BtaINT0078190 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56492176-56492540:-
Coord C1 exon
chr19:56492442-56492540
Coord A exon
chr19:56492306-56492441
Coord C2 exon
chr19:56492176-56492305
Length
136 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCTCCTCTTTGCCCACCCAGATC
3' ss Score
9.38
Exon sequences
Seq C1 exon
GGTCTCTGTAATGGGCGTGGCCACTGCGAGTGCGGCCGCTGCCACTGCAACCAACAGTCGCTCTACACGGACACCGTCTGCGAGATCAACTACTCGGCG
Seq A exon
GTGAGGCCACACTCGCTGGGTGTGGGCACGGGGACCCATCGCCATGGGAGCTGCCCAGGCAGTGAGGTTGTGGGAGTGGGCCTGGCAGGGGCCACCCAGCACAGTACCCGTCTGCCCCTCCTCTTTGCCCACCCAG
Seq C2 exon
ATCCACCTGGGCCTCTGTGAGGACCTGCGCTCCTGCGTGCAGTGCCAGGCCTGGGGCACCGGTGAAAAGAAGGGGCGCACGTGCGAGGAGTGCAGCTTCAAGGTCAAGATGGTGGATGAGCTCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:15
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:
NO
A:
NA
C2:
PF079657=Integrin_B_tail=PU(44.2=86.4)
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:
GTCTCTGTAATGGGCGTGGC
R:
TTCTTGAGCTCATCCACCATCT
Band lengths:
226-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]