BtaINT0077902 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017266 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:24147217-24149107:-
Coord C1 exon
chr2:24148934-24149107
Coord A exon
chr2:24147316-24148933
Coord C2 exon
chr2:24147217-24147315
Length
1618 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
TCAGATGTAATTCTTTTCAGGAG
3' ss Score
6.62
Exon sequences
Seq C1 exon
GTAATTAACTTGGGCAAACCTCTTAAAAACCTCGGCACAGCAACCTTGAATATCCAGTGGCCAAAAGAAATTAGCAACGGCAAATGGTTGCTTTATTTGGTGAAAGTAGAATCAAAAGGATTGGAAAAAATAACTTGTGAGCCACAGGGTGAAATAAACTTCCTGAAACTAACG
Seq A exon
GTATGTTGATGCATCTGTCTCATGTCTCCATAGATGTTAATATAAGAGAAAGGGGAAATCATTGCTTGCCTTGGGAAACTGACATTCTGGCATGTTGAATTTTTTTTTCCTTTGGTGTCATAGTTTCTGTTTTGTTGTGAGTAACCAAGTCAGGCTGAGGATTTCTGCTGATTAGGGACCACTGTGGCATATAAGTCAGGGTCATTTTGTGCATGTTGAAGCAAATGACATTTTCTGAAGTTTGAAGGCCCAGTGTGATGTATAAGGACATGCCCTGGGGATGGGCCAGCCAATGTTAACTCCCAGTGGAATCAAGCATTACAGAACATACTGGCACCTTAGCAAGTGACCTTGAAGACTTTTCATTCTTTTTTAAAATAGAAAATATTTATTGAGTACTTGTTATGTCTCAAGCACCATGCTAAGCATTAGGTTTGCATTTTCTCATTTCATTCTCTTGATCGTCTGATGAGGTATTTTTCTCATCCCCACCATTTCAGAGATGAGGACATTGAAAATCAGAGAGATTAACCTTCTCAGAGTCACTCAGCAGTTATGAGGGCAGTGCATTCATGCACAGCCCTGCTTGTTTTCAAAGCCTGCACTGTTAACCTCTCTGTGTACTGCTCCACACTTAAGTAACTATCTAGTCTATCATTTTTGCTCCATTTTGATAAAGACTTGCTTTGTTATTGCAAGTCTGCTTCTTTTAAATTCTAAGGTGACTGGGTATGACCAGTGTTCATAGTTGGTGGTTTATATTCATCAACTTGGAGAAACAAGATGGTCCATTATTCCTAATCTTTAAGAGAAATGGCAGTTGATTTATTTATTTTTGCTTTTGCTGGGTCTTTGTTGCTGCTCATGGCTTTCTTCTAGTTGTGGTGAGTGGGGGCTACTCTTCCTTGCGCTGCATGGGCTTCTCTTTGCAGCGGCTTCTCTTACTGTGGAGCACAGGCACATGGGCTCTCTGGTTGCAGTTGGCAGGCTCTAGAGCGTGGGCTCAGTGGTTGTGGTACATGCGCTTTAGTTGCTCTGAGGCATGTGAGATCTTCCCGGACCAGGGATTGGACCTGTGTCCCCTGCATTGGCAGGTGGATTCTTATCCATTGTACCACTGGGGAAGTCTGAAAAATGAAATTTTAAAGCATCTTCCTTGGCTTAGTTTTCAGTATTCTCCTTTGAATAAACCATGCTCGATCTTTTTCTACTTTCCCTTTTCCTCATTCCGTGTCACTCATTCAGGATGTGCTTACTTTTTACAGTTAGGTTAGGTACCGATCTGAGTGCTTAGGGGTAGAGGAATGAGATTGGTTCCTGATCTCAGGATGCTCACAGTTTGGTGAGGAGACAGCAGAACAAAGAAAGCCTTTGTCTCACTCTGAGTTTTAAGGTTGGAATGAAAGAAAATTACCTTGAAAAATAAAGTTGAAGTGAGGTTGGTAATTAACACTTTGTGATCTTACACTTCAATTATTTATGCACCTTGGTGCTGGCAGAAAGGTGAGGATTATCAGTCGTGAATTTGGCACAATCTGGAAGGGTGTGCTCTGGAGATTTGTACAGTAATGCCACAAATTACACTTGGTGGAAGTATTTCAGATGTAATTCTTTTCAG
Seq C2 exon
GAGGCTCACAACTCAAGAAGGAAACGAGAAATTGCCGAAAGACAGACAGATGATGGCAGAAAATTTTCTTTATTTTCTGAAAGAAAATATCAGACCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017266:ENSBTAT00000022960:20
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=0.182
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(12.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(6.7=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:
GTAATTAACTTGGGCAAACCTCT
R:
AAGGGTCTGATATTTTCTTTCAGAAA
Band lengths:
273-1891
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]