GgaINT0126460 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:7646736-7647525:+
Coord C1 exon
chr17:7646736-7646878
Coord A exon
chr17:7646879-7647449
Coord C2 exon
chr17:7647450-7647525
Length
571 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
ACCATTATTTCTTTATTCAGACG
3' ss Score
6.87
Exon sequences
Seq C1 exon
GACCTGCCTCAGACCTCCAACAGCCTGGAGGAGGGTGCAGATGTCACTGCATACTGGTGGGGTGAGTGGACCAAGTGGACGGCATGCACGAGGAGCTGTGGTGGAGGTGTGAAGTCCCAGGAGAGGCACTGCCTGCGGCAGAG
Seq A exon
GTATGGGGGTGGGAAGACCTCAGTGTGTGCACATGGGAGTGGGTCTGGTCTGGGTCATTGCTTGGTGGGTGAGTGCAGGTAGAGAGGGGTCAGCTGGCAAAGCCTATGTGAGCAGAAGGTGAGCGTGGTGTTGGGAGGGGCTGCGTCCTCCCCATTAGGGAAAGAGTCATTAAGATTGGGAAGGACCACAAAGATTCCCCACCTCAACCCACCCCCACCGTGCCCACTGGCTGTGTCCCTCAGTGCCACATCTCCATATTTCTGGAGCCCTGTAGGGATGTTGACTCCATCACTCTTTGAGCAGTGATGCAATGGCACAGCTGCCCTTTCTGAGCAGCAGTTCTTCCTGCTATCCAACCTGAACCTCCCCTGGCACTGTGTGGGGCCATCACCCTTTGCCCTGTTGCTGATATCTGGGAGCTGAGATGCTCTGTGCTGACCCCAAGGTTTCTCCTTTAGGTGTGGCTTTGCTTTGTGGATGCAGGTCTTGAAGAAGCAGGGAACAATGACTCCTTTAGGGGAGAAAATGAAGTGTTTCTGACCCCTGTCTAACCATTATTTCTTTATTCAG
Seq C2 exon
ACGAAAGTCGGTGAGTGGGCTGGCTAATAAAACTTGCACTGGAACATCCAAAAGATATCAGCTCTGCAAAGTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002955:ENSGALT00000004669:2
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:
PF0009014=TSP_1=PU(49.1=56.2)
A:
NA
C2:
PF0009014=TSP_1=FE(45.5=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:
GACCTGCCTCAGACCTCCAA
R:
ACTTTGCAGAGCTGATATCTTTTGGA
Band lengths:
215-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]