HsaINT0145211 @ hg19
Intron Retention
Gene
ENSG00000187550 | SBK2
Description
SH3-binding domain kinase family, member 2 [Source:HGNC Symbol;Acc:34416]
Coordinates
chr19:56041100-56042712:-
Coord C1 exon
chr19:56042510-56042712
Coord A exon
chr19:56041691-56042509
Coord C2 exon
chr19:56041100-56041690
Length
819 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
CCTGACCCCTCTCCCCGCAGGTG
3' ss Score
13.88
Exon sequences
Seq C1 exon
GCACACCCCTGGCACTGAAGCAGCTCCCGAAACCCCGCACGTCCCTCCGTGGCTTCCTGTACGAGTTCTGTGTGGGGCTCTCGCTGGGCGCGCACTCAGCCATCGTGACGGCCTACGGCATTGGCATCGAGTCGGCACACTCCTACAGCTTCCTGACGGAGCCCGTCCTGCACGGGGACCTCATGGCCTTCATCCAGCCCAAG
Seq A exon
GTGCGTAGGCAGACCCCAGGCCGCCTCCGAGTGCCTCACCGGCCTCCCAGGAACGTCCTGAGCAGCCTGGGCCGCAGGAGCCACAGCCACTGCGTTGGGCCTCCCTGGGCCTCCCCTACCCCCCGGAGGCCCCTCGTGGGGCCCACAGGACTCGTGGAGTTGTTAGGCCTCTTTGGAGTTCATAGACATCACAGAACTCACACGATACACCATGGAGACTCACCAGGCAGCCCCAGGTCACACTGGACCCCAATCAAGTCACAGGCCCTACAGGGTCACCCGAGGCCCCGCTTAACCTACAGGTCCTACAGGGTCACCCCAGACCCCACTAAACCCACAGGCCTCACAGGTCACACTAGGCCACACTAAACCCACAGGCCTCACGGGTCACACTAAGCCACACTAAACCCACAGGCCTCACAGGTCACACTAGGCCCCACTAAACCCACAGGCCTCACAGGTCACACTAGGCCTCACGGGGTCACCCTAGGCCACACTAAACCCACAGGCCTCACGGGTCACACTAGGCCACACTAAACCCACAGGCCTCACGGGTCACACTAAGCCACACTAAACCCACAGGCCTCACAGGTCACACTAGGCCCCACTAAACCCACAGGCCTCACAGGTCACACTAGGCCTCACGGGGTCACCCTAGGCCACACTAAACCCGCAGGCCTCACAGGTCACACTAGGCCTCACAGGGCCAACTATTCACCGTCTTCCTTACCGGCCTCCTTGGCGTCCTGGGCCTGCTTCCTGGGTCTCGGTTGCCTTCCGTGGCCCCGGGGCACTGGGCCCTGACCCCTCTCCCCGCAG
Seq C2 exon
GTGGGCCTCCCGCAGCCCGCGGTGCACCGCTGCGCCGCCCAGCTGGCCTCCGCCCTGGAGTACATCCACGCCCGCGGCCTGGTGTACCGGGACCTGAAGCCGGAGAACGTCCTGGTGTGCGACCCGGCCTGCCGGCGCTTCAAGCTGACCGACTTCGGCCACACGAGGCCTCGCGGGACGCTGCTGCGCCTGGCCGGGCCGCCCATCCCCTACACGGCCCCCGAGCTCTGCGCGCCCCCGCCGCTCCCCGAGGGCCTGCCCATTCAGCCCGCCCTGGACGCCTGGGCGCTGGGCGTCCTGCTCTTCTGCCTCCTCACGGGCTACTTCCCCTGGGACCGGCCCCTGGCCGAGGCCGACCCCTTCTACGAGGACTTCCTCATCTGGCAGGCGTCGGGCCAGCCCCGGGACCGCCCTCAGCCCTGGTTCGGCCTGGCCGCCGCGGCCGACGCGCTTCTGCGGGGGCTGCTGGACCCTCACCCCCGAAGGAGGAGCGCTGTGATCGCCATCAGGGAGCACCTGGGGCGCCCCTGGAGGCAGCGGGAGGGCGAGGCGGAGGCAGTGGGAGCGGTGGAAGAGGAGGCTGGGCAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187550-SBK2:NM_001101401:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(25.0=100)
A:
NA
C2:
PF0006920=Pkinase=PD(65.7=89.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCATGGCCTTCATCCAG
R:
GAGGAGGCAGAAGAGCAGGA
Band lengths:
342-1161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)