HsaINT0082899 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75756943-75757310:+
Coord C1 exon
chr17:75756943-75757107
Coord A exon
chr17:75757108-75757199
Coord C2 exon
chr17:75757200-75757310
Length
92 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
GGCCTATCTGCCCACCCCAGGAC
3' ss Score
6.16
Exon sequences
Seq C1 exon
GGCCAGCCACCGCATTCCGGGTGGATGGAGACAGCCCCGAGAGCCGGCTGACCGTGCCGGGCCTCAGCGAGAACGTGCCCTACAAGTTCAAGGTGCAGGCCAGGACCACTGAGGGCTTCGGGCCAGAGCGCGAGGGCATCATCACCATAGAGTCCCAGGATGGAG
Seq A exon
GTAGGCACCTGTCCTTTCCTTCACCCCCACCCCTCCTCGGGCCGTGCCTCCTTCTGGCACCACCCTCTGACTGGCCTATCTGCCCACCCCAG
Seq C2 exon
GACCCTTCCCGCAGCTGGGCAGCCGTGCCGGGCTCTTCCAGCACCCGCTGCAAAGCGAGTACAGCAGCATCACCACCACCCACACCAGCGCCACCGAGCCCTTCCTAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.761 A=NA C2=0.457
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(49.4=76.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCTACAAGTTCAAGGTGC
R:
GGTGGTGATGCTGCTGTACTC
Band lengths:
167-259
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