BtaINT0077909 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017266 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:24171402-24173410:-
Coord C1 exon
chr2:24173155-24173410
Coord A exon
chr2:24171534-24173154
Coord C2 exon
chr2:24171402-24171533
Length
1621 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TTACCATTTCTTTCTTTTAGGGA
3' ss Score
12.66
Exon sequences
Seq C1 exon
ACATGTGCTCATCGATATGAAAAAAGACAACATGTTAATACGAAGCAGGAATCCCGAGACATCTTTGGAAGGTGCTACGTCCTAAGTCAGAATCTCAGGATTGAAGATGATATGGATGGAGGAGACTGGAGTTTTTGTGATGGCCGGTTGAGAGGTCATGAAAAATTTGGTTCTTGCCAGCAAGGTGTAGCAGCTACTTTTACTAAAGACTTCCATTACATTGCGTTTGGAGCCCCAGGCACTTACAACTGGAAAG
Seq A exon
GTATGCCGGATATTTGTAGAAATGGAGATGAGAATGACTGCGTAATTTCTGCCTATGCACCATGATTTAGTACATTTAAAATTAAAACAGAATATATCATAAGGCATTTTTTATATTATAGAAGTAGAGTAGGATTACTAACATATCTTAATTCTGATTTTTAAAAACAATCGTCACATGTATGTTCTAAGATTTTTTTCCTTCTGCCAGCAATTTACATTCATATAACTAATTAACTTCCTTTGGTAAAAATATAGTTAGCATTAGGTTTTGCTGTTTTGTATTTGCTTATCTCATGAAAGTTTTAATTTTCACGTAGGGATCTGAAAACAGAAGAATTGAGTGGTGTTGTATACAAATAATATTGTATTGATACAGACATTTCTTTAGTCATGTATTACTTGGGCTATGTTTTGCTAATAAAGCAGGGTAGTTAGAAAGACAGATGAGAAATTAGGAAAATTTGAGATGATCGCAGATAACTTGTGGAAAGGTTATTGAATGGTATTGTTTAAATAATCTCGAGATGTAGGTGAAGGGCGCAACATTACATTTTTTGCCTGGAGGAACATGGTCAGTGCCCCTGTAATAAAAGTTCAACTTCTGAAGAAATTAAGCAGGTTTAGAAAACCGCTCTATTATAAAGGACAATTTACCTAATTCTAATTCATAGCGAAGAGAAATACATCTGATTCAGAAATAAGATTTTTGGGGGAGAAATTTATTATAATAAATCCTGTGTTCTAACATTTTCTATAGTCAGAAAAATCTTGGGAAAAATTTTCATTGCTCATTCAAAAATTTCGGAGTTTTGATTTCTATTAGGAATGGTCCTTGTACACCTTCCTGGGTATGTTCATTCATAGCAACCTTTGGGAATAATTTCCTTAGGCTACCCACCCTCAGCTGAATCTTCCACATAGCAGCATTTGTTGGGTTATCTTGACCTAATAACACACTGAATTTAGAAACAGTTTTATTTTGGCAAGAGATGCCATACATAGTAAAACAAAATAAAAACACCCACCAATTATGTATGTTTTAATTTATGGGAAATACCTCTTGCCTGCTTTGTAAATGCTGACTTAAAAACGTTACCACTTAAAAAAATGATATAGTGGACTTATTATGTGAGATCTTCTCTTTTCAATGATTAGGTCTGAAAATTTTTTGAAAATTTAAAATCTCTGGTTAAAAATGATTGGAAGAAAATATCAAAATACTAATCTCGCTTTCACACCATAGTTAAGAAGGTAAATTGATTTAGGATTACAGAAAATGTAAAATATATCAGGTTCATATAATTAAAGAGTTTTCTGTAGGTTTAGTTAATTAAACATTCCAGTTTCCATCTATAATTCCATTTTCATGGCATTATAAAGATAATTCATGAAAACACGTGGGCATTTTTTTATTACTAGAACAATTTTGTTTGATGTAAAAATCTACACAAACAGGATTTTTTAACTTTAATAACCTCAAAAGTCATCTTCTGCCTTTTGTTCCTCCAAACTTTTCTTTCTGAACTTAATGATAACATCAGGAATGTTTATTAGAACCATCTATTTTATTTTGTTTCATCTTCATTTTTTTTTTCTTTTTTACCATTTCTTTCTTTTAG
Seq C2 exon
GGATTGTTCGTGTAGAGCAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCTTATGAAGTTGGTGGAGAGACTGACCATGATGAAAGTCTAGTTCCTGTTCCTGCTAACAGTTATTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017266:ENSBTAT00000022960:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.111
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:
ATACGAAGCAGGAATCCCGAGA
R:
TGTTAGCAGGAACAGGAACTAGAC
Band lengths:
342-1963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]