HsaINT0085020 @ hg38
Intron Retention
Gene
ENSG00000089094 | KDM2B
Description
lysine demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr12:121444012-121444536:-
Coord C1 exon
chr12:121444450-121444536
Coord A exon
chr12:121444273-121444449
Coord C2 exon
chr12:121444012-121444272
Length
177 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTCTCTTTTTGGCCTACAAGCAA
3' ss Score
3.03
Exon sequences
Seq C1 exon
ATTAAGGAGTCAGAGGGTGTGGTCAACGACGAGCTTCCAAACTGCTGGGAGTGTCCGAAGTGTAACCACGCCGGCAAGACCGGGAAA
Seq A exon
GTGAGTGCCGGGCTCCAAGTCCCAGGGTCAGTCGGGAGAGGGGCGGGCCTGGGCCTGGCCGGGACCAGCCTGTCCCAGGAGTTTCAGGCAGGTGGGTTGCCGTCGGCCTGGGGAGGAGGAAGGGCAAGTCCAAAGGTATACAGTTGGTCTGTTCATTCTCTCTTTTTGGCCTACAAG
Seq C2 exon
CAAAAGCGTGGCCCTGGCTTTAAGTACGCCTCCAACCTGCCCGGCTCCCTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAGGAACCTGCCAAGCGGAGGAGTGAGTGTGAGGAGGCGCCCCGGCGCAGGTCGGATGAGCACTCGAAGAAGGTGCCGCCGGACGGCCTTCTGCGCAGAAAGTCTGACGACGTGCACCTGAGGAAGAAGCGGAAATACGAGAAGCCCCAGGAGCTGAGTGGACGCAAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089094:ENST00000377071:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.995
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(35.4=79.3),PF0030115=Rubredoxin=PD(60.0=93.1)
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:
AAGGAGTCAGAGGGTGTGGTC
R:
CCTTCTTCGAGTGCTCATCCG
Band lengths:
247-424
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