HsaINT0082903 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75729265-75730504:+
Coord C1 exon
chr17:75729265-75729436
Coord A exon
chr17:75729437-75730240
Coord C2 exon
chr17:75730241-75730504
Length
804 bp
Sequences
Splice sites
5' ss Seq
ACGGTGGGC
5' ss Score
6.83
3' ss Seq
CCCCGCCTTGCCTTCCCCAGAGG
3' ss Score
9.86
Exon sequences
Seq C1 exon
GCTGAAGGAGCCCTGGCCCAACAGTGACCCCCCCTTCTCCTTCAAGAACGTCATCAGCCTGACAGAAGATGTGGATGAGTTCCGGAATAAACTGCAGGGAGAGCGGATCTCAGGCAACCTGGATGCTCCTGAGGGCGGCTTCGATGCCATCCTGCAGACAGCTGTGTGCACG
Seq A exon
GTGGGCACTGGGAAGGGTGCTGCCAGCCTAGGCCAGGGGTGAGCACTTCTGGGCAAGGGCCTGAGCTGCCCCCTGGCCTGCTCTGGTGCCAGGCTCACAGGCCCTGAGGGAAAGCCTGGGAGCCTGCAACCCCTTCACCCTGAGACAAGCTCAGACTCTGTGAGTAGGTCTCAGTTACAATCTGAGTTCAGATGTGCCTGGAGCCACGGTCCCCTGGCCTGAGCAGTCACAGCCTGGTTTCGTATCAGCTACCAAGGCAGACCTGGGCTTTAGCGTTCTGGAATCTTTAGTACCCTGAACCCACCAGCTGCCCAGACTCCACCTGTTCTGGGCATCCAAATAAGCCATTTCCTTTGATATGTACATCCATTTGTTCATTCTGAAAATGACATACCCATATTACTAGGTTAGAAAACAAAGAGCTAGCCAAGGCGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGGGGATTGCTTGAATTCAGGATTTGAGACCAGCCTGGGAAACATGGCAAGACCCTGTCTCTACAGAAAACACAAAAATTAGCTGGGTGTGATGCACGCCTGTGGCCCCAGCGCCTTGCGGGGGCCGCATCTCCAGCTCCTGTTTCTCAGCGTTGTCACTCAGTCATGTGCCGTCAGATGCATCTTTCATGAGGGCACTTGCTGTGAATCCAGTGGCTTAAGCCCAGCCCCATGTTGGGACCCGCGTTCCCCGTCCTACACGACGCCGTGATGCGTGTCAGCAGGCAGCCTGCTCAGTGGGCACGCCCCGCCTTGCCTTCCCCAG
Seq C2 exon
AGGGACATTGGCTGGCGCCCGGACAGCACCCACCTGCTGGTCTTCTCCACCGAGTCAGCCTTCCACTATGAGGCTGATGGCGCCAACGTGCTGGCTGGCATCATGAGCCGCAACGATGAACGGTGCCACCTGGACACCACGGGCACCTACACCCAGTACAGGACACAGGACTACCCGTCGGTGCCCACCCTGGTGCGCCTGCTCGCCAAGCACAACATCATCCCCATCTTTGCTGTCACCAACTACTCCTATAGCTACTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.8=100)
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:
GAACGTCATCAGCCTGACAGA
R:
TGGGGATGATGTTGTGCTTGG
Band lengths:
353-1157
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