GgaINT0127429 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:597895-598686:-
Coord C1 exon
chr18:598297-598686
Coord A exon
chr18:598022-598296
Coord C2 exon
chr18:597895-598021
Length
275 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TATGCATGCTTGATAACTAGGCA
3' ss Score
4.38
Exon sequences
Seq C1 exon
GCCCGTATTGAAGAACTGGAGGAGGAAATTGAGGCAGAGCGAACCTCTCGGGCAAAAGCAGAGAAGCACCGAGCTGACCTCTCCAGGGAGCTGGAGGAGATCAGTGGGCGCCTGGAGGAAGCAGGAGGGGCTACAGCAGCTCAGATCGAGATGAACAAGAAGCGTGAGGCAGAATTTCAGAAGATGCGCCGTGACCTCGAAGAGGCCACGCTGCAGCACGAAGCCACGGCTGCTGCCCTGCGGAAGAAGCATGCGGACAGCACAGCGGAGCTTGGGGAGCAGATTGACAACCTGCAACGAGTCAAGCAGAAGCTGGAGAAGGAGAAGAGTGAGCTGAAGATGGAGATTGATGACTTGGCCAGCAACATGGAGTCTGTCTCCAAAGCTAAG
Seq A exon
GTATAGAAATACTTTTATTATTTTATTTCTATACCGTATTTTTTATAAGGTATAGAAATACTTTTATTAGCACTTTTTCAACACTATATTTATGTTCAGTCTTCCCTTGCTTAAACATTGTCAGCTGTTTTTTCTTCAAATTGAATATATAAAACCCTAATTAATGCACATTGTCCATATATATGTAAACTGTATCATCTAGCCATGTTTTCCTTCTGTAAATAAGATAGAGTCTGGGTATTCACTCTCTTTTCTTATGCATGCTTGATAACTAG
Seq C2 exon
GCAAACCTGGAGAAGATGTGTCGCACTTTGGAAGACCAACTAAGTGAATTCAAAACGAAAGATGAGCAGAACCAGCGCATGATCAGTGATCTCAGTGCTCAAAGAGCTCGCCTGCAAACAGAATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023705:ENSGALT00000001424:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=NA C2=0.791
Domain overlap (PFAM):
C1:
PF0003816=Filament=FE(45.3=100),PF0157614=Myosin_tail_1=FE(15.0=100)
A:
NA
C2:
PF0003816=Filament=FE(14.7=100),PF0157614=Myosin_tail_1=FE(4.9=100),PF0003816=Filament=PU(28.6=65.1)
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:
TCACTGATCATGCGCTGGTTC
Band lengths:
306-581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]