DreINT0085316 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21477059-21477671:+
Coord C1 exon
chr14:21477059-21477205
Coord A exon
chr14:21477206-21477458
Coord C2 exon
chr14:21477459-21477671
Length
253 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCATATCTTCGCATCTGCAGGCA
3' ss Score
8.62
Exon sequences
Seq C1 exon
GCCTTAAAGATCTGGTGCTATCAGGGTGTAACTGGTCGTCAGTTTCAGCATTGAGCTCTCCAAGCTGCCCTTTACTGCGCTCTTTGGACCTGAGCTGGGCCGATGGCATCAAAGACGCACAAATCAGGGAGCTGCTGAACCCACCAG
Seq A exon
GTAATGAGAGCTAAGAAGTTTATAGAACTGCTTCGTTCTTTGCTATTTTCCTGTTTGAGAGATAATTAAAACTAAATTGCCCTTTTTTACTCGCCTTCAACTGGTTCCAAACCTAAAGGTAGCTTGTGTGCATTTATGGTACATAAATAATTAAACAAGTTTTAGATGCATGGAAATTTGGTAGAAATGTGTTTAACACAACATCATAAATTTCCACCCCTTTAAAAAAAAACTCATATCTTCGCATCTGCAG
Seq C2 exon
GCAGTGACAACCGTTCCCAGATGAAGAACATGCAGTGTTTGTGGCTGTGTGGTCTGGAGGTGACTGAAGCAACGCTGAGGCTGATCATCAGACACATGCCTCTGCTCACACGCCTGGAGCTCTCACGTTGTCCAATCACAGATGGTGCTCTTAACCTCCTCAGCGCTGTGGGCTCCTCCACACGCAACACACTCACACACCTCAACTTAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF138551=LRR_8=PD(58.6=68.0)
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:
TCAGGGTGTAACTGGTCGTCA
R:
CACAGCGCTGAGGAGGTTAAG
Band lengths:
297-550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]