GgaINT0006053 @ galGal3
Intron Retention
Gene
ENSGALG00000004225 | KDM2B
Description
NA
Coordinates
chr15:5524443-5525252:-
Coord C1 exon
chr15:5525089-5525252
Coord A exon
chr15:5524605-5525088
Coord C2 exon
chr15:5524443-5524604
Length
484 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AATCTCTTCTGTATCTGCAGGTC
3' ss Score
9.98
Exon sequences
Seq C1 exon
GTGCTGTGACAAAAGATTATGGACCAAAATAGATTTAAACCATTGTAAATCCATCACTCCACTTATGCTTAGTGGCATTATTAGGAGACAGCCTGTAACCCTTGATCTTAGCTGGACAAATATATCTAAAAAGCAGCTGAGCTGGCTTATCAACAGACTGCCAG
Seq A exon
GTAAGTGATGGCTTTTTTAACTGCTTCACCAGATCTTAGCAAACCAGTTTAGGTGTAAACTGTTATCTCTGAGGAGTGTGTGAAGGGGTCCAGCTATCAGAAGGGAGGAGTACGTATATAGGAGCAGAGCATCAGCATGTTAGAATGAGCAAAAAATGAGTTTTGTTGTGACTACTTGGCATTCTAGTAAACTAATTTGAGGCAGGTGTTGGCCAGCAAGTGCTGTGCCTGTGCTGACCAGTTCAGCTGAGAGATGCTGGGGAACTGTACCCCCACCCCCTGTAACAGAGGTTCTGGGTGTGGGGCAGAGGGATGGGTGGGGGGTGGGTGGGGGCTCCCAGGGTCCCTGCGTGCCCCGGAGCCGTGGGGTGTGTTGGAGCAGTGCTGTGCTCAGCTCAGCCTCTCGTGGTAGCCTCTCATGGTAGCAGATCACTGAGTGCCTCTCCGCATGGGCCGTGTGCTCCAATCTCTTCTGTATCTGCAG
Seq C2 exon
GTCTTCGAGACCTGCTGTTATCAGGGTGCTCATGGATAGCAGTGTCAGCACTTTGTAGTTCCAGCTGTCCTTTACTCCGAACTCTGGACGTGCAGTGGGCAGAAGGACTGAAAGACGCTCAGATGAGAGACCTCCTGTCACCGCCCACAGATAACCGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004225:ENSGALT00000006725:20
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=0.152
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTGTGACAAAAGATTATGGACC
R:
CTGGCCGGTTATCTGTGGG
Band lengths:
326-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]