HsaINT0082874 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73732369-73732775:+
Coord C1 exon
chr17:73732369-73732467
Coord A exon
chr17:73732468-73732645
Coord C2 exon
chr17:73732646-73732775
Length
178 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCCCGCCTTTCCCCGCCAAGATC
3' ss Score
5.61
Exon sequences
Seq C1 exon
GGCATCTGTAATGGACGTGGCCACTGTGAGTGTGGCCGCTGCCACTGCCACCAGCAGTCGCTCTACACGGACACCATCTGCGAGATCAACTACTCGGCG
Seq A exon
GTGAGGCTAAGACCTACGAGGTGTGGGCGTGGGAACAGGGCAGGCACAGGGCAGTGTGGGCAGGAGGGGCTAAGCCTGATGCCACAGGAGCTGGCCAAGGGCAAGAGGTTTGGGGAGCGGGGGTCTGGCAGAGGCCCACCCAACACAGTGCCTGTCTGCCCCGCCTTTCCCCGCCAAG
Seq C2 exon
ATCCACCCGGGCCTCTGCGAGGACCTACGCTCCTGCGTGCAGTGCCAGGCGTGGGGCACCGGCGAGAAGAAGGGGCGCACGTGTGAGGAATGCAACTTCAAGGTCAAGATGGTGGACGAGCTTAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=PD(78.8=78.8)
A:
NA
C2:
PF079657=Integrin_B_tail=PU(44.2=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGTAATGGACGTGGCCAC
R:
CTCTCTTAAGCTCGTCCACCA
Band lengths:
226-404
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)