GgaINT0127640 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4714951-4715507:-
Coord C1 exon
chr18:4715319-4715507
Coord A exon
chr18:4715107-4715318
Coord C2 exon
chr18:4714951-4715106
Length
212 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTACATATATGCCCTCACAGGTT
3' ss Score
8.28
Exon sequences
Seq C1 exon
GAGAGGTGCATCGCGTCACCGTATCCAACCCCAGCCGGAACTCGGTGGTTGTGGAGAACCTGCTGCCCAACCACTCCTACATCTTCAAGGTGAAGGCACAGAGTGAGGAGGGCTGGGGCCCTGAGAGGGAAGGAGTCATCACCATAGAGTCCCAGGTGGACCCACAGAGCCCACTGAGCCCCGTTCCAG
Seq A exon
GTGAGGTGAATGAGAAGCAGGGAAGGAGGCACTGATGCCTTTGTGGCAGTCTACAGTGCTGGCCTTGCTGTTTTCTCCCCCCTAAACTCATCCTCGGTGCTCCTTTCCCTCCTTTCATTTGGAAATGGGAACTTCTTTCCCACGCGCTCACCTTCTTCTGGCTGTCCAAGTAGCTGAGACCTCCCTGCTTCATTACATATATGCCCTCACAG
Seq C2 exon
GTTCACCCTTCACGCTGAGCACACCCAGTGCCCCCGGACCGCTGGTTTTCACTGCCCTCAGCCCTGACTCCCTGCAGCTCAGCTGGGAGAGACCACACAAACCCAACGGGGCCATCCTGGGTTACATGATCACCTGTGAAAGGCTGCACGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.445 A=NA C2=0.245
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=65.6)
A:
NA
C2:
PF0004116=fn3=PU(49.4=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTTGTGGAGAACCTGCTG
R:
GCAGCCTTTCACAGGTGATCA
Band lengths:
292-504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]