BtaINT0078186 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56497006-56497396:-
Coord C1 exon
chr19:56497232-56497396
Coord A exon
chr19:56497083-56497231
Coord C2 exon
chr19:56497006-56497082
Length
149 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGA
5' ss Score
6.69
3' ss Seq
CCACCATGATTTCATTCCAGCAA
3' ss Score
5.41
Exon sequences
Seq C1 exon
GGCACATACCAAGTGCAGCTCCGGGCCATCGAGGACCTGGACGGGGCTCATGTGTGTCAGCTTCTGGAGGCAGACCAGAAGGGCACCATCCATCTGAAGCCATCCTTCTCCAACGGCCTCCGGATGGACGTGGGCGTCATCTGTGACGTGTGCTCCTGTGAGCTG
Seq A exon
GTATGACACAGCCCCGCCAAGGGTGTGCGGGCAGGGAGAGGCTGAGCTGACCGCCCGAGGACCCGAGTAACAAAGCAGAGCTCCCTTTTGGGTGTGGCGGCAAGCATCTCCCCCTCTGCCCCACCCACCCCACCATGATTTCATTCCAG
Seq C2 exon
CAAAAAGAGGAGCGGTCATCTCGCTGCAACTTCCACGGGGACTTCATGTGCGGACACTGTGTGTGCCACGAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:11
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:
PF0036213=Integrin_beta=PD(11.9=90.9)
A:
NA
C2:
PF079748=EGF_2=PU(78.6=84.6)
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:
CACATACCAAGTGCAGCTCCG
R:
ACACACAGTGTCCGCACATG
Band lengths:
227-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]