HsaINT0082890 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75750974-75752356:+
Coord C1 exon
chr17:75750974-75751111
Coord A exon
chr17:75751112-75752173
Coord C2 exon
chr17:75752174-75752356
Length
1062 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGA
5' ss Score
6.66
3' ss Seq
AAGCACTCTCTCTGCCCCAGGAC
3' ss Score
6.92
Exon sequences
Seq C1 exon
TGCCCAGCGAGCCAGGGCGTCTGGCCTTCAATGTCGTCTCCTCCACGGTGACCCAGCTGAGCTGGGCTGAGCCGGCTGAGACCAACGGTGAGATCACAGCCTACGAGGTCTGCTATGGCCTGGTCAACGATGACAACC
Seq A exon
GTAAGAACCAGATCCTTCTTTCCTGCCCACAGGGAGAACAGCCATGGAAGGGGAGGGGACAAAGCTGGAGGGAGCTCTTGGTCACTCCCTGGACCTGCTGTGCAGGGCACTCGAGGCCTTCATCCTGGTCAGCGGATAAGCCTGAGGCATCTTTAGGGTTTTGGCCAGATTTGGGCTGGGTTGCATTCTAAGACCAAACCCAGAAGGTTGCAGGGTGGGTGGTTACCTATGTGGAGTGAGGTCACAGGCCCAGGGGTACCCCTCCCCATGCAGGTAACCAGGGAGCTCACACGTGCATGGTTTTCTTAGGGTGAGAGGAAAGTTACCGGATTTAGCAAACAGAAATACAGGAGGTTCTGAATTTCAGATAGCACTTTAAAAGATTATTTTGTACATTGAGAGGCCGAGGCAGGTGGACTGCTTGAGGTCAGGAGTTCAAGACCAGCCTGGCTAACATGGTGAAACCGTTTCTACTAAAAATTAGACAGGCATGGTGGCTCATGCCTGTAGTCCCAGCTAGTCAGGAGGCTGAGGCAGGAGAATCACTTGAACCCAGAAGGCGCAGGTTGCAGTGAACCGAGATCGTGTTACCGCACTCCAGACAGGGTGACAGAGCCAGACTCCGTCTAAAAATAAATAAATAAAAAGGATTATTTTATACATTATTTTATCTAGCAGCCCGAGATCAGAGGTGCCTAGCAGAACAGTTATTTCTCCAGTCCTGGAAGGGAGGCAGGGTGGGCAACCCCTATGCGTGCCCTTGCCTTGTGTGGAGGCACCGTGGATATATGGGTAGAGGTGACATCGAGGCCAACTTGAGTCCAGCCCTGGCTCTGCCACTTACTCAGCAGAGTCCCTTGGAGGACTGGTGACATATGTCCACGCCAGTCATGCTGACGCTCAGGGCTCCGCAGGCGGCAATTCAGCAGTGGCTGGCTTTGCCTTGCTTCCCCAGCCCCTGGGTGCCATCCAGGGGATGCACGGCCGTCCTGCTGTGTCAGGGGTGGTGTTGGGACCAGGCTGGGACCTGGGTGACCCTCTGAAGCACTCTCTCTGCCCCAG
Seq C2 exon
GACCTATTGGGCCCATGAAGAAAGTGCTGGTTGACAACCCTAAGAACCGGATGCTGCTTATTGAGAACCTTCGGGAGTCCCAGCCCTACCGCTACACGGTGAAGGCGCGCAACGGGGCCGGCTGGGGGCCTGAGCGGGAGGCCATCATCAACCTGGCCACCCAGCCCAAGAGGCCCATGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.268
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.9=93.6)
A:
NA
C2:
PF0004116=fn3=PD(50.0=72.6)
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:
CGTCTGGCCTTCAATGTCGTC
R:
TGGACATGGGCCTCTTGGG
Band lengths:
304-1366
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