GgaINT0128203 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:360383-361349:-
Coord C1 exon
chr18:361223-361349
Coord A exon
chr18:360502-361222
Coord C2 exon
chr18:360383-360501
Length
721 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTGACTGCAAACTCTCCCAGGTG
3' ss Score
5.91
Exon sequences
Seq C1 exon
GCAAATTTAGAGAAGATGTGTCGTTCCCTGGAAGATCAACTCAGTGAAATTAAGACAAAGGAAGAGGAGCAACAGCGCACCATTAATGACATCAGTGCACAGAAAGCTCGTCTACAAACAGAGTCAG
Seq A exon
GTAAGACAACTGTGGTTTTTAAGACAACACAGTAAATAGCCGGGAGCTTAGAAATATGGGGTCAAAAAGGGGTCATAGAGATCTGGGGTCTTGATAGAAACCATAACATGAATATGAACATGAACATGATAGAACATAAGCCAGCAATGTGTTCTTGTGGCAAAGAAGGCCAACAGAATACTGAGCTGCATTAGGAGGAGTGTTTGCAGTAGCTGAATGGAGGAGGTGGCCCATCTCTGTATGCAGCACTTCTGAGGTCACACCTTGGAGTCCTGTGTCCAGTATTACACTTTCCAGTGTCAGAGTTGGAGATATTCAGGAGCAAGTCTAGCACAGGACCAACAAAATGATTAAGGAACTGTAGTTTGAAGGAAAAATTCATCTATCTCCTAAACTAGACTTCATCCCTCCCTTGCCAGGAGAAATTCAGGAGCTGTCAGGAATATGCACCTCTACTCATGCTGTAAGCTCAGTGACCACTAAATTTAGTTCAAATATAAAGTAAAAATAATCAAATAACAAACAAGCAAGAGTGATTAATCTCATTTCCTAACTCTAATGAATAGTTGACTCAGAGATATGGATGAAGATCAGTGGTTAATATTCAGTGAGAGAAATAAAATGTTATTTAACAAAATAATTTTCACATGTATTTGATTATTGAGGATAAAAAATTTTTAAATTCATAAAATTTTTCTTACTTGACTGCAAACTCTCCCAG
Seq C2 exon
GTGAATATTCACGCCAGGTGGAGGAGAAAGATGCTCTGATTTCTCAGCTGTCTAGAGGCAAGCAGGCATTCACCCAACAGATTGAGGAACTCAAGAGGCACTTAGAGGAGGAGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023884:ENSGALT00000040060:27
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=0.250
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(4.9=100),PF045827=Reo_sigmaC=FE(29.6=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.5=100),PF045827=Reo_sigmaC=FE(27.5=100),PF0003816=Filament=PU(12.1=90.0)
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:
GCAAATTTAGAGAAGATGTGTCGT
R:
CTTTATCTCCTCCTCTAAGTGCCT
Band lengths:
246-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]