HsaINT0085021 @ hg38
Intron Retention
Gene
ENSG00000089094 | KDM2B
Description
lysine demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr12:121443680-121444272:-
Coord C1 exon
chr12:121444012-121444272
Coord A exon
chr12:121443794-121444011
Coord C2 exon
chr12:121443680-121443793
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:ENST00000377071:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.995 A=NA C2=0.891
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