GgaINT0128204 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:359866-360501:-
Coord C1 exon
chr18:360383-360501
Coord A exon
chr18:360063-360382
Coord C2 exon
chr18:359866-360062
Length
320 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTACTACAACATTTCCACAGGCC
3' ss Score
7.96
Exon sequences
Seq C1 exon
GTGAATATTCACGCCAGGTGGAGGAGAAAGATGCTCTGATTTCTCAGCTGTCTAGAGGCAAGCAGGCATTCACCCAACAGATTGAGGAACTCAAGAGGCACTTAGAGGAGGAGATAAAG
Seq A exon
GTGAGGAGGTTTGCCAGAATTCTGTCTTATCCAGTGGATTTTCCTGACTAAGAGGTTTTTCATACACATATAAAATTACAGAAACATCATGTTGAGCAGGAAAAAAAAACCAAAAAAGATATTTAATTTGGTGTGAGTTATTTTATCTTTCTGACACTTACCACTTATCCTTTAAGATGTTGCAAATTCCCAGCTATTCCTTCCTCATTCTATATATTGCCATTATTCTCATGGAAGAATTATCTAGTGTCCAATAACTTTTCACTCAGGACATTTCTCAAGAAATTTCTATTCCTTACCTTACTACAACATTTCCACAG
Seq C2 exon
GCCAAGAATGCCCTGGCCCATGCCTTGCAGTCAGCCCGCCATGACTGTGACTTGCTCCGGGAACAATATGAGGAAGAGCAGGAAGCCAAGGGTGAGCTGCAGCGTGCCCTGTCCAAGGCCAACAGCGAAGTGGCCCAGTGGAGAACCAAATATGAGACGGATGCTATTCAGCGCACAGAGGAGCTGGAGGAGGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023884:ENSGALT00000040060:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.455
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(4.5=100),PF045827=Reo_sigmaC=FE(27.5=100),PF0003816=Filament=PU(12.1=90.0)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(7.6=100),PF045827=Reo_sigmaC=PD(8.5=18.2),PF0003816=Filament=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAATATTCACGCCAGGTGGAGG
R:
CCTCCTCCAGCTCCTCTGTG
Band lengths:
310-630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]