DreINT0085310 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21473141-21473577:+
Coord C1 exon
chr14:21473141-21473221
Coord A exon
chr14:21473222-21473313
Coord C2 exon
chr14:21473314-21473577
Length
92 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGC
5' ss Score
9.12
3' ss Seq
TTTCTTTTTCCCCCTATAAGTCT
3' ss Score
5.49
Exon sequences
Seq C1 exon
GTTCCAGGTGAGGGTGTTATCAATAAGGACCTTCCCAGTTGTTGGGAATGTCCTAAATGTGTCCAGGGCAAGAAAACTGAG
Seq A exon
GTATGCTTTCTACTATTTATCACCCTTTTAAGCAGTCACTTTTGGAGCAGAATTATATCTTCTTCTTTTTTTTTTCTTTTTCCCCCTATAAG
Seq C2 exon
TCTTCAAGTAGCAGTGAAGAGGAGACAGACAGCAGTGTATCCAACAGCAGTCGATTATCTGGTCCTCCAGCTAAGCGAGCATACAGAGAAGGCATTGGGGTGGAGGGCTTGCGTATCGCTCGCAGAGGTCGTTCCTCAATCTCCCCCTCATCCCTGCCAATAACCCGCTCCAGACGCCAGCCACCTCCTTCACAGAGACTCCTGCTGCAGCACCAGCAGAACCGGAAGAGGGCAGGAGCGCTGGAATTACAGCTCAGGAAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:16
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=0.864
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(36.7=81.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGTCCAGGGCAAGAAAACT
R:
GAGGGGGAGATTGAGGAACGA
Band lengths:
173-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]