Human Gene SH3BP5L (uc010pzp.1)
  Description: Homo sapiens SH3-binding domain protein 5-like (SH3BP5L), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:249,104,651-249,109,099 Size: 4,449 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr1:249,106,099-249,108,863 Size: 2,765 Coding Exon Count: 3 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:249,104,651-249,109,099)mRNA (may differ from genome)Protein (286 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIPubMed
UniProtKBBioGrid CRISPR DB

-  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           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: 13.73 RPKM in Brain - Cerebellum
Total median expression: 358.26 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 -52.91236-0.224 Picture PostScript Text
3' UTR -597.321448-0.413 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
IPR007940 - SH3-bd_5

Pfam Domains:
PF05276 - SH3 domain-binding protein 5 (SH3BP5)

ModBase Predicted Comparative 3D Structure on B4DSF1
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0035556 intracellular signal transduction

Cellular Component:
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  LF209078 - JP 2014500723-A/16581: Polycomb-Associated Non-Coding RNAs.
BC011962 - Homo sapiens SH3-binding domain protein 5-like, mRNA (cDNA clone IMAGE:3863062), partial cds.
BC010871 - Homo sapiens SH3-binding domain protein 5-like, mRNA (cDNA clone IMAGE:3878600), partial cds.
AL136569 - Homo sapiens mRNA; cDNA DKFZp761F0123 (from clone DKFZp761F0123).
AB051507 - Homo sapiens KIAA1720 mRNA for KIAA1720 protein.
AK091164 - Homo sapiens cDNA FLJ33845 fis, clone CTONG2005278, weakly similar to Homo sapiens mRNA for SH3 binding protein.
AX746821 - Sequence 346 from Patent EP1308459.
BC017254 - Homo sapiens SH3-binding domain protein 5-like, mRNA (cDNA clone MGC:29679 IMAGE:3051344), complete cds.
AK056345 - Homo sapiens cDNA FLJ31783 fis, clone NT2RI2008396, weakly similar to Homo sapiens mRNA for SH3 binding protein.
AK125837 - Homo sapiens cDNA FLJ43849 fis, clone TESTI4006420.
AY358453 - Homo sapiens clone DNA128451 AELR2766 (UNQ2766) mRNA, complete cds.
AK056382 - Homo sapiens cDNA FLJ31820 fis, clone NT2RP6000035, weakly similar to Homo sapiens mRNA for SH3 binding protein.
AK125138 - Homo sapiens cDNA FLJ43148 fis, clone CTONG3008894, weakly similar to Mus musculus SH3-domain binding protein 5 (BTK-associated) (Sh3bp5).
LF325934 - JP 2014500723-A/133437: Polycomb-Associated Non-Coding RNAs.
JD491769 - Sequence 472793 from Patent EP1572962.
LF325933 - JP 2014500723-A/133436: Polycomb-Associated Non-Coding RNAs.
JD375288 - Sequence 356312 from Patent EP1572962.
JD061788 - Sequence 42812 from Patent EP1572962.
JD149561 - Sequence 130585 from Patent EP1572962.
JD404767 - Sequence 385791 from Patent EP1572962.
JD559282 - Sequence 540306 from Patent EP1572962.
JD429521 - Sequence 410545 from Patent EP1572962.
JD530478 - Sequence 511502 from Patent EP1572962.
JD426017 - Sequence 407041 from Patent EP1572962.
JD215848 - Sequence 196872 from Patent EP1572962.
JD072564 - Sequence 53588 from Patent EP1572962.
JD076737 - Sequence 57761 from Patent EP1572962.
JD137519 - Sequence 118543 from Patent EP1572962.
JD116428 - Sequence 97452 from Patent EP1572962.
JD427791 - Sequence 408815 from Patent EP1572962.
JD127296 - Sequence 108320 from Patent EP1572962.
JD404010 - Sequence 385034 from Patent EP1572962.
JD211022 - Sequence 192046 from Patent EP1572962.
JD391989 - Sequence 373013 from Patent EP1572962.
AK299713 - Homo sapiens cDNA FLJ55245 complete cds, highly similar to Homo sapiens SH3-binding domain protein 5-like (SH3BP5L), mRNA.
JD393997 - Sequence 375021 from Patent EP1572962.
AK298698 - Homo sapiens cDNA FLJ56359 complete cds, highly similar to Homo sapiens SH3-binding domain protein 5-like (SH3BP5L), mRNA.
JD549879 - Sequence 530903 from Patent EP1572962.
LF325932 - JP 2014500723-A/133435: Polycomb-Associated Non-Coding RNAs.
JD065783 - Sequence 46807 from Patent EP1572962.
JD494456 - Sequence 475480 from Patent EP1572962.
AB384272 - Synthetic construct DNA, clone: pF1KSDA1720, Homo sapiens SH3BP5L gene for SH3-binding domain protein 5-like, complete cds, without stop codon, in Flexi system.
KJ894832 - Synthetic construct Homo sapiens clone ccsbBroadEn_04226 SH3BP5L gene, encodes complete protein.
KJ905557 - Synthetic construct Homo sapiens clone ccsbBroadEn_15173 SH3BP5L gene, encodes complete protein.
LF325931 - JP 2014500723-A/133434: Polycomb-Associated Non-Coding RNAs.
LF325930 - JP 2014500723-A/133433: Polycomb-Associated Non-Coding RNAs.
MA561511 - JP 2018138019-A/133437: Polycomb-Associated Non-Coding RNAs.
MA561510 - JP 2018138019-A/133436: Polycomb-Associated Non-Coding RNAs.
MA561509 - JP 2018138019-A/133435: Polycomb-Associated Non-Coding RNAs.
MA561508 - JP 2018138019-A/133434: Polycomb-Associated Non-Coding RNAs.
MA561507 - JP 2018138019-A/133433: Polycomb-Associated Non-Coding RNAs.
MA444655 - JP 2018138019-A/16581: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AK299713, B4DSF1, B4DSF1_HUMAN, NM_030645, NP_085148
UCSC ID: uc010pzp.1
RefSeq Accession: NM_030645
Protein: B4DSF1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK299713.1
exon count: 3CDS single in 3' UTR: no RNA size: 1329
ORF size: 861CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1808.00frame shift in genome: no % Coverage: 99.92
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 290# 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.