DreINT0085326 @ danRer10
Intron Retention
Gene
ENSDARG00000036593 | kdm2ba
Description
lysine (K)-specific demethylase 2Ba [Source:ZFIN;Acc:ZDB-GENE-040426-2195]
Coordinates
chr8:40208603-40209079:-
Coord C1 exon
chr8:40208918-40209079
Coord A exon
chr8:40208822-40208917
Coord C2 exon
chr8:40208603-40208821
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
ATTTATGTTGTCTCTAACAGGTC
3' ss Score
11.64
Exon sequences
Seq C1 exon
GACTAAGAGTTCTCCTCCTGTCGGGTTGTTCATGGGTGGCCGTCTCGGCTCTCTGCACATCCAGTTGTCCTCTACTTCGCACACTTGACCTGCAGTGGGTGGAAGGGCTAAAAGATCCCCAGATGAGAGACCTGCTTTCCCCTCCAACTGACAACAGACCAG
Seq A exon
GTAATAAACAGCACTCTAGATCAGTACGCACAACAAAAAACAAAAGTAATGAAATATATATATATACTCATTCACTATTTATGTTGTCTCTAACAG
Seq C2 exon
GTCAGATGGACACCCGCAGTAAACTAAGAAATGTTACAGACCTGCGTCTAGCTGGTTTGGACATCACGGACAGCTCTTTACGTCTCATCATTAAAAATATGCCTCTACTCTCCCGTCTGGACTTGAGTTACTGCAACCATATCAATGACCAGTCGGTAAACCTGCTGACTGCTGCAGGAACCACAACTAGAGACTCCCTTACTGATGTCAACCTTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036593:ENSDART00000053158:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.218 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF138551=LRR_8=PD(57.9=60.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCCTCCTGTCGGGTTGTT
R:
TTACTGCGGGTGTCCATCTGA
Band lengths:
175-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]