GgaINT0128382 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:487352-488110:-
Coord C1 exon
chr18:487721-488110
Coord A exon
chr18:487479-487720
Coord C2 exon
chr18:487352-487478
Length
242 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
ATTCTTCTTGAACTCCTCAGGCA
3' ss Score
5.81
Exon sequences
Seq C1 exon
GCCCGTATTGAGGAACTGGAGGAGGAAATCGAGGCAGAGCGAACCTCTCGGGCAAAAGCAGAGAAGCACCGAGCTGACCTCTCCAGGGAGCTGGAGGAGATCAGTGAGCGCCTGGAGGAAGCAGGAGGGGCTACAGCAGCTCAGATTGATATGAACAAGAAGCGTGAGGCAGAATTTCAGAAGATGCGCCGTGACCTCGAAGAGGCCACGCTGCAGCACGAAGCCACGGCTGCTGCCCTGCGGAAGAAGCATGCGGACAGCACAGCGGAGCTTGGGGAGCAGATCGACAACCTGCAACGTGTCAAGCAGAAGCTGGAGAAGGAGAAGAGTGAGCTGAAGATGGAGATTGATGACTTGGCCAGCAACATGGAGTCTGTCTCCAAAGCTAAG
Seq A exon
GTATAGAATATATTTTAAAAAATCTTGAAAAAATCTTGAATAAATAATGTCAAATGATACCTTTTTTATATATGCGCCAGTTACTATAAATATCTCTGTATAAAACTGTATTTTTAAACTCAAAACCAATGAGCATTATATAGCCTGTGCTTCTGGCCACATGTTTCTGATGAAAATCCTGCTGTTATTAAAGCAGTTTACTTCAGGTATGAATCTTCTTTCATTCTTCTTGAACTCCTCAG
Seq C2 exon
GCAAACCTGGAAAAGATGTGTCGTACTTTAGAAGACCAACTGAGTGAGATTAAGTCAAAGGAGGAGGAGCATCAACGCATGATAAACGATCTCAGCACTCAAAGAGCTCGTCTGCAGACAGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.962 A=NA C2=0.814
Domain overlap (PFAM):
C1:
PF0003816=Filament=FE(45.1=100),PF0157614=Myosin_tail_1=FE(15.0=100),PF045827=Reo_sigmaC=PU(31.5=35.4)
A:
NA
C2:
PF0003816=Filament=FE(14.7=100),PF0157614=Myosin_tail_1=FE(4.9=100),PF045827=Reo_sigmaC=FE(28.8=100),PF0003816=Filament=PU(25.0=53.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCAGAAGATGCGCCGTGA
R:
ATCATGCGTTGATGCTCCTCC
Band lengths:
300-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]