH2-domain binding protein 1 variant, clone: HEP07114.
BC000960 - Homo sapiens SHC SH2-domain binding protein 1, mRNA (cDNA clone IMAGE:3451160), partial cds.
AK055931 - Homo sapiens cDNA FLJ31369 fis, clone NB9N42000104, moderately similar to Mus musculus Shc binding protein (mPAL) mRNA.
JD113384 - Sequence 94408 from Patent EP1572962.
JD558980 - Sequence 540004 from Patent EP1572962.
JD092343 - Sequence 73367 from Patent EP1572962.
JD183980 - Sequence 165004 from Patent EP1572962.
JD268449 - Sequence 249473 from Patent EP1572962.
JD229236 - Sequence 210260 from Patent EP1572962.
JD281733 - Sequence 262757 from Patent EP1572962.
JD446831 - Sequence 427855 from Patent EP1572962.
JD445137 - Sequence 426161 from Patent EP1572962.
JD341190 - Sequence 322214 from Patent EP1572962.
JD065684 - Sequence 46708 from Patent EP1572962.
JD324497 - Sequence 305521 from Patent EP1572962.
JD454995 - Sequence 436019 from Patent EP1572962.
JD454994 - Sequence 436018 from Patent EP1572962.
JD356990 - Sequence 338014 from Patent EP1572962.
JD286858 - Sequence 267882 from Patent EP1572962.
JD286857 - Sequence 267881 from Patent EP1572962.
JD532298 - Sequence 513322 from Patent EP1572962.
JD430980 - Sequence 412004 from Patent EP1572962.
JD413505 - Sequence 394529 from Patent EP1572962.
JD198187 - Sequence 179211 from Patent EP1572962.
JD212804 - Sequence 193828 from Patent EP1572962.
JD542821 - Sequence 523845 from Patent EP1572962.
JD247109 - Sequence 228133 from Patent EP1572962.
JD542820 - Sequence 523844 from Patent EP1572962.
JD376048 - Sequence 357072 from Patent EP1572962.
JD497753 - Sequence 478777 from Patent EP1572962.
JD089526 - Sequence 70550 from Patent EP1572962.
JD222899 - Sequence 203923 from Patent EP1572962.
JD182060 - Sequence 163084 from Patent EP1572962.
JD184073 - Sequence 165097 from Patent EP1572962.
JD553927 - Sequence 534951 from Patent EP1572962.
JD429644 - Sequence 410668 from Patent EP1572962.
AK292164 - Homo sapiens cDNA FLJ78530 complete cds, highly similar to Homo sapiens SHC SH2-domain binding protein 1 (SHCBP1), mRNA.
JD359517 - Sequence 340541 from Patent EP1572962.
AK315706 - Homo sapiens cDNA, FLJ96805, highly similar to Homo sapiens SHC SH2-domain binding protein 1 (SHCBP1), mRNA.
EU176232 - Synthetic construct Homo sapiens clone IMAGE:100006356; FLH167799.01X; RZPDo839D07250D SHC SH2-domain binding protein 1 (SHCBP1) gene, encodes complete protein.
EU176536 - Synthetic construct Homo sapiens clone IMAGE:100011641; FLH263999.01L; RZPDo839D09245D SHC SH2-domain binding protein 1 (SHCBP1) gene, encodes complete protein.
EU176544 - Synthetic construct Homo sapiens clone IMAGE:100011653; FLH264080.01L; RZPDo839F05257D SHC SH2-domain binding protein 1 (SHCBP1) gene, encodes complete protein.
AK310430 - Homo sapiens cDNA, FLJ17472.
JD408656 - Sequence 389680 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000303383.1, ENST00000303383.2, ENST00000303383.3, ENST00000303383.4, ENST00000303383.5, ENST00000303383.6, ENST00000303383.7, NR_136738, Q8NEM2, Q96N60, Q9BVS0, Q9H6P6, SHCBP_HUMAN, uc317nfp.1, uc317nfp.2
UCSC ID: ENST00000303383.8_8
RefSeq Accession: NM_024745.5
Protein: Q8NEM2 (aka SHCBP_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.