RnoINT0078367 @ rn6
Intron Retention
Gene
ENSRNOG00000025702 | Kdm2b
Description
lysine demethylase 2B [Source:RGD Symbol;Acc:1310217]
Coordinates
chr12:39149688-39150277:+
Coord C1 exon
chr12:39149688-39149948
Coord A exon
chr12:39149949-39150163
Coord C2 exon
chr12:39150164-39150277
Length
215 bp
Sequences
Splice sites
5' ss Seq
CGAGTACGA
5' ss Score
3.61
3' ss Seq
CCTCTTCCCACCCCCTTTAGGCC
3' ss Score
10.11
Exon sequences
Seq C1 exon
CAAAAGCGTGGCCCTGGCTTTAAGTATGCCTCCAACTTGCCTGGCTCCTTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAGGAGCCTGCCAAGCGGAGGAGTGAGTGTGAAGAGGCCCCCCGTCGCAGGTCAGACGAGCACCCCAAGAAGGTGCCTACAGATGGCATCCTCCGCCGAAAGTCTGACGATGTGCACCTGAGGAGGAAGCGGAAATACGAGAAGCCCCAAGAGCTGAGTGCACGCAAGCGA
Seq A exon
GTACGACCTGGGAAGGCCTGGGTAGCAAGCAGAAGGGTGGTGTGGCTGGTCTTAGGTATGGGGGTGTGGGGTGGGGACCAAGGAAAGTTAATGGGTACAACCCGGGAATCCTGGCCTCTTAAGAGCTGCCCTGAGCAGGTCACCCAAGTTCTGAAAGCCTGGTCCAAAAGAAAGAGAAAAGCCAGCGAAGTCACTCCTCTTCCCACCCCCTTTAG
Seq C2 exon
GCCTCGACGCTTCAAACGTCCCCCGGTTCCTCCTCTCACCTCTCGCCGAGGCCCCCTCTAGGCAGCAGTCTCAGCCCTTGGTGGAGATCCAGTCTCACTTACTTCCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025702:ENSRNOT00000044071:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.921
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:
GAGCAGAAGATGAACCGGGAC
R:
AGACTGGATCTCCACCAAGGG
Band lengths:
299-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]