GgaINT0047775 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17225113-17225668:-
Coord C1 exon
chr7:17225573-17225668
Coord A exon
chr7:17225175-17225572
Coord C2 exon
chr7:17225113-17225174
Length
398 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
TTTCTCTGCACTTTTTACAGGAT
3' ss Score
10.34
Exon sequences
Seq C1 exon
ATCTCGACCTGTCATAAGCATTACAAAAAGCATTACAGTACAGCCTGACAAACTTGACCTGAAGAAAAAGAACCCTGAAGACCCCAGTGAAATATG
Seq A exon
GTAATGTTTGAATTGTTATTCTGTCAGAAGTTGTGGTGTATTGACACTTCTGTTGTCAAATTTGTTTAGTTACTGTAAGGGTAGAGGGGATGTGATGGCCAATCATCGCGTTGCCACTTAGGACTGTTAACATTTAGGTATGTTAACATTAAGGTATCTTAAATTGAACAGCTTTCTCATGAATAGAGATGTAAAAGCAAATTCCAGAAAATATTTTTCGAGCTGCTCATTAAACATTTTTTACTTGCTTTGTTAATTCAGTTTAGTAAGCTGCAAATGATTATTCTAGTATGAAAAGTAGAGTCATAAGGCTCATAACAGAATTCAGTGGACTATTAAAACTTTTCAGTCCACTGGACCATGCCTTATTAATTTTAATTTCTCTGCACTTTTTACAG
Seq C2 exon
GATGGATGTGAAAGCATGTTTTCAATATACTGCAAACCCTCGTAATTTAAATCCAAGAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=PU(6.5=93.9)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(4.4=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]