GgaINT0006054 @ galGal3
Intron Retention
Gene
ENSGALG00000004225 | KDM2B
Description
NA
Coordinates
chr15:5523543-5524604:-
Coord C1 exon
chr15:5524443-5524604
Coord A exon
chr15:5523762-5524442
Coord C2 exon
chr15:5523543-5523761
Length
681 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CTGCTGCTTCTGCTTTCCAGGTC
3' ss Score
10.68
Exon sequences
Seq C1 exon
GTCTTCGAGACCTGCTGTTATCAGGGTGCTCATGGATAGCAGTGTCAGCACTTTGTAGTTCCAGCTGTCCTTTACTCCGAACTCTGGACGTGCAGTGGGCAGAAGGACTGAAAGACGCTCAGATGAGAGACCTCCTGTCACCGCCCACAGATAACCGGCCAG
Seq A exon
GTAACCGGCGGGAGGAGCGCGGGCTGTCCCATCTGCGCTGTGGCATGCTCTGCTGCTGGTCCCCCGTGGAGGAAATGGGCAGCAATCCCTGCAGCTAGCACCGGTGGGGTTCTGGGCTTTGCTGGCGCGTGAGGTGGTTAAGTAGTGACGTGCAGCACCTCGCTGGAAGCCACTGGGTGATGAGTGATGTTCTCTGGCTGCTGAACAGTCATCTGAGCCACTGTGCTGGTTTTCTGTCTGACTTTCTTCTCTTCAGGCTGCAACGGGTGTACTTTAGAGAGTATGGAAACACTTTCTTCCAGTTCAGGGAAGGAGCAGTTCTGTGGGTCATGCCACATTCGCCCGGATATCAGCTCAGGTGAAATTTTGAGCAAATCAGATCTGCTTTCTGGCATGCACTGCACAGCCTACTGCTTATTCCCGACCTGTAATTCCGCTGGGCCCCTGCAGTTACTTTCATCCCTTTCGTTTTGAAATCAGGAGGTGGTTTTTGTCCACGTGCCTGTACCAACAATAGACAAGTGTTCCTGCTGATGTCCCCTCCAAAGCAACAGACAGGCAAAAGCATCTGAAGTTAACTCAGGGCGGCAGTGTTGTGTGTCACAGTGCATTTCATATAGATTTGCAGATGCCTGCAGCACGGCACAAGACTCAGAGTGACCTGCTGCTTCTGCTTTCCAG
Seq C2 exon
GTCAGATCGACAACCGGAGTAAACTACGGAACATCGTTGAACTGCGCTTGGCCGGCCTGGATATTACCGATGCGTCTTTGCGGCTGATCATAAGGCACATGCCTCTGCTCTCCAAACTCAATCTTAGTTACTGTAACCACGTGACAGATCAGTCTATTAACCTGCTGACCGCGGTTGGAACTACCACGCGGGATTCATTAACGGAAATTAATTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004225:ENSGALT00000006725:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGTGCTCATGGATAGCAGT
R:
TCCGTTAATGAATCCCGCGTG
Band lengths:
345-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]