HsaINT0082892 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75752174-75752577:+
Coord C1 exon
chr17:75752174-75752356
Coord A exon
chr17:75752357-75752445
Coord C2 exon
chr17:75752446-75752577
Length
89 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CTCACTCCCCTGCCCTGCAGTCC
3' ss Score
8.74
Exon sequences
Seq C1 exon
GACCTATTGGGCCCATGAAGAAAGTGCTGGTTGACAACCCTAAGAACCGGATGCTGCTTATTGAGAACCTTCGGGAGTCCCAGCCCTACCGCTACACGGTGAAGGCGCGCAACGGGGCCGGCTGGGGGCCTGAGCGGGAGGCCATCATCAACCTGGCCACCCAGCCCAAGAGGCCCATGTCCA
Seq A exon
GTGAGTGGTGGGCAGGGAGGTGAGGGGCAGACCGGGCAGGGGGGCAGGGGGCAGCAGCCAGGGCCCTGGCTCACTCCCCTGCCCTGCAG
Seq C2 exon
TCCCCATCATCCCTGACATCCCTATCGTGGACGCCCAGAGCGGGGAGGACTACGACAGCTTCCTTATGTACAGCGATGACGTTCTACGCTCTCCATCGGGCAGCCAGAGGCCCAGCGTCTCCGATGACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.268 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=72.6)
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:
CCTAAGAACCGGATGCTGCTT
R:
AGGGATGTCAGGGATGATGGG
Band lengths:
168-257
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