BtaINT0077900 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017266 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:24148934-24150600:-
Coord C1 exon
chr2:24150498-24150600
Coord A exon
chr2:24149108-24150497
Coord C2 exon
chr2:24148934-24149107
Length
1390 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TACATATTATTTTCTAACAGGTA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GGTTGCTAAACCTTCCCAGGTGTATTTTGGAGGTACAGTAGTTGGTGAGCAAGCGATGAAATCTGAAGAGGACGTGGGAAGTTTAATTGAGTACGAGTTCAGG
Seq A exon
GTAAGTGGTTGCAGTTGGCCCTTCCAGTCTGTGTATCAGAAGCTAACGTATGCTGTGTATGATCTTGAATATGTAGTTTTAATAAGTAACAATAAATAAGCATGATAAAGAGAGCTTGCCAGTTTTTAAACAGCATACTGGCTTAGTGTAAAAGTTGTCTTTCAGAATGGAGAACCACAACTTCATTCAACATAGGTCTTTGTTCAGAATCAAATTCAGTTTGGTCTTTTTCTTCTTAGGGAGTTTTAATGTATTAATAATAATTGTGGTGTTGAGACAAAGAAATACTCGCTTTTTTTCTCCCCAGAGTCTGTCTATAAAACAAAAATCTCAAAATGCTATTTGGCTTTAGAATGTGTGAATGATTTATTTCTTCCTCTGTTATAAGATCATCTCTCTTATTGCTTATGGTTAATGTTCACTGACCTTTCCCAAGCAGTTTTGTGATGGTGAATGTGGGTTTGACGTGTACCCATAAGGAAGACTAATGACTGCTCTGACCCATTCCAAAGTAGGTGGTCACAGTGGCTCTTAAGTCCAGTCAAATGAACATGAGTGCAAGGTACAGAGGTGACTCACAACTCATACGCAGGTTCAGGTCTGTGGCTCAAATCACACTCCTGAAAGCATAGGGACTGTTGTTGAGGTGAAAGTCTGAAATAGCAAAAATGGGTCCACCCTTGACTCTAGGAGGATGAAGAGGTGGAATTCTCCTCTGAAAGCATCTCTTAGCTTTAGACAGAACTGTGACAGCTAGTGGGTGGTGGTGATTATGGCACCTATGCAGATGTGGCTGCAAAGAGGTCTGTGGGTTCTGGAGCAGTCTTTCATACAAACTCTTTTGATTTCTGTTGCACGGAGTTGCTCCCTGCCCCGTCCCCAGCTTGGACTCATGGGTTCATGGCTGCCAGAATGGCCCTCCTCTGGGTCTCTCAGGTGTTATCCCAGGCCCCCGCCCTGTGGTCAGGACAGAGGCAGCTTCATTTGCAGTACGTGGGGCTCCCCAGAAGCAGGTTATGACTGCACTGTCACCACAGTGGCTTTGTCACCTGCCAGGCAGAGTGGTTACAGAGCGAAATAAGAACACACGTGACTTCTCCCTGGGCGTTTTGAGAGCCTGGCAGATTCTGTTGCACACAAAAGTTGATCCCGGATTGAGGGAACAATTATTTCTCTTTGATCTTTTTTTCCCCCTATTTTTATTGACAAGAATCTTTAAACACAAATCTCTATTTTGGATGCCCTATCCAAAGTCCACTTTTGGAGCCTGTGCTTTTATTGTTGGATTATGCCAGATATTTTGGCTTTTTTATCTTGGCAATAGGAACTGCTTAACTTAATTTTATGTTGAGAGATTTACACTGAGATAATACATATTATTTTCTAACAG
Seq C2 exon
GTAATTAACTTGGGCAAACCTCTTAAAAACCTCGGCACAGCAACCTTGAATATCCAGTGGCCAAAAGAAATTAGCAACGGCAAATGGTTGCTTTATTTGGTGAAAGTAGAATCAAAAGGATTGGAAAAAATAACTTGTGAGCCACAGGGTGAAATAAACTTCCTGAAACTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017266:ENSBTAT00000022960:19
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:
PF084417=Integrin_alpha2=FE(7.1=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(12.0=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:
CCTTCCCAGGTGTATTTTGGAGG
R:
GTTTCAGGAAGTTTATTTCACCCTGT
Band lengths:
262-1652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]