HsaINT0082870 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75731812-75732239:+
Coord C1 exon
chr17:75731812-75731973
Coord A exon
chr17:75731974-75732162
Coord C2 exon
chr17:75732163-75732239
Length
189 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAA
5' ss Score
2.41
3' ss Seq
CATGGTCTCTCTCATTCCAGCAA
3' ss Score
9.16
Exon sequences
Seq C1 exon
GGTATATACCAGGTGCAGCTGCGGGCCCTTGAGCACGTGGATGGGACGCACGTGTGCCAGCTGCCGGAGGACCAGAAGGGCAACATCCATCTGAAACCTTCCTTCTCCGACGGCCTCAAGATGGACGCGGGCATCATCTGTGATGTGTGCACCTGCGAGCTG
Seq A exon
GTACAACGCAGCCCCGCAGGGCGGGAGGGGAGAGCTGAGCCAAGCACCCAGGGACCCTGAGGAATGAAGCAGGACTCCTGTGCCCCATATCCCTTGTGGGGTTTCCCGAGGCACACAGGAGAGCGGAAGTGTCCAGTGGCCCCGGTCCTGCTCCCCCGACGCACCCCACCATGGTCTCTCTCATTCCAG
Seq C2 exon
CAAAAAGAGGTGCGGTCAGCTCGCTGCAGCTTCAACGGAGACTTCGTGTGCGGACAGTGTGTGTGCAGCGAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:11
Average complexity
IR
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=PD(11.7=90.7)
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:
GGTATATACCAGGTGCAGCTGC
R:
CTCGCTGCACACACACTGTC
Band lengths:
234-423
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