DreINT0085319 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21462042-21462281:+
Coord C1 exon
chr14:21462042-21462120
Coord A exon
chr14:21462121-21462234
Coord C2 exon
chr14:21462235-21462281
Length
114 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGG
5' ss Score
3.77
3' ss Seq
TTTTCTTTTCTTTTTTGTAGGAT
3' ss Score
12.45
Exon sequences
Seq C1 exon
ACTTCACCTTGGAGTACATCCAACGGGAGGGTCTCCGAGACCCCATTATCTTCAAGAAAGCAGATGGTCTTGGCATAAA
Seq A exon
GTATGGCTCATTTCATCATGCTGTTCTCTTCTCTTTATCAGTCAATAATGAATTCATTTGAAAACAATTGCCTATTTTTTGTGTGTGCGTGTCTTTTTCTTTTCTTTTTTGTAG
Seq C2 exon
GATGCCTGACCCAGACTTTAGCGTCAGTGATGTGAAATTATTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:4
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCCGAGACCCCATTATCT
R:
ACAAATAATTTCACATCACTGACGCT
Band lengths:
94-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]