GgaINT0125400 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:7453522-7453961:-
Coord C1 exon
chr17:7453746-7453961
Coord A exon
chr17:7453626-7453745
Coord C2 exon
chr17:7453522-7453625
Length
120 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGA
5' ss Score
7.22
3' ss Seq
TCCCCTTATCTGCCCCCCAGGAG
3' ss Score
10.33
Exon sequences
Seq C1 exon
GAGCTGTTTAAGAAAGTGGTGCCTTACCACTGCCTGGGCTGCATCTGGTCCCAGCGAGACAAGAAGGGCAAAGAACACCTGGCACCCACCATCCGTGCCACGGTCTCGCAGTTCAATAGCGTGGCCAACTGTGTCATCGCCACGTGCCTCGGGGATCGGACCCTGAAGCCACAGCAGAGGGCTAAAGTGGTGGAGCGGTGGATCGAAGTGGCTCGG
Seq A exon
GTAGGACGGTGCAGTCCCACTCGCCTTGCCCAGGGCTGGGGTTCTGTGGTGCACAGATCCCAGCAGATCCCTTGGCTTCGTTTAACATCGAGCCCTGCTGTCCCCTTATCTGCCCCCCAG
Seq C2 exon
GAGTGCCGCATCCTGAAGAACTTCTCCTCGCTCAGAGCCATCCTTTCAGCTCTGCAGTGCAATGCTGTGCACCGGCTGAAGAAGACCTGGGATGAGGTCCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003412:ENSGALT00000005397:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(32.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.6=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:
AGCGAGACAAGAAGGGCAAAG
R:
CATCCCAGGTCTTCTTCAGCC
Band lengths:
258-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]