GgaINT0047773 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17227197-17228176:-
Coord C1 exon
chr7:17228088-17228176
Coord A exon
chr7:17227325-17228087
Coord C2 exon
chr7:17227197-17227324
Length
763 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TCAATCTGTTTGCTCTTTAGATT
3' ss Score
9.76
Exon sequences
Seq C1 exon
ATATTGCAGTAGGGGCTCCATATGATGGTTTTGGCAAAGTATATATATATCATGGATCCAAGAATGGAATAAATACAGAACCAGCACAG
Seq A exon
GTAATCGTAACTTTCACTGTATATAATTACTCTTGCACAAAATTAAGGGGATGGTGGAGCTGTCTATCTTTTGCCTTTCTGTTGCTGTAATTGGGTGGTGGATATGCACAGTTTACAGGAACCTTCAGAGATTGCACTGCTGACCAAAGGAATTACGAGTTCTTTATTTTTTAATGTGCATTTTTCTCCCTGGGACAGTCCATTGGTAGCAATAATACAAAGAGAAGTAAAAGAATTTGTAGATGCAGAAGTTTTTCTTTTTAAGACATTCTGGGATTTCTGAAATAGTTCCTTGCTTTTGGTTCAGATAAAACGCTCACATTAATGAAGAGTTTTCACTTTGGAAATAACTGTACATTTTTTTTTCCTCTTCTTCTGGAGATATTGTTTTCTTCATTCTTATCTTCCATGACTTCCCCTTTTCCTTTTTTCATATCAATTGTGTGTGCCTTTTTTTTTTCTTGAGGACCACTATGTCCAGTTAGCATGGTCAGAAGGGAACATAATTATACTTTCTAGAATACTGTTAGAATATTTTCTAGAATATGTTCTTAAGTTTCAAGTACCTCTACTGCCTAAATATTACAAGTAAAGATCAAATGGGCAAAATTTTTATACAAAGGAAATCATCTTAGGACTTCAGTGTTGTTTATCTGAAGATAGAGGTTTTCTTTTTTGTTCCATAAGGCAATAATGTTCACTTAAGTATTTCACTTTTATAGCTTTTCAATGTCTGAATTCCCTCAATCTGTTTGCTCTTTAG
Seq C2 exon
ATTCTTGATGGTGAAAAAACAGGCACCAATTTCTTTGGTTACTCTATTGCTGGAAACATGGACCTGGATAAAAATTCCTACCCTGATATTGCTGTTGGTTCCCTTTCAGATTCTGTATCTGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF135171=VCBS=PD(4.1=10.0)
A:
NA
C2:
PF0183918=FG-GAP=WD(100=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATTGCAGTAGGGGCTCCAT
R:
TACAGAATCTGAAAGGGAACCAACA
Band lengths:
206-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]