BtaINT0078211 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56474309-56475492:-
Coord C1 exon
chr19:56475254-56475492
Coord A exon
chr19:56474459-56475253
Coord C2 exon
chr19:56474309-56474458
Length
795 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GCGGCGCCCCCTGTCTGCAGGCT
3' ss Score
8.63
Exon sequences
Seq C1 exon
AGAGCACCTGGTGAACGGGCGGATGGACTTTGCCTTCCCGGGCAGCGCCAACTCCCTGCACAGGATGACCGTGAGCACCGCGGCCCACGGCGCCCACCTGAGCCCGCAGTTGTCCCACCGCGTGCTGAGCACCTCGTCCACCCTCACGCGGGACTACCACTCGCTGACCCGCACGGAGCACTCGCACTCCGCCACGCTGCCCAGGGACTACTCCACTCTCACCTCCCTTTCCTCCCAAA
Seq A exon
GTGAGTGCCGCCTCCTCCCCGGCCCTCCGGCCAATCGTTCCTCTCTTCCAGCTCCTGGAGGCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTGGAGGCGGGGCGGGGGATGCTGCCCTCCGCCCAACACGCACACCCGCCCCGCCCCAGCTCACTTGTGTTTAGTCATGCCCTAGGCCTCCCTCCCATCTGGGAACACGGGAGGAGCAGGCTTCCGCTGTCCTGGGCCCTAGGGTCCCGGAGTCGGGCTCAGATGAAGGGAGCCCCCCGCTCCGGGGACTTGAGAGACTCTATAATCCTGGCTGGGCAGCCAGCAGCGCCCTCTTGGGGCCCAGGTAGTACAGAGGTGGCAGTCCTGCGTCTCCATGGCCGTCCCGCTCCATGTCACCATCCACCCACCATCAGCACTGCCCGCGCCTTCGCACCCTCCATTCCATCCACATCCACGCTGGTGCCTAAAGCGGCCTGTCCTCCCGGGGTGCTGGGCTGGGGCCAGCTGAGGAGGGTGGGGGGCCGGGTACTCAAGCGGACCCCGCACTCACCCTGAGTGCGGTGGGGAGGCGCCGGGCGGCCTAGAGAGGGTGCTGCAGGGCCGAGTGGGCTGCCCGACCAGCAGTCAGGGAGGTGCAGCTGAGAACCAGGGACTACTGCCCAGATAACCCCGCCGCGGGCTGACTGCGGCGCCCCCTGTCTGCAG
Seq C2 exon
GCTCCCGCTTGGCTGCGGGTGTGCCCAACACACCCACCCGCCTGGTGTTCTCCGCCCTTGGACCCACGTCTCTGAAAGTGAGCTGGCAGGAGCCGCAGTGTGAGCGTGCGCTGCAGGGCTACAGTGTGGAGTACCAGCTGCTGAACGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.790 A=NA C2=0.137
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=PU(48.8=80.4)
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:
GATGGACTTTGCCTTCCCGG
R:
GGTACTCCACACTGTAGCCCT
Band lengths:
353-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]