GgaINT0125409 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:7450348-7450855:-
Coord C1 exon
chr17:7450610-7450855
Coord A exon
chr17:7450463-7450609
Coord C2 exon
chr17:7450348-7450462
Length
147 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGC
5' ss Score
2.22
3' ss Seq
ACAATGCTGTGTGCTCATAGGTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
TTCTGGGAATCCACCTCTCTCTCCTCCCTGGACACGTCGGGCATCGGCTCGGGCTCCAGCAGTGCCTCATCCTCCTCCGTCTCCTCCACGCCGGTGACAGCATCCCGCACTCACAAGCGTTCCGTCTCCGGCATCTCCAGCTACTCGTCCCTCTCGCTGCCCCTTTACAACCAGCAGGTCGATGACTGCTGTATCATCCGCGTCAGCCTGGCTGTGGACAACGGCAACATGTACAAGAGCATCCTG
Seq A exon
GTTAGCACCCAGCACCCGCGTCCATTTTGGGGTTGAGAGGCTCGTCACGCTTGGATGCGGGCATGTCTCACACTGGGAGGGTATGGAGGTGGGAGATGGGGCAGCATTTTGTGCAGCATGGTGGTTAACAATGCTGTGTGCTCATAG
Seq C2 exon
GTGACGAGCCAGGATAAGACACCGGTCGTTATTCGCAAGGCCATGGCCAAACACAACTTGGATGGGGACCGGCCTGAAGACTACGAGCTCGTTCAGATCATCTCAGAGGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003412:ENSGALT00000005397:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0078818=RA=PU(22.7=24.4)
A:
NA
C2:
PF0078818=RA=FE(43.2=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:
CTCATCCTCCTCCGTCTCCTC
R:
CCAAGTTGTGTTTGGCCATGG
Band lengths:
242-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]