HsaINT0082876 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75737322-75737644:+
Coord C1 exon
chr17:75737322-75737444
Coord A exon
chr17:75737445-75737537
Coord C2 exon
chr17:75737538-75737644
Length
93 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CCCTGCCTCCTCCTCTCCAGACT
3' ss Score
8.92
Exon sequences
Seq C1 exon
CCGAGGAGGTGGTGGTGCGCTGCTCCTTCCGGGACGAGGATGACGACTGCACCTACAGCTACACCATGGAAGGTGACGGCGCCCCTGGGCCCAACAGCACTGTCCTGGTGCACAAGAAGAAGG
Seq A exon
GTGAGCTGGTGGGGCCGGGCGCAGGGAGGGGGCGTGTGGCCAGAGCTCGGTGGGGAGGACAGGCACCACCTCCCCCTGCCTCCTCCTCTCCAG
Seq C2 exon
ACTGCCCTCCGGGCTCCTTCTGGTGGCTCATCCCCCTGCTCCTCCTCCTCCTGCCGCTCCTGGCCCTGCTACTGCTGCTATGCTGGAAGTACTGTGCCTGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(47.7=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(7.0=16.7)
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:
ACTGCACCTACAGCTACACCA
R:
CAGCAGGCACAGTACTTCCAG
Band lengths:
181-274
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