HsaINT0082874 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75736288-75736694:+
Coord C1 exon
chr17:75736288-75736386
Coord A exon
chr17:75736387-75736564
Coord C2 exon
chr17:75736565-75736694
Length
178 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCCCGCCTTTCCCCGCCAAGATC
3' ss Score
5.61
Exon sequences
Seq C1 exon
GGCATCTGTAATGGACGTGGCCACTGTGAGTGTGGCCGCTGCCACTGCCACCAGCAGTCGCTCTACACGGACACCATCTGCGAGATCAACTACTCGGCG
Seq A exon
GTGAGGCTAAGACCTACGAGGTGTGGGCGTGGGAACAGGGCAGGCACAGGGCAGTGTGGGCAGGAGGGGCTAAGCCTGATGCCACAGGAGCTGGCCAAGGGCAAGAGGTTTGGGGAGCGGGGGTCTGGCAGAGGCCCACCCAACACAGTGCCTGTCTGCCCCGCCTTTCCCCGCCAAG
Seq C2 exon
ATCCACCCGGGCCTCTGCGAGGACCTACGCTCCTGCGTGCAGTGCCAGGCGTGGGGCACCGGCGAGAAGAAGGGGCGCACGTGTGAGGAATGCAACTTCAAGGTCAAGATGGTGGACGAGCTTAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:15
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:
NO
A:
NA
C2:
PF079657=Integrin_B_tail=PU(44.2=86.4)
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:
ATCTGTAATGGACGTGGCCAC
R:
CTCTCTTAAGCTCGTCCACCA
Band lengths:
226-404
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