HsaINT0082942 @ hg19
Intron Retention
Gene
ENSG00000139626 | ITGB7
Description
integrin, beta 7 [Source:HGNC Symbol;Acc:6162]
Coordinates
chr12:53585643-53586322:-
Coord C1 exon
chr12:53586114-53586322
Coord A exon
chr12:53585804-53586113
Coord C2 exon
chr12:53585643-53585803
Length
310 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GTCTGGTTTCTTGTTCACAGAGG
3' ss Score
7.92
Exon sequences
Seq C1 exon
GGACTGTGCAGAGTGTGGGGCCTTCAGGACTGGCCCACTGGCCACCAACTGCAGTACAGCTTGTGCCCATACCAATGTGACCCTGGCCTTGGCCCCTATCTTGGATGATGGCTGGTGCAAAGAGCGGACCCTGGACAACCAGCTGTTCTTCTTCTTGGTGGAGGATGACGCCAGAGGCACGGTCGTGCTCAGAGTGAGACCCCAAGAAA
Seq A exon
GTAAGTGGGCAGGGATGCCACAAACCCTGGAAGTTTGATGGGCAGGGTCTCAACTCTGGGGATGCAGAGTGAAGATAATGGGAAACAGGCTGGGGGCTGAAGCAGAACTGTGAATCCAGGACAAAGGCAGAGGCAATTGAGCAAGTGGACGAGGCTAAGGCCCTGGGCGGTGAGGATAACCTTGGACCTCCCTGGGTTCCCTTTGCTTTCAGTGACAGACAGGGTTGGACAGGCTGGACACACTGTGAGCAACTGATGATCTGTCCCTATGCTCCAGCTCCCACAAGTGTGTCTGGTTTCTTGTTCACAG
Seq C2 exon
AGGGAGCAGACCACACGCAGGCCATTGTGCTGGGCTGCGTAGGGGGCATCGTGGCAGTGGGGCTGGGGCTGGTCCTGGCTTACCGGCTCTCGGTGGAAATCTATGACCGCCGGGAATACAGTCGCTTTGAGAAGGAGCAGCAACAACTCAACTGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139626-ITGB7:NM_000889:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PU(88.1=98.1)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(8.5=9.3),PF0268716=FtsX=PU(90.7=90.7),PF087256=Integrin_b_cyt=PU(92.6=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGTGGGGCCTTCAGGA
R:
TTGCTGCTCCTTCTCAAAGCG
Band lengths:
342-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)