BtaINT0078203 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56480924-56481602:-
Coord C1 exon
chr19:56481445-56481602
Coord A exon
chr19:56481105-56481444
Coord C2 exon
chr19:56480924-56481104
Length
340 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CAGCCCCACCCTGGGCACAGGTG
3' ss Score
4.52
Exon sequences
Seq C1 exon
ACGAGCTGGACCGGAATGTAATGAACCAGACCGTGTCATCACCACCACCGCCCCGGGGTGACCTGGGTGCCCCACAGAACCCCAATGCCAAGGCTGCTGGGTCCCGGAAGATCCACTTCAACTGGCTGCCTCCTCCTGGCAAGCCGACAGGGTACCGG
Seq A exon
GTAAGGTGGGGGGCGACGAAAGGGGTGGATGGGAGGCCGGGCATATGCTGCAGAGGTGGGCCTGCTGAGGCCAGAGAGGGCCCCAGGGAGAGGAGAGGACGTGCTTGGCCTCAGTGGGTGGGGAACCCCCATCGGCCCCTGGGGGAGGAAGAAGTCCCTGGAATGTGGCCCCCAGAACCCAGAAACACCTGTGCCCTATGCCAGCCCTGCTGCGTGCGCCTGGCAGGGCACTCAATCCCTCCACGTCTGTGTGCCCACGGGACTGTAAGGGCAGGGCTCAGCGGAGGGACGGTGGGCTCTGCCAGCTGCTCCCCGCTGACCAGCCCCACCCTGGGCACAG
Seq C2 exon
GTGAAATATTGGATCCAGGGTGACTCCGAGTCTGAAGCCCACCTGCTTGACAGCAAGGTGCCCTCAGTGGAGCTCACCAACCTGTACCCATATTGTGACTACGAGATGAAGGTGTGCGCCTATGGGGCGCAGGGCGAGGGCCCCTACAGCTCCCCGGTGTCCTGTCGCACCCACCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.698 A=NA C2=0.295
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(37.0=56.6)
A:
NA
C2:
PF0004116=fn3=PD(60.5=80.3)
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:
ACGAGCTGGACCGGAATGTAA
R:
TTCCTGGTGGGTGCGACA
Band lengths:
338-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]