BtaINT0077911 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017266 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:24167212-24168317:-
Coord C1 exon
chr2:24168107-24168317
Coord A exon
chr2:24167406-24168106
Coord C2 exon
chr2:24167212-24167405
Length
701 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TCCCCTCATTATGTTTTCAGGTG
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCTTTTCTTTGGACTCGGGGAAAGGTATTGTTTCCAAAGATGAGATCACTTTCGTGTCTGGTGCTCCTAGAGCCAATCATAGTGGAGCGGTGGTTTTGCTTAAAAGAGACCTGAAGTCTGCGCACCTTCTCCCTGAGCACATATTTGATGGGGAAGGGCTGGCTTCTTCATTTGGCTATGACGTAGCAGTGGTGGACCTCAACAAAGACGG
Seq A exon
GTAAGAGCCGCTGAGGTTATTTTACATTTGCAAAGAGCTCATCGCTGCTCTGGCTGCTATAGGTGTTGAGAGGGAATACCCTTCCAGGTTAGTTGATGGAAAGGATATTTCCGCTGCCAAATTTTTACCATCCCATCAGTCTTCCTCACTTATATTTTGGTAGCAGACATTCGTTACCCTCCCTAGGATGTAGGATTACATTTTCAGTCTTCAGTTTTTACTATGTCCTAGGATCATGGGTCTGTGAGAGTTAAAATTTAACTAAAAAAAAAAAAATGACACCTACGTGGTTCTGTTCTGTGGTGTCTTAAGGGGATTTTGGAGTAGCCAGAATGTCCTGTTGAAAGTAGGGATTGGTGACAAAGTCGATAAAAAGGTCTGTGGTGGGTGGTGCCTATCTGGGTCTTGGGTAGAAGGTCAAAGGTGGAAGGGAGTGGAATCTTCACTGGGAGTCTCTCTGCACTATAGTTGTAACTTGGAAACTGGCTTCAAGTTCTTACTGTTGATGTTCTCCTTTGGGTGTTATTAGAGGCTACCTAGTTTTTAAAAAAAATACTTCAATTGATGAGATATAAATTCCAGATTTGAGGTCCTTTTTATCGTATCTCTGTGTCCTTAGTACCCGTTCATGTGGGATTCTCCCTAAGCTTGCTGGTATTTTGGCCAGTGGTTCACAGTTCTTCCCCTCATTATGTTTTCAG
Seq C2 exon
GTGGCAAGATATAGTTATTGGAGCCCCACAGTATTTTGATAGAAGTGGAGAAGTTGGAGGTGCAGCGTATGTCTACATTAACCAGCAAGGCAGATGGAATAACGTCAAGCCGATTCGTCTTAATGGAACCAAAGATTCTATGTTTGGCATTGCAGTCAAAAATATTGGTGATATTAATCAAGATGGCTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017266:ENSBTAT00000022960:6
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=0.015
Domain overlap (PFAM):
C1:
PF135171=VCBS=PU(6.8=7.0)
A:
NA
C2:
PF135171=VCBS=FE(87.8=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:
GCTTTTCTTTGGACTCGGGGA
R:
TGGTTCCATTAAGACGAATCGGC
Band lengths:
342-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]