GgaINT0054957 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15870754-15871490:-
Coord C1 exon
chr5:15871311-15871490
Coord A exon
chr5:15870994-15871310
Coord C2 exon
chr5:15870754-15870993
Length
317 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TTGTGTTTATCCCCACGCAGGGA
3' ss Score
8.15
Exon sequences
Seq C1 exon
AACTATGAGCTGGTACTCAGTGATGGACACTCTGATGTCATCCAGAGGTCACCTGGAGGAGAAATGCCATTTCAAATCCGTTCCATGGGCATCTACATGGTCGTTGACACTACTGTTGGTCTGATACTCATGTGGGACAAGAAAACCAGTATATTCATCAAACTTAGTCCCAGCTTTCAG
Seq A exon
GTACATTTTAAAATCCAAAACCTGGAGTGAACACTCCCTGACCCATTTTCATGCTCTGTCTCACATGGAAATATAGAAATTCAGGCTGCAACTGAAATAGCAGTTATTGCCTATTATCTTTGTAGTAGTGACTCATTCTATATACACATTTTCCATAAATTATCTCTTAATGAAAGGTATTTTATGAGAATGTTCAAGACTGTTGCTGAAGAGGCCCAGCTCATTTTAAATAAGATTCATCCTGGAGTATGTTCCTCACAGATACTGAGAATCTGTACCTTGCTGATCTTTGTCATTTTGTGTTTATCCCCACGCAG
Seq C2 exon
GGACATGTCTGTGGCCTTTGTGGAAACTATGATGGCAATGGAAACAATGACTTCACTACGCGCAGTCAGTCTGTGGTAGGAAATGTGCTGGAATTTGCTAATAGCTGGAAAGTGTCTTCTACTTGCCCAAATGCCAATCAAACCAAAGATCCATGCACCGCAAACCCATACAGGAAATCCTGGGCACAGAAGCAATGCAGCATAATTACCAGTGAAGTATTTGCAAAGTGTCACTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:24
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:
PF0009420=VWD=FE(39.1=100)
A:
NA
C2:
PF0009420=VWD=PD(15.2=28.8),PF087426=C8=PU(28.0=26.2)
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:
TGTCATCCAGAGGTCACCTGG
R:
CATTGCTTCTGTGCCCAGGAT
Band lengths:
342-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]