GgaINT0128384 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:486708-487252:-
Coord C1 exon
chr18:487134-487252
Coord A exon
chr18:486905-487133
Coord C2 exon
chr18:486708-486904
Length
229 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATA
5' ss Score
4.18
3' ss Seq
ACTCACGCTTATTTCCGCAGGCC
3' ss Score
9.1
Exon sequences
Seq C1 exon
GTGAATATTCACGCCAGGTGGAGGAGAAAGATGCCCTGATATCTCAGCTGTCTCGAGGCAAGCAGGCATTCACCCAACAGATTGAGGAACTCAAGCGGCACTTAGAGGAAGAAATCAAG
Seq A exon
GTGATATTTTTTCTTACAGCTCAACACTAAAAATATATTTAACTTCACATTGTCTGGTAGGGAAAGGGACTACTGCATGGAGTATGATCAGTACATTTTGTTCTCTAGTCTTACATCTATCATTCCTTGTACCTTTCCACTGGTCATACTTGAAGTGTTAAATTAATTCACTGTGAGAGATTCTCCAGGTTATTTATATTCGTTATCCTACTCACGCTTATTTCCGCAG
Seq C2 exon
GCCAAGAACGCCCTGGCCCACGCCTTGCAGTCTGCTCGTCATGACTGTGATTTGCTCCGGGAACAATATGAAGAGGAGCAGGAAGCCAAGGGTGAGCTGCAGCGTGCCCTGTCCAAGGCCAACAGTGAAGTGGCCCAGTGGAGAACCAAATATGAGACAGATGCTATTCAGCGCACAGAGGAACTGGAGGAGGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.409
Domain overlap (PFAM):
C1:
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)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(7.5=100),PF045827=Reo_sigmaC=PD(11.0=24.2),PF0003816=Filament=PD(30.4=42.4),PF0003816=Filament=FE(21.9=100)
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:
ATATTCACGCCAGGTGGAGGA
R:
CAGTTCCTCTGTGCGCTGAAT
Band lengths:
301-530
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]