RnoINT0078357 @ rn6
Intron Retention
Gene
ENSRNOG00000025702 | Kdm2b
Description
lysine demethylase 2B [Source:RGD Symbol;Acc:1310217]
Coordinates
chr12:39152366-39152776:+
Coord C1 exon
chr12:39152366-39152529
Coord A exon
chr12:39152530-39152614
Coord C2 exon
chr12:39152615-39152776
Length
85 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TGCCCTCTTCTCGTCTCTAGGGC
3' ss Score
12.42
Exon sequences
Seq C1 exon
GTGCTGCGATAAGCGGTTGTGGACCCGCATCGACCTGAACCACTGCAAGTCCATCACTCCCCTGATGCTGAGCGGCATCATCCGGCGGCAGCCGGTCTCCCTGGATCTCAGCTGGACCAACATCTCCAAGAAGCAGCTGAGCTGGCTCATCAACCGGTTGCCTG
Seq A exon
GTAAGCGTTTGGTGAAGGGCCCCAAGTGTGTAGTGATGGTGGCCTGGATGGTGTCACCTGACTCCTGCCCTCTTCTCGTCTCTAG
Seq C2 exon
GGCTCCGAGACTTGGTGCTGTCAGGCTGCTCATGGATCGCTGTCTCAGCCCTCTGTAGCTCCAGTTGTCCACTGCTCCGGACCCTGGATGTCCAGTGGGTAGAAGGACTAAAGGATGCCCAGATGCGGGATCTCCTGTCTCCACCCACAGACAACAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025702:ENSRNOT00000044071:13
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=0.200
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4)
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:
CACTGCAAGTCCATCACTCCC
R:
GAGACAGCGATCCATGAGCAG
Band lengths:
170-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]