BtaINT0078191 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56490985-56492305:-
Coord C1 exon
chr19:56492176-56492305
Coord A exon
chr19:56491108-56492175
Coord C2 exon
chr19:56490985-56491107
Length
1068 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
CTGACCATCTGTGTCTGCAGCGG
3' ss Score
8.56
Exon sequences
Seq C1 exon
ATCCACCTGGGCCTCTGTGAGGACCTGCGCTCCTGCGTGCAGTGCCAGGCCTGGGGCACCGGTGAAAAGAAGGGGCGCACGTGCGAGGAGTGCAGCTTCAAGGTCAAGATGGTGGATGAGCTCAAGAAAG
Seq A exon
GTACAGGGCAGGCAAGAGAACTGGGCAAGGGGCGACCCCTAAGCGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGCGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGCGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCCCTAAGCGGGGTCGCTCATCAGGGCGGGGCTGTAGAGCTGGGTGGGAGACCCCTAAGCGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCACTCATCAGGGCAGGGCTGTAGAGCTGGGTGGGAGACCTCTAAGGGGGGTCGCTCATCAGGGCGGGGCTGTAGAGCTGGGTAGGGGGCTCGTAGTCCAAAGTGAGGACAGGCAGAAGAGGGGTTCCAGGCCTGGGGGGTGGTCACAGAATCCAGACTGGGCACACAGACCCAGGGAGGGGACGCACAGTCTGGCCAGGGCACCCAGTCCTGGGGAGGGGGCCGTGAACATAGCAAAGGCGCAAAAACGGGCCCTGGGGCACACAGCCTCCTTTCCTCTGGGTCAGAAAAATGTTCTAGAAGCCCAGCTCCTGAGTGATGCCCAGGACAGGCACAGATTTGCGGGCTTTGACGGTCCTGGGCAGGGCAGCCCCCACTTCACCGCCCACCGTGTGCACAGTCTGCCAGGAACTCACATTCTTCCCCAGGGAGAGGCCTCCACCCCTCCACCCTGACCCTGTGATGGGCAGGGTGGGCCCCAGAGCAAGGCTGTGGTGAGGAGCGGACCCCTCGCCAGGCCCTGAGGTGCTCCGGGCTGGGGTCGGGTGCCCTGCTGACCATCTGTGTCTGCAG
Seq C2 exon
CGGAGGAGGTGGTGGAGCACTGCTCCTTCCGGGACGAGGACGACGACTGTACCTACAGTTACACCGTGGAGGGGGACAGCGCCCCCGGGCCCAACAGCACCGTCTTGGTGCAGAGGAGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:16
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:
PF079657=Integrin_B_tail=PU(44.2=86.4)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(47.7=100)
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:
ATCCACCTGGGCCTCTGTG
R:
CCTTCCTCCTCTGCACCAAGA
Band lengths:
253-1321
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]