DreINT0085306 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21468804-21469225:+
Coord C1 exon
chr14:21468804-21469057
Coord A exon
chr14:21469058-21469147
Coord C2 exon
chr14:21469148-21469225
Length
90 bp
Sequences
Splice sites
5' ss Seq
AGGGTACAA
5' ss Score
1.91
3' ss Seq
ATAATTTGTTTTCTCAACAGAAA
3' ss Score
9.17
Exon sequences
Seq C1 exon
GACTGAAAAAGGAGGATGTAATTAAACCAGCTAAACCTGATGGGGATTCTGAAAGTGAAGATGAGGAGGTGAAGGAAGAGCCGGAAGAAGAGGCAGTCACTCCTCCTGCCCGTCCCGGGGTGAAAGTTCATCTCGCACCCTTTGAGTTGGAGGGCCTTTGGGCATTACTGCATAAGTTGGAGGATTTGCCAGCACACAAGAAATGTGTTCCAGCAGGCATCAGAAACGCCCCAGCACTGCTTAGCGACATAAGG
Seq A exon
GTACAAGTATAAACGCCATATAACCATCCAAATACTGTTGTTGTTACTAATTAATTTTTTTAAGCTCAACATAATTTGTTTTCTCAACAG
Seq C2 exon
AAACTGCTGGAAGAACACGCCAATGATAACCCCAAACTGTCTTACACTGGAAAACCAATAGTCAAATGGCCCAAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.376 A=NA C2=0.577
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCGGGGTGAAAGTTCATC
R:
TCATTGGCGTGTTCTTCCAGC
Band lengths:
169-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]