BtaINT0078213 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56473344-56473777:-
Coord C1 exon
chr19:56473589-56473777
Coord A exon
chr19:56473500-56473588
Coord C2 exon
chr19:56473344-56473499
Length
89 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ACTTCCTCTGCTGCCCCCAGGCT
3' ss Score
9.52
Exon sequences
Seq C1 exon
GTGAGCTGTATCGCCTCAACATCCCCAACCCCAGCCAGACCTCGGTGGTGGTGGAGGACCTCCTGCCCAACCACTCCTACGTGTTCCGTGTGCGGGCCCAGAGCCAGGAGGGCTGGGGCCCGGAGCGTGAGGGTGTCATCACCATTGAGTCACAGGTGCACCCGCAGAGCCCGCTCTGCCCCCTGCCGG
Seq A exon
GTGAGTTGCCACCCCCACCCCCACAGGTGCCCCCACCTGGCCCTCAGATACCCACCTGTCCCCTGACAAACTTCCTCTGCTGCCCCCAG
Seq C2 exon
GCTCCGCCTTCACTTTGAGCACACCCAGCGCCCCGGGCCCGCTGGTGTTCACTGCCCTGAGCCCCGACTCGCTGCAGCTGAGCTGGGAGCGGCCCCGCAGGCCAGATGGCGACATTCTGGGCTACCTGGTGACGTGTGAGATGGCCCACGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.195 A=NA C2=0.189
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=65.6)
A:
NA
C2:
PF0004116=fn3=PU(49.4=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATTGAGTCACAGGTGCAC
R:
GTAGCCCAGAATGTCGCCATC
Band lengths:
174-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]