RnoINT0078358 @ rn6
Intron Retention
Gene
ENSRNOG00000025702 | Kdm2b
Description
lysine demethylase 2B [Source:RGD Symbol;Acc:1310217]
Coordinates
chr12:39152615-39153579:+
Coord C1 exon
chr12:39152615-39152776
Coord A exon
chr12:39152777-39153360
Coord C2 exon
chr12:39153361-39153579
Length
584 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTCCCATCTGTCCCAACAGGTC
3' ss Score
12.81
Exon sequences
Seq C1 exon
GGCTCCGAGACTTGGTGCTGTCAGGCTGCTCATGGATCGCTGTCTCAGCCCTCTGTAGCTCCAGTTGTCCACTGCTCCGGACCCTGGATGTCCAGTGGGTAGAAGGACTAAAGGATGCCCAGATGCGGGATCTCCTGTCTCCACCCACAGACAACAGGCCAG
Seq A exon
GTGAGTTGCTGGGCTGGGGCTGTACCCTAAGCGTCTGTCCCATGGACATGAGGTGACCAAAGTACCCTGTTCTATTTTGACCACAATCACCTACTGTCCTGCCCCAAGCTTCCTCTGGCCTCAGCCCTTTGCTGGAAGATACAGGGCAGAATGTCATTAGGGTGTGAGGGTGTGGTCCCAGGTCAGCTGCCTGGGTGCCTCCCGATCCCCCAGCCAAAGCTCAGATGAGGATGTGTATAAAGTGAGGTGACAGCAGACAAGGACAGTGGGCCATTCCTGCACCAGCCAAGGTTTTGGTTTTCCATGAAATTTAGGCTCTGTTTCTGAGATTTCTTGATGGTAAAGGCAAAGACCAGCTTGGACTTAGGACTGCTAGAATAAAGTGCAGTGAAAACAGCCAGGCCTGAAGACAAAGCTCCCAACCGGTTATGAATTCTCATTGCTCTGTAGAGGATCTAGAAGTACAGGTTCTGATGTGGAAGCTTCAAATGCCGAGATTCCGGCTGTGTCGTTGGGTACACTTCCTGATGTGGGTCTTCCCTATAGAGGCTGATGGGTCGCCTCTCTCCCATCTGTCCCAACAG
Seq C2 exon
GTCAAATGGACAATCGGAGCAAGCTCCGGAACATTGTGGAACTGCGCCTAGCTGGCCTGGACATCACAGATGTCTCCCTGCGGCTCATTATTCGCCATATGCCCCTGCTCTCCAAGCTCCACCTCAGTTACTGTAACCACGTCACTGATCAGTCCATCAACCTGCTCACTGCGGTCGGCACCACCACCCGGGACTCTCTGACAGAGATCAACCTATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025702:ENSRNOT00000044071:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
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:
CTGTCAGGCTGCTCATGGATC
R:
CTGTCAGAGAGTCCCGGGTG
Band lengths:
349-933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]