GgaINT0054955 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15872131-15872863:-
Coord C1 exon
chr5:15872725-15872863
Coord A exon
chr5:15872245-15872724
Coord C2 exon
chr5:15872131-15872244
Length
480 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
ACATCATTCCTCTATTTCAGAAC
3' ss Score
10.66
Exon sequences
Seq C1 exon
CACGTGTAGAAACAGAAAGTGGCACTGCTCTGAGGAACCGTGCCTGGAAACCTGTTCAGTTTACGGAGATGGGCATTACACCACCTTTGATGGCAAACGCTTTGATTTTGAAGGAGACTGTGAATATGTTCTAATCCAG
Seq A exon
GTAACAGATTCCTTCTCTACAACTACCTGAAAGGAGGTTGTAGTGAGGTGGGAGCTGGTCTCTTCTTCTGGAGGTTGGAGGTCCTTCCTGCAGCAGGATGGTCCTCGGGGTCTTTTCCAACCCAAGCCATTCTGTGATTCTGGATTCTCCAAGCAATAGAATGATAGGAAGTGACCTTAAGTTTCACCATGGGAGGTTTATGTTGGATATTATGAAAAATTTCTTCTCCGAAAGAGAGGTAAGACTCTGGAATGGGCTACCCAGGCAGGTGGTGGAGTCACTTTCACTGGTGGTGTTCAAGAAACATTTAGATGTTGTTCTACAGAGCATGGTTTAGTGGAGCAGTATTCGTGATAGGTAAACAGTTGGACTAGATGATCTTGGGCGTCTTTTCCAACCACAGTGATTCTGGGATTCTATAATTCTTCTATATCGCATCACAGAGCATCATTAACACAGAACATCATTCCTCTATTTCAG
Seq C2 exon
AACTACTGTGGCAGAAAAGGTCTGAATCAGGGAACCTTCAGAGTCATCACTGAGAACATTCCATGTGGCACAACAGGAACCACTTGCTCCAAGTCTATTAAAGTTTTCCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(65.6=85.1),PF0009420=VWD=PU(18.5=59.6)
A:
NA
C2:
PF0009420=VWD=FE(24.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAACAGAAAGTGGCACTGCT
R:
CCCCAGGAAAACTTTAATAGACTTGG
Band lengths:
246-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]