HsaINT0085021 @ hg19
Intron Retention
Gene
ENSG00000089094 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:13610]
Coordinates
chr12:121881483-121882075:-
Coord C1 exon
chr12:121881815-121882075
Coord A exon
chr12:121881597-121881814
Coord C2 exon
chr12:121881483-121881596
Length
218 bp
Sequences
Splice sites
5' ss Seq
CGGGTACGG
5' ss Score
8.92
3' ss Seq
CCCACTCCACCCCCCTTTAGGCC
3' ss Score
9.09
Exon sequences
Seq C1 exon
CAAAAGCGTGGCCCTGGCTTTAAGTACGCCTCCAACCTGCCCGGCTCCCTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAGGAACCTGCCAAGCGGAGGAGTGAGTGTGAGGAGGCGCCCCGGCGCAGGTCGGATGAGCACTCGAAGAAGGTGCCGCCGGACGGCCTTCTGCGCAGAAAGTCTGACGACGTGCACCTGAGGAAGAAGCGGAAATACGAGAAGCCCCAGGAGCTGAGTGGACGCAAGCGG
Seq A exon
GTACGGACCAGGAGGGGCTGGGAGGCAAAGGGGTTGGTCTGGCTGGTCCCGGGTGCTGGGTTGGAGGGATGGGGCAGGGGGTGGGCAGCAGGTAGAGCTTGGGATAATCCCGGCCTCTTGCTGCCCTGAGCAGGTCACCTAAGTCCTGAGAGCCCTGCCCCAAAGAAAGGAGGGGAAAACCAGCGAGTCACTCCTCTTCCCACTCCACCCCCCTTTAG
Seq C2 exon
GCCTCATCGCTTCAAACGTCCCCCGGTTCCTCCTCTCACCTCTCGCCGAGGCCCCCTCTAGGCAGCAGCCTCAGCCCCTGGTGGAGATCCAGTCTCACTTACTTCCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089094-KDM2B:NM_032590:16
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.983 A=NA C2=0.905
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCTTTAAGTACGCCTCC
R:
GAGAGGTGAGAGGAGGAACCG
Band lengths:
293-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)