HsaINT0085014 @ hg38
Intron Retention
Gene
ENSG00000089094 | KDM2B
Description
lysine demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr12:121578802-121580984:-
Coord C1 exon
chr12:121580786-121580984
Coord A exon
chr12:121578947-121580785
Coord C2 exon
chr12:121578802-121578946
Length
1839 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCTGGTTTGGGTCCTCGCAGCGC
3' ss Score
7.02
Exon sequences
Seq C1 exon
AAAAGTTAGGCAGTCCTTATAGGTATGGAAGCCGAGCTAATTTCCTTCTGAGCCCCCCAAATGCCTCCTCCACATGGCGGGTCCGCAAATGGGGGGATCTGCAGAGGATCACCCCCCACGAAAAAGACATGCAGCAGAAAAGCAAAAAAAGAAAACAGTTATATATACAAAATGCTTTGAATTTGAGTCGGCCACACAG
Seq A exon
GTAATGTTGGGGGAGGGGTGGATGAAAGAAGAGGAAGAGGGGTAGCCCTGGGCAATGAGGGCAGGAACGGAGGTGGGGGGTCGTTTTTGGGGGTGCCAGGCCCCGGGGGCTTTCACGCCAGCATGCTCGGCTTGCATTTCCGCGCCTCCCGCTGAGGCCAGCCGTGCAAATCTGCACCTCCCTCCCCGCCCCCTCCTCCTTCCCTCCCTCCCTGCCCCGCCATCTCCGGGATGCGCCCGCCGCCTGCAACTCGGCCCTCCAAAAGTCAGCTCTGCACACAACTCCCGGGCGGCGGCGGCGCCTGCGTGCAGAGGCGCACTCGTGACCCAACAACAAAACAGCGATGCCACGGCGCTAACGGCGCCCGGTGCCTCCCGGGCTCCCTCCCCGCCCCATACCTCCTCGGGCCGCCGCCCCCACCCCCCCAAGCCCGGGCCGAGAGCCCCCCCAAATAGCCCGGCCGCGGGCTCCGAGCGCGATCGGCAACAATGTTTACGTTCCGGGGATTATGACGTCGACGCCTCCCCCCCCCCACAACTGCTGAAAATGGTTTCCTAGGACTTTGCAAACGGATCTGCCTAAGTGTTGGTGCAAAACTTTGTAGATCTCGGCTCTGGCTTGCTTTATTTATTTATTTTTTGGTTTGTTTTCTTTGGTCTTCCCTCCTTCCCCCCTCGGCCAAAATGCAGGGGGCAGGAGTGTTGACAATTAATTGGTGAACTCTCCTAAAAAAATGGAGGCAGAGAAAGACTCTGGAAGAAGATTGGTGTGTAGCTTTTTTTTTTTTTTTTTTTTTCCAAATCTGTATCTGGCATATGATAGATCTTTTTTTTTTTTTTTTTGGTTGTTTCTCGCTGCCTTTTCTTTCCTTTTCTGTATTTTGCAAGAGGACCGGGAAAAAAATATAATAAATTGCATGCAAAAGGAAGCAAGCTGCTTACTCCTCCAGCCCCTTGTGAGGCTTAGAGTCTCAGACACTTAAGTGGGGAGGTGGTATCGGGGAAAGGCGTGGAGGGGGGCTGAGCGGGCTCGGGGTTCGCCCGGAATCTGGGGGGCTGAGGGGCCGGGCGCTGGGCGGTGGAGGGAGGAGGCAGGGGGATGCGGGGAGTGGTGGGGGAGTCTCCTTAGGAAGTGAGTGTGCGCGCGCGCTTGTGGGGAGATGAGGCAGCTGCTGGTGCGTTTTGGGGTCTCCGATCCGAGCTTTGTGGCGGGCCGTCTGCCTCTCCCCCTTCCAAGCCCCGATTCTCCTCCCCCCACCTCCTCTTCTTGCACTGGCGGGCGGGCGGCGGGGGCGGCTGGGGTCTCAGCCCTTCCATTTCAGCTTTCCAGCTTCCCCGGTAGCTCGGGGGCGGCTCCAGCTTTAGAAATGCCGCCGGCCCCCGGTTCCGGCTTCCCGGCTCTGCCGCCGCGGCCGCTGGGGCTGCTGTTACCGCCGAGCCGGGCGCCGCAGCGGCTCCTCCTGGGGCCTACATTTGCCCCGCCAGCCCGTGTCCGGAGCCCCCTTCGCGGGTTACATAACCAGGCTCCCGGCCGAGTGGGCGAAGCCCAGCACATTTCGGGGGCGGGGGGCAGGGGAGGGTCCCCAGATGTCCCTTCAGTGCTTCCGAAGACACCGGAGGGGAGTACCCCGCGTAGAGCGCAGCTGGACCCTCGGGGTGCGGGCCCCTCTCCTTGTCCTGCTTTTCAGCATCTTTGGCAATTGCGCAAAGTTGCTTGGGTTGCAATGGTGGGGTGCAGGGGGCGCTCGGCTGCTGCACCTGTTAGTGCTGGGCCCAGGTTGAGAGGCGACCTCCAGCCCCCACAATAATGTCCCGGGCTCTCTGGTTTGGGTCCTCGCAG
Seq C2 exon
CGCCCGATTGACCGCCAGCGATACGACGAGAACGAGGACTTGTCGGACGTGGAGGAGATCGTCAGCGTCCGCGGCTTCAGCCTGGAGGAGAAGCTTCGCAGCCAGCTGTACCAGGGGGACTTCGTGCACGCCATGGAGGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089094:ENST00000377071:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.147
Domain overlap (PFAM):
C1:
PF136211=Cupin_8=PU(6.1=45.2)
A:
NA
C2:
PF136211=Cupin_8=FE(15.3=100)
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:
AGTTAGGCAGTCCTTATAGGTATGGA
R:
CTCCATGGCGTGCACGAAG
Band lengths:
334-2173
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development