GgaINT0125401 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:7453126-7453625:-
Coord C1 exon
chr17:7453522-7453625
Coord A exon
chr17:7453211-7453521
Coord C2 exon
chr17:7453126-7453210
Length
311 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCCGTGTTCCCCCCGAGCAGGGA
3' ss Score
7.3
Exon sequences
Seq C1 exon
GAGTGCCGCATCCTGAAGAACTTCTCCTCGCTCAGAGCCATCCTTTCAGCTCTGCAGTGCAATGCTGTGCACCGGCTGAAGAAGACCTGGGATGAGGTCCTGCG
Seq A exon
GTGAGCAGCACCTGGGGGTCCTGGGAGGTCTCGGGGGGTGGCTGTGCGGGAGCTGTGGCCCTTCAATGTGTAGACGGGAGATGTGTAAATGGGATCATTGCGGCTCTGGCATTGCCCAAAGCCAAGGGATCTGAGGAGAGCGAGGAAACAAAGGCAGTACTGTCTGCTTCTCCTTTCCATCCGAACACCCTGGAATAACCCCAGTCAGCAAGGCCTGCTGCAGCTGTGAGCTTTGCTGGGGTCATTTGGGTGCGCAAGGAAGAGGCCCGGTGTGGCACCATTGCTGACTTCCCCGTGTTCCCCCCGAGCAG
Seq C2 exon
GGAGAGCTTCCGCACTTTCCATGAGCTCTCAGAGATCTTCTCCGATGAGAACAACCACTCCTTGAGCCGGGAGCTGCTCATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003412:ENSGALT00000005397:6
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:
PF0061714=RasGEF=FE(15.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(12.8=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:
TGCCGCATCCTGAAGAACTTC
R:
CTTAATGAGCAGCTCCCGGC
Band lengths:
186-497
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]