GgaINT0047782 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19098820-19099129:-
Coord C1 exon
chr7:19099050-19099129
Coord A exon
chr7:19098898-19099049
Coord C2 exon
chr7:19098820-19098897
Length
152 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
TTGTTTCCTTTCCATTGTAGAAC
3' ss Score
11.15
Exon sequences
Seq C1 exon
GTAACCTTTTATCTGATCTTAAGTACCACTAAAGTTAATGTTGATACAACAGACTTGGACATTAACCTCAAGCTGGAGAC
Seq A exon
GTAAGTTTTCTTTGTGTGTGTCTGTGCACATTATGTTTTGACATATGGCCGTAAACGTTTTGAATTAGTTTGATTCATAAAAGCAATTTAATGGTAAAGTGAAAAATTTCTAAACTTATGAAATCAGCAGCATTGTTTCCTTTCCATTGTAG
Seq C2 exon
AACAAGCACTCAAGTAAATTCAACTGCAATTACAGCCAGTGCTAAAGTGGTTCTTGAATTGCTTTTATCGCTCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:16
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=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(5.4=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:
TACAACAGACTTGGACATTAACCTCA
R:
CCTGTGAGCGATAAAAGCAATTCA
Band lengths:
114-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]