GgaINT1015669 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17233126-17235285:-
Coord C1 exon
chr7:17235206-17235285
Coord A exon
chr7:17233382-17235205
Coord C2 exon
chr7:17233126-17233381
Length
1824 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TACTATTTTCTATCTTGCAGACA
3' ss Score
10.46
Exon sequences
Seq C1 exon
CTGACCCAAAGATGGAGAGCAAAGAAGACCAATGGATGGGTGTAACTGTCCAAAGTCAGGGGCCAGGAGGAAACGTGGTG
Seq A exon
GTAAGTCTACAGGTCTAGCTTACTGTAGACCCAAAACACCTTTGTATGTTGTGAATGGTCTGTGTTTCTGTGCAGCCTCCTGAAAGGTAATTTCCATTGCTGTATTATTGTAATTTCTTAGAATTAAGGACTTAAATGTCTGCTTAGCAAAATAAAATACTTTAGATTGTAGAAGTTTTAAATTAATTTTCTAACTCTGAGTTAGCCTTTCTTTGTAATCTTGGCAACAGGATGGATCTTCGATGCGGAACAATTTATTTTCAGGTTGTTACTCCTCTTTTCATGTTACATGGTTTCTTTAAAAAAACACCACAGAAACAAGGAAAAATAGTTTGGTAAAGTTTAAAAAAGGAGCCCTCTATCATCAGCCTGTTGCCTAGGATGATCAGCCTTAACTTTACTGAGGGCCATCAGCTGAATTGCTCCTATGTATTCATGTAGCTCTGGATGTTGCAACTGGGACGTAGGAGGGAGAACAGTGAAAACTTGTACTAATAATGACAATGCAAGCTATTCTTTCATAAACTACTGATAGAAAAAGCTTTTCAGATTTAGCAGATAATGTTATTTTTGTAGCTTCATGGTTCTTTCTCAAATTCACCTCATGGCTGCAGGATACCAGCTGCATCATAACGTGGGGGTGCAGTGAGACTCCTCCATCTAATTATATTCTTGTAGTTTAACCTCACTTCTTCAAAGACAAGAGTAAAGCAACTTCAGGGCACAACTCTGGGTTATTTATGGCTATAGGGACAGTACTAGCTACTCCAGTCTGACTCAAAACCCAAGGGAGGAAAAGTAGATGGAACCGGTCCTGTTCAGTTAATTCCTCACCAGCTAGTGCCATCTTGCCTGTGATGCAGTTTACGTGCTTCTTAGATGGGCCAAAGGCAGCCTGAAGATCACAATGCAGCTGAGCAGCGTGTAGTACTCAGCACAGCTCAGAGTAGGGCAGTGCCCTAAGTGAGTATTGGCTATGTATCTGCTTAATGTTTCAGCCTTAGTAGGAGCCACAGAAAGGGAATTTTTCTGTTAGATGGGAAACCTGTCTTGCTTGTGCTTGTCCTGCACTTCCTCCCTCTTAATCTGCAAAGAACACTGCTGTCAAAAGGGTTTGATTGTTCCACCTCTTTTTACAGTGGTTTGGTGATTACACTGGTTATCCTGGTGGCTCATCATCATTTGTATTTGATTGGAATTGTCTTCCTAGGTGAAAAGTCTAACAGCTAGGTTAAAGAACAGCTTATACTCAGTGCTGCTGCTTTTCTTCGTCCCAGTGATGGTTATCCCCTAAATGAAACACCCACCACTGGAAGTCGGAACAAGTCTTTCCTCCCTTGCCTTCACTGGAAAAGCTTTCAGCCTCCTGCCTGTGGCACTTTTCTGAAAGAGCTGACTTTGGTAAAGGTGGATGGTAGTTGAACCAGCTCCCTGTGTCTTACACAAGCATGTAGATTATTTAACTGTTACAGCTGGGGGGAAACAGCTAGTTTTTTTTTTTTTTTTACAAGAGGTAGTGTTGTTGTCTACTCTGTTTTTGAAAGAGAGGGATTAGGTATCAATGAAAGCTTTAGGGCAAAAACCCCTGAGTCCCAAAGTGAAGAGGGATTTAACCATGCTGCCTTCCCTGATCAGGAAGTTGATTGCTCTGACTTGGGTCTGTAGATGCTTATAGGGAACTCTGGGCTCTCTCTGCATTGCAGCATAAACGTGTCCACAAGGAGAGCTTTGCTAGCATGAAGTACTGCTTATGGAGACTAGCCTTCTTTGATAACTTGCATGCAAACATACAAAAAGAATTATGTACTATTTTCTATCTTGCAG
Seq C2 exon
ACATGTGCACATCGCTATGAGAAAAGGCAATATGTAAACACAGTGCAGGAAACCCGGGATATCATTGGAAGGTGCTACGTGCTGAGCCAGGATCTCACTATTAAGGATGATATGGATAATGGAGTATGGAGTTTTTGTGATGGCCGCTTAAGAGGCCATGAGAAGTTTGGTTCCTGTCAGCAAGGTGTTGCTGCTACTTTTACTAGAGACTATCATTACATTGTGTTTGGTGCCCCAGGCACTTACAATTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.593 A=NA C2=0.000
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:
AAGATGGAGAGCAAAGAAGACCA
R:
TTCCAATTGTAAGTGCCTGGGG
Band lengths:
326-2150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]