GgaINT0128383 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:487134-487478:-
Coord C1 exon
chr18:487352-487478
Coord A exon
chr18:487253-487351
Coord C2 exon
chr18:487134-487252
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTTTCTGTATGCTTTCCTAGGTG
3' ss Score
10.45
Exon sequences
Seq C1 exon
GCAAACCTGGAAAAGATGTGTCGTACTTTAGAAGACCAACTGAGTGAGATTAAGTCAAAGGAGGAGGAGCATCAACGCATGATAAACGATCTCAGCACTCAAAGAGCTCGTCTGCAGACAGAATCAG
Seq A exon
GTGAGAGTGCTTCATCTGCCTTGTGGAATGGGTCAACATCCTTAAAATTTTTGGTTTTGGTCCCAAGTTACTAGATCTCCTTTCTGTATGCTTTCCTAG
Seq C2 exon
GTGAATATTCACGCCAGGTGGAGGAGAAAGATGCCCTGATATCTCAGCTGTCTCGAGGCAAGCAGGCATTCACCCAACAGATTGAGGAACTCAAGCGGCACTTAGAGGAAGAAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.814 A=NA C2=0.300
Domain overlap (PFAM):
C1:
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)
A:
NA
C2:
PF0003816=Filament=PD(4.5=32.5),PF0157614=Myosin_tail_1=FE(4.5=100),PF045827=Reo_sigmaC=FE(26.7=100),PF0003816=Filament=FE(42.4=100),PF0003816=Filament=PU(12.1=90.0)
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:
GAGGAGGAGCATCAACGCATG
R:
TCCTCTAAGTGCCGCTTGAGT
Band lengths:
176-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]