BtaINT0078220 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018169 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr19:56498624-56500004:-
Coord C1 exon
chr19:56499833-56500004
Coord A exon
chr19:56498888-56499832
Coord C2 exon
chr19:56498624-56498887
Length
945 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CCCCTTCTTGCTCTCCCCAGAGT
3' ss Score
10.95
Exon sequences
Seq C1 exon
GCTGAAGGAACCCTGGCCCAACAGCGACCCCCCCTTCTCCTTCAAGAATGTCATCAGCCTGACGGAAGACGTGGAGGAGTTCCGGAATAAGCTGAAGGGGGAGCGCATCTCAGGCAACCTGGATGCCCCGGAAGGAGGTTTTGATGCCATCCTGCAGACGGCCGTGTGCACC
Seq A exon
GTGAGTGTTGGGAGGCTCCTTCCGGCCTAGACCAGGGCTGTGTTTCTCTACAAGGTCAAGAGCTGCCCACTGGCCTGCTCTGGTGCCAGGCTGGGGCCCCCATACCCTCAGACAAGCTCAGACCCTCTGGGGGACCCTCAATTCCAATCCAAGTTTAGAGGTGTTGGGGCCTGAGCAGTCTTACCCTGGTTTTGTCTTGGTCACCAAGGCGGACCTGAGCCTCGGCGTTCTGGAATCTTAAGTGCCCCGAGCCCAAGCTCCCTGCTAATACCCATCTCCAGCTGTGCTAGAGGAGGGCACTTTTTACGTGTGCATCAATTTTTTCATTTAAAAAATAATGCACTGATGTTATAGACAATTTGGAAAACAAAGAACAGAAATTGCCCATAATTCCACCACCACCACAGAGCCAGCCAGCTGCTTGCTACCCCGCCAGCGTGCATCACTCCCTTATGTAGTCGAAATCAGTGCATGTTATAGTTCTGCCCTTTTTTCCCCACGCCTATTGCTTTTATACACACGGTTTCCAAAGCCACCCTATGTATTTCTCAAACAAGTGGCCACGCGCTGCTGTCCCTGTTTTAAGTCTTTTGTTGAATGTTGTGTGGTGTCCGTTTTTCTATGCAGTCGAGAGATGCTCGCAGAGTGATTGAGGCCTTGAGGGGACAGCTGGCTGAAACTGGCTCCCATCTTGCATGGTGCCCGCTGTGGGCACGGTCCCTGCGTCCGTTTCCCACTCCCCATGGCTGGTTTCTGTGTCCCCTTCCAACCCCGGTCATCCTCCCAGCGCTGTTTGTCATGAGCGTTGCTGACGGAGGCTGTGAATCCCGAGTCCTTGCTGAGCGCAGCGTTGGGGTGCGCCTTCACCGTGGCGGTGTGCGGCGCTGTGACGTTGCCGTCAGCAGGCCGCCTGCTCCACGGGCACCCCCTTCTTGCTCTCCCCAG
Seq C2 exon
AGTGACATTGGCTGGCGCCCTGACAGCACCCACTTGCTGGTGTTCTCCACCGAGTCAGCCTTCCACTACGAGGCCGACGGGGCCAACGTGCTGGCCGGCATCATGAGGCGTAACGACGAGGAATGCCACCTGGACCCCACGGGCACCTACACCCAGTACAAGATGCAGGACTACCCGTCGGTGCCCACCCTGGTGCGCCTGCTCGGCCAACACAACATCATCCCCATCTTCGCCGTCACCAACTACTCCTATAGCTACTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018169:ENSBTAT00000042566:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.207 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.7=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:
TGTCATCAGCCTGACGGAAGA
R:
TGGGGATGATGTTGTGTTGGC
Band lengths:
350-1295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]