HsaINT0082894 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73750657-73751294:+
Coord C1 exon
chr17:73750657-73750896
Coord A exon
chr17:73750897-73751135
Coord C2 exon
chr17:73751136-73751294
Length
239 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CTTGTTTTGTCCTGCCCTAGGCC
3' ss Score
9.97
Exon sequences
Seq C1 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTTCCCGGGCAGCACCAACTCCCTGCACAGGATGACCACGACCAGTGCTGCTGCCTATGGCACCCACCTGAGCCCACACGTGCCCCACCGCGTGCTAAGCACATCCTCCACCCTCACACGGGACTACAACTCACTGACCCGCTCAGAACACTCACACTCGACCACACTGCCCAGGGACTACTCCACCCTCACCTCCGTCTCCTCCCACG
Seq A exon
GTGAGTGACCTCAGCCAACCCTGCCTCTCCCACTAACCCTTCCTCTCTTCCAGCTCCTGGAGCCTCGGGCTTCTGTCTGCTGTCCCCACCGCCCATTCTCCAACATACACACACGCATGCACACATGCACGCACACACGTGCACACGCATGCACACATGTACACAGACATGCATGCGCACACGTACACACATGCATGCACACTCCCTGCTCCTCTCACTCTTGTTTTGTCCTGCCCTAG
Seq C2 exon
GCCTCCCTCCCATCTGGGAACACGGGAGGAGCAGGCTTCCGCTGTCCTGGGCCCTGGGGTCCCGGAGTCGGGCTCAGATGAAAGGGTTCCCCCCTTCCAGGGGCCCACGAGACTCTATAATCCTGGCTGGGAGGCCAGCAGCGCCCTCCTGGGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:32
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.872 A=NA C2=0.463
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGCACAGGATGACCACGAC
R:
TTATAGAGTCTCGTGGGCCCC
Band lengths:
307-546
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)