DreINT0085334 @ danRer10
Intron Retention
Gene
ENSDARG00000036593 | kdm2ba
Description
lysine (K)-specific demethylase 2Ba [Source:ZFIN;Acc:ZDB-GENE-040426-2195]
Coordinates
chr8:40208918-40209520:-
Coord C1 exon
chr8:40209357-40209520
Coord A exon
chr8:40209080-40209356
Coord C2 exon
chr8:40208918-40209079
Length
277 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
ACCAGTCTGTTTGGGTTCAGGAC
3' ss Score
7.36
Exon sequences
Seq C1 exon
GTGCTGTGACAAGAGATTATGGACCCGTATAGATTTGAAGCGTTGTAAGTCCATCACTCCACTCATGCTAAGTGGGATAATTCGCAGGCAGCCCATCACTCTGGACCTGAGCTGGACTAACATCTCCAAGAAGCAACTAAGCTGGCTAATTAACCGATTACCAG
Seq A exon
GTCAGCATCTGTATAAGCATGTATGTAAATCAGTGGCCCCATCTCAAGTCATTGATGTACACAGCGCTGCACAGTTTAGCTCCAACCACCTCCAACTCACACCTGCTTAAAAGTCTTTGGTAGTCTTGAACACCTTGACTAGTTGGATCAGCTGTGTTTGACTAGGATTGGAGCAAAACTGTGCAGAGCTGCAGCCCTCCAGGAATTGAGTTTGAGACCTGTGATGTAGATCTACATGCATAAAGGGGTGTCTAAACACCAGTCTGTTTGGGTTCAG
Seq C2 exon
GACTAAGAGTTCTCCTCCTGTCGGGTTGTTCATGGGTGGCCGTCTCGGCTCTCTGCACATCCAGTTGTCCTCTACTTCGCACACTTGACCTGCAGTGGGTGGAAGGGCTAAAAGATCCCCAGATGAGAGACCTGCTTTCCCCTCCAACTGACAACAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036593:ENSDART00000053158:9
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=0.218
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4),PF138551=LRR_8=PU(40.4=41.1)
A:
NA
C2:
PF138551=LRR_8=PD(57.9=60.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCCGTATAGATTTGAAGCGT
R:
GTCAGTTGGAGGGGAAAGCAG
Band lengths:
296-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]