HsaINT0082941 @ hg19
Intron Retention
Gene
ENSG00000139626 | ITGB7
Description
integrin, beta 7 [Source:HGNC Symbol;Acc:6162]
Coordinates
chr12:53586114-53586694:-
Coord C1 exon
chr12:53586475-53586694
Coord A exon
chr12:53586323-53586474
Coord C2 exon
chr12:53586114-53586322
Length
152 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
TATTGGCATCTACTACACAGGGA
3' ss Score
4.01
Exon sequences
Seq C1 exon
GCTTTGGTCGCTGCCAATGTGGAGTATGTCACTGTCATGCCAACCGCACGGGCAGAGCATGCGAATGCAGTGGGGACATGGACAGTTGCATCAGTCCCGAGGGAGGGCTCTGCAGTGGGCATGGACGCTGCAAATGCAACCGCTGCCAGTGCTTGGACGGCTACTATGGTGCTCTATGCGACCAATGCCCAGGCTGCAAGACACCATGCGAGAGACACCG
Seq A exon
GTGAGGCCTCAGGTCTTGCATCTTGGGAGCAGGGGCACAGTGGGGCTTGTTGAGCTACTCCCATCTGCCTACTCTCCGTCCTGCTTGTAGTTGGGCAAGGGGCATTGGGTGACAACTGCCCAGCTGGTAACCTATTGGCATCTACTACACAG
Seq C2 exon
GGACTGTGCAGAGTGTGGGGCCTTCAGGACTGGCCCACTGGCCACCAACTGCAGTACAGCTTGTGCCCATACCAATGTGACCCTGGCCTTGGCCCCTATCTTGGATGATGGCTGGTGCAAAGAGCGGACCCTGGACAACCAGCTGTTCTTCTTCTTGGTGGAGGATGACGCCAGAGGCACGGTCGTGCTCAGAGTGAGACCCCAAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139626-ITGB7:NM_000889:13
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=0.019
Domain overlap (PFAM):
C1:
PF079748=EGF_2=PD(64.5=27.0),PF079748=EGF_2=WD(100=51.4)
A:
NA
C2:
PF079657=Integrin_B_tail=PU(88.1=98.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTTGGACGGCTACTATGG
R:
GCGTCATCCTCCACCAAGAAG
Band lengths:
243-395
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)