GgaINT0001724 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:29708961-29709187:+
Coord C1 exon
chrUn_random:29708961-29709050
Coord A exon
chrUn_random:29709051-29709142
Coord C2 exon
chrUn_random:29709143-29709187
Length
92 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCGCGTGTGCTGATCAGCAGGAC
3' ss Score
3.83
Exon sequences
Seq C1 exon
GGGGACTCCTGCCTGTCCTGTGACAGCCGTGTCCTCGCTGCGCTGCTGCGGGAACTCCCCGAGGGGCGTGAGAGCGAACTGGGATCACTG
Seq A exon
GTGAGTGTGTGGGGCTGAGAGCCCCGGCCCCACTGAGACCCAATCCCCATGCTGGCATGGCTGTGTGTGTGACCGCGTGTGCTGATCAGCAG
Seq C2 exon
GACAAAGCAATCCTTCCTGGGCTGGCTGGCATCAAGGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022292:ENSGALT00000035865:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.533 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(16.7=16.7),PF0139113=Collagen=PU(11.3=26.7)
A:
NA
C2:
PF0139113=Collagen=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCCTGCCTGTCCTGTGA
R:
CTTCTCGCCCTTGATGCCAG
Band lengths:
132-224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]