HsaINT0082949 @ hg19
Intron Retention
Gene
ENSG00000139626 | ITGB7
Description
integrin, beta 7 [Source:HGNC Symbol;Acc:6162]
Coordinates
chr12:53589410-53589983:-
Coord C1 exon
chr12:53589825-53589983
Coord A exon
chr12:53589506-53589824
Coord C2 exon
chr12:53589410-53589505
Length
319 bp
Sequences
Splice sites
5' ss Seq
TTTGTGAGT
5' ss Score
5.91
3' ss Seq
GTCCCTGCTCCCTGTCCCAGGAC
3' ss Score
9.66
Exon sequences
Seq C1 exon
GAGCAGATTGGCTGGAGAAATGTGTCCCGGCTGCTGGTGTTCACTTCAGACGACACATTCCATACAGCTGGGGACGGGAAGTTGGGCGGCATTTTCATGCCCAGTGATGGGCACTGCCACTTGGACAGCAATGGCCTCTACAGTCGCAGCACAGAGTTT
Seq A exon
GTGAGTCCCTATTGTCACCCTGCCTCTCCCCATTTCAGCCACACCTCTTTCCTTCCAGGACTCCCACTCCCAGCCTTACAGTCCTCACCAGTAACCACCCTGTAGACACCCTGCCATCTTCTCCAGCAGTTCCTCCTTTCAGCTGCCGAGACAGGACACCTTTGTCACCCCATTCCCTACCTCCTTCCTATTCCATAGCAAGCCTCCAGGGCTCCTCCAGCTGGTGGAACCTTGGTTCCTGGATTCCCTGGGCTGAGGGCACCTTGCATGTTGTGGGGGAAACCTGTGGGGCTCACCTTGTCCCTGCTCCCTGTCCCAG
Seq C2 exon
GACTACCCTTCTGTGGGTCAGGTAGCCCAGGCCCTCTCTGCAGCAAATATCCAGCCCATCTTTGCTGTCACCAGTGCCGCACTGCCTGTCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139626-ITGB7:NM_000889:7
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:
PF0036213=Integrin_beta=FE(12.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGATTGGCTGGAGAAATGT
R:
CTGGTAGACAGGCAGTGCG
Band lengths:
254-573
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)