GgaINT0047781 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19099050-19099411:-
Coord C1 exon
chr7:19099328-19099411
Coord A exon
chr7:19099130-19099327
Coord C2 exon
chr7:19099050-19099129
Length
198 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
GCATGTTCTTTCTCATCTAGGTA
3' ss Score
10.23
Exon sequences
Seq C1 exon
GAAAAACAGCTCACATGTGGTGCTAACCAAAATGGCTCTCAAGCAGAGTGTGAACTTGGAAATCCGTTCAAGAGAAATTCCAAC
Seq A exon
GTGAGTTGCACTTACTTTAGTCAAGCTAGACAATTTGATTCCTGACTTCAGTCTTCCAAAGTTTCTGTGTCATAACTGGAAATTTGGCCTAGATCTGTCATTTGAACTTCAGAATTTGATGGTGTGTTACTATAATATTGCATATATTAATATCTTTTTTAAAATGTTCATGTTTCCTGCATGTTCTTTCTCATCTAG
Seq C2 exon
GTAACCTTTTATCTGATCTTAAGTACCACTAAAGTTAATGTTGATACAACAGACTTGGACATTAACCTCAAGCTGGAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(5.6=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAAACAGCTCACATGTGGT
R:
CTCCAGCTTGAGGTTAATGTCCA
Band lengths:
162-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]