GgaINT0127727 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:551883-552548:-
Coord C1 exon
chr18:552159-552548
Coord A exon
chr18:552010-552158
Coord C2 exon
chr18:551883-552009
Length
149 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
TCCTTGCTTTCAATACTTAGGCA
3' ss Score
7.21
Exon sequences
Seq C1 exon
GCCCGTATTGAGGAACTGGAGGAGGAAATCGAGGCAGAGCGAACCTCTCGGGCAAAAGCAGAGAAGCACCGAGCTGACCTCTCCAGGGAGCTGGAGGAGATCAGTGAGCGCCTGGAGGAAGCAGGAGGGGCTACAGCAGCTCAGATCGAGATGAACAAGAAGCGTGAGGCAGAATTTCAGAAGATGCGCCGTGACCTCGAAGAGGCCACGCTGCAGCACGAAGCCACGGCTGCTGCCCTGCGGAAGAAGCATGCGGACAGCACAGCGGAGCTTGGGGAGCAGATCGACAACCTGCAACGAGTCAAGCAGAAGCTGGAGAAGGAGAAGAGTGAGCTGAAGATGGAGATTGATGACTTGGCCAGCAACATGGAGTCTGTCTCCAAAGCCAAG
Seq A exon
GTATAATAAAGGCAATAGAATGTGTTCATAGGACAAAGGCATGGTGCTTAGACTATATCTACAAGTCACACTCGTATAAGATTTCTGCTGTAAAAATCAGAGAGAGTCCAGACTTTCATTTCCTTTCCTTCCTTGCTTTCAATACTTAG
Seq C2 exon
GCAAATCTAGAGAAGATGTGCCGCACTCTGGAGGACCAGCTGAGTGAGATTAAAACCAAGGAGGAGCAGAATCAGCGCATGATTAATGACCTCAATACCCAAAGAGCCCGTCTGCAGACAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000965:ENSGALT00000001425:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.954 A=NA C2=0.837
Domain overlap (PFAM):
C1:
PF0003816=Filament=FE(45.3=100),PF0157614=Myosin_tail_1=FE(21.7=100)
A:
NA
C2:
PF0003816=Filament=FE(14.7=100),PF0157614=Myosin_tail_1=FE(7.1=100),PF0003816=Filament=PU(25.0=53.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCAGAAGATGCGCCGTGA
R:
CAGAGTGCGGCACATCTTCTC
Band lengths:
247-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]