HsaINT0085004 @ hg38
Intron Retention
Gene
ENSG00000173120 | KDM2A
Description
lysine demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr11:67180079-67181398:+
Coord C1 exon
chr11:67180079-67180217
Coord A exon
chr11:67180218-67181319
Coord C2 exon
chr11:67181320-67181398
Length
1102 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
ATATTTTCCTATGGTGACAGATT
3' ss Score
6.04
Exon sequences
Seq C1 exon
CGTGGTACCATGCGACGACGCTATGAAGATGATGGCATTTCAGATGATGAAATTGAAGGAAAAAGAACTTTTGACTTGGAAGAGAAACTGCACACCAACAAATATAATGCCAATTTTGTTACTTTTATGGAAGGAAAAG
Seq A exon
GTCAGTATTGTTTTGGTTCCAGCTTACAGTCCTTTGATGTGGGAAGCCATAGACTCTGAGCATTGGGGGTTTAGCCTTTATCCAGCTAAAATATTGCCTGTTGATGTTATCTATCTATTTTCTCTTGTTATACAATGCCATTTGCATGCACTTATCCCCCAGTCCTCCCACCCTGTGAGTCATTCTCTCCTATATTAGAAGTAATCTTTTTATTAGGGCAGGAGTATTGTTGGATTTTTTTGCCTAACGGCCTCTTCCTCCTTCTTCTATCCCTTGGTTTAAATTTAATTAAAAATAGTACAATAGAAATCCTTTTATGTATATATCTACCCCACCAAAACTGAGGGTGGGATTCCATGCGCACCGTGCATCTTTGATCCTTGGCAAACTGACAAGGATGTCATATATGTATTGTAGTGGTCAAAATTAATGTTTTGTTTACTTTTTTTTTTGGAGACGGAGTCTTGCTGTGTCACCCAGGGTGGAGTGCAGTGGTGCGATCTCGGCTCACTGCAACCTCCGTCTCCTAGGTTGAAGCAATTCTCCTACCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACGTGCCACCACACCCGGCTAATTTTTTTTTTTTTTATACTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTGAGGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGTATGAGCCACCACACCTGGCCCTTTTTTTTTTTTTTTTAACTCTTCAGAGACAGGGTGATGATAATTTCTGTTTAGCATTTATAAGATGACTCACTATTAGTAGTCCTATCCCCATATTATTTAAGCTCTAAATTTCCTGTGGAAATTTAGACTTGGAATATAGACTTGGAAAACCCCTCAAGCGTTGCTTCTCAATGTGCTCTCCATATTTTCTAAGAGATGCTTCTTACTAAGCATATATTTTATTGACTAACAGCATAACTATATACACAGAATAACAAACACCATTTATACTGTATTACTTAGGATCCTTTTTATGGTCCTTTTATCGTTTTTAATTATACCACTTATCTTTCTAATATTTTCCTATGGTGACAG
Seq C2 exon
ATTTTAATGTAGAGTATATTCAGCGGGGTGGCTTGAGAGATCCTCTGATTTTCAAGAATTCTGATGGACTCGGAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173120:ENST00000398645:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.210 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGTACCATGCGACGAC
R:
TTCCGAGTCCATCAGAATTCTTGA
Band lengths:
214-1316
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