BtaINT0078208 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56475914-56477879:-
Coord C1 exon
chr19:56477748-56477879
Coord A exon
chr19:56476099-56477747
Coord C2 exon
chr19:56475914-56476098
Length
1649 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GGCCCTTCGTTGTTCCTAAGGCT
3' ss Score
5.17
Exon sequences
Seq C1 exon
TCCCCATCATCCCTGACATCCCCATCGTGGACGCCCAGAGTGGGGAGGACTATGAGAGCTTCCTCATGTACAGCGATGATGTGCTCCGCTCTCCAGCCGGCAGCCAGAGGCCCAGCGTCTCTGATGACACCG
Seq A exon
GTGAGTGGTCTGGGGATCCCGGCGAGGATGGTGGGGATCCTGGGTAGAGGGTGGGGCTGTCGCTGGTGTCCAGAGACAGCAAAGGGGCCAGGACCACTGGGCATGAAGATCAAGACTGAAAGTCCCCTCTCTGCAAAATCAACGATTTGACAGGCACCATTCTGGCTCTGGGTACAGAGGGGACAAAGTGGACGTGGCTCATAGGCTGGTGTGCACGTCTCTGTGTGAGGACAGACAGACAGACATGGGCTTGGGGCACATGCACACGGGCTCGTGCGCATGAGACTGGAAACAGTTGTGAGTGTGGAAGGCTCACCAGCTCACCAGCTGTGCCATGGAGTCAGGACACCCAAGACACCTCCCAGGGACAGGGCTACAGGCGAGGAGGCAAGCCTGGTCCAGGAGCCCCAGAACAGCCACTGGCTTGGGGGCCCCCAGTGCAGTGCTCCTTGCACTGGCCCTGCTCCACTTCCCTCTTGGATTCCTGTACATTGTGATGCAAAGAGCCCTCGACTGGGACTCCTGGGGTCTGTTTTAGCTCTGGCTTCACTGCAGGATGGCTTCCCTTGTAGCTCAGTTGGTAAAGAGTCTGCCTGCAATGCTGGAGACCTGGGTTCAATTCCTGGGTTGGAAAGATCCCCTGGAGAAGGAAATGGCAATCCACTTCAGTATTCTGGCCTGGAGAATCCCATGGACAGAGGAGCCTGGGAGGCTACAGTCCATGGGGTCCATGGGGCAAGAGTCGGACAGGACTTAGTGACTAAGCCACCACTGTGGGAATTCAGATGAATCACGTACATTCTCTGCCTCGGTTTTCTGATCTGTGAAATGGGATACCAGTCATACTAGGCTGAGTGAAAATCCACCAGGATTTGTATTTCCTTTTTATATAATTTATTTTTGGCTGTGCTGGGTCTTCATTGCTATGCAGGCTTCTCATCGCGGTGGCTTCTCTTACTGTGGCGCAAGACGGGCTCTAGGGCTTAGTAGTTGCAACTCCCGGGCTCTAGAGCACAGGCTCGGTAGTTCTGACCTGTAGGCTTAGTTACTCCGCGGCATGTGGGATCTTCCCGGTTCAGTTCAGTTCAGTTCAGTTCGGTTCAGTCACAGACCAGAGATCAAACCTGTTTTTCCCGCATTGGCAGATAGATTCTTTACCACTGAGCCACCAGGGAAGCCCCAGAATTTGTATTTTCTTCCTTCCTTACCTACATCAGGTTTCCATGGAGTCAAGCTAGGGTTCAGGGGTCTTGAGGGTTTTGAGGGTCTGGGGTAGAGAGCAGCTGGTATGAATCAGGTTCCTCGGCTTGTCGGCACTACACAGATCTACTCCGGCTGCTGGAACTCGCTGGGGAGTTCCCGGGAGGCAGGCCTGGGAGACATCACTCGCTCCCTCATCCAGACGGGAAGCAGGCTCAGAGCAGAGGCCTCACGGCTCGCGGCAGAGCCAGGACTCTGGTCCAGGGGGTCTTCCCTCGCCAGCTGCGGCCCAAGCCGCCCTATAACACCTCCGGGCTGAGGGTCCCGCCTGCCGCCGGGTTCCCCCGCCGCCGCACACCCAGATCGCATGTGCCGGGGGACCACTGGCTTCTTCTCCGCGCCCCTGGCGCCCCCTGGCGGTGCCAACGCGGCCCTTCGTTGTTCCTAAG
Seq C2 exon
GCTGCGGCTGGAAGTTCGAGCCCCTGCTGGGGGAGGAGCTGGACCTGAGGCGCGTCACGTGGCGGCTGCCCCCGGAGCTCATCCCGCGCCTGTCCGCCGGCAGCCGGCGCTCCTCCGACTCCGGGCCCCCGGGAGACGGCGCCGCCGATGGGGCCGATGGGGGCACGCGGGGCGCCAGCGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.581
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCCCCATCATCCCTGACATCC
R:
GGACAGGCGCGGGATGAG
Band lengths:
227-1876
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]