HsaINT0085027 @ hg19
Intron Retention
Gene
ENSG00000089094 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:13610]
Coordinates
chr12:121877660-121878780:-
Coord C1 exon
chr12:121878619-121878780
Coord A exon
chr12:121877879-121878618
Coord C2 exon
chr12:121877660-121877878
Length
740 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTCCTTCCTGCCCCACCAGGTC
3' ss Score
10.9
Exon sequences
Seq C1 exon
GGCTCCGGGACTTGGTGCTGTCAGGCTGCTCATGGATCGCGGTCTCGGCCCTTTGCAGCTCCAGTTGTCCGCTGCTCCGGACCCTGGATGTCCAGTGGGTGGAGGGACTAAAGGATGCCCAGATGCGGGATCTCCTGTCCCCGCCCACAGACAACAGGCCAG
Seq A exon
GTGAGTTGCCAGGCTGGGGGTTTCTGTGGGGGTGGGGTGAGCGAGCTAGACTGTTGGATCTGCTTTTACCCTCAGACCCCAGCTGTTCCCCAAAGGACATAGGGATGAGTCTCTGCTGCCATGTTCTCAGTTTGCTTCAGGCACAGAGGGGATCTGGGAGGAGGCAGGGGCTCCTGTGCACACGTGAGACTCGCTCCTGGGGCTCCGCGTGCGTCTCTCTGCTTTCCTGTTGACTCGCTCATGGGGCTCTGCGTGTGTCTCACTGCTTTCTTATTGACTCGCTCATGGGGCTCTGCGTGCATCTCACTTCTTTTCTGTTGACTTGCCCCTCGTTGGTTTCAAGCCTCCACTGCCATCGGGATCAGTGTGGTTGTGCAAAGGCTTCCAGGATGGCACCTCCCCCTGGACTGGGCTGGACTGCCTAGGTCCGTGCTTCTCGCCAAGCCATGGGGATCGGAGATGCTGCGCAGCCTCTGCACTGGTTGGCTGATGACTACTGGGTGGAATGTGGGCATAGTGTTTCTAGGTCTTTTAGTTTTTCAAGAGAATCTGAAAATCTAAGTTTTGATGTGGAGTCTGATTTTTCACTGTTGGAATTATGATTTTGGGAGGAAGCAGTTTATAACTAAATGAAATCTGAGTGTTCTGTCTGGCTGGTGGGCCTTTTAGAGTGTCATGTCAGCATGACCAGGCCTCCTCGGTCAGATTGACGGGTTGCCCCCTCCTTCCTGCCCCACCAG
Seq C2 exon
GTCAGATGGACAATCGGAGCAAGCTCCGGAACATCGTGGAGCTGCGCCTGGCAGGCCTGGACATCACAGATGCCTCCCTGCGGCTCATCATCCGCCACATGCCCCTGCTCTCCAAGCTCCACCTCAGTTACTGTAACCACGTCACCGACCAGTCTATCAACCTGCTCACTGCTGTTGGCACCACCACCCGAGACTCCTTAACCGAGATCAACCTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089094-KDM2B:NM_032590:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF138551=LRR_8=PD(57.1=58.2)
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:
CTGTCAGGCTGCTCATGGATC
R:
CTCGGTTAAGGAGTCTCGGGT
Band lengths:
351-1091
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)