HsaINT0084992 @ hg38
Intron Retention
Gene
ENSG00000173120 | KDM2A
Description
lysine demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr11:67119269-67121358:+
Coord C1 exon
chr11:67119269-67120049
Coord A exon
chr11:67120050-67121233
Coord C2 exon
chr11:67121234-67121358
Length
1184 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CTTATATCATTATTCTTTAGTGT
3' ss Score
6.83
Exon sequences
Seq C1 exon
GAGTCTGACGGGTTCAAAATGGCGGCGGCTGCTTCAGCGGCTCCTCCTGTGTGAGGGAAACAACACCCCTCCCCGGCAGCGGCGGCGGCGGCGGCGGCTCTCGGAGCACCTTCCCAGCGGCTGGGCCCGTGGCCGCTCTGTCTTTCCTGGGCAGGGGACGCTCCGGGAGGAGGGGCAACGCCAGGGGGCCCATCCCCCGGAATCCCTCTTCTGCGACTGGGGAGTAGCCGGGGGGCTCGTCCCGCAGCGCGGAGCCAGACCTGAGGGGGAGACGCGAGGGGAGCCAGGGCCCCCATCCCGGCGCGCCGCGCCGCTCCCGCCCTGTCCGCCCCCCGGGGCCGGGGCCCGCGTTCCGGGGGGCCGGGGCGGCGCGGGGAGCCTCGGGCCGGCCGGTCTCAGCTGATCGGCCGCTGCTCCCGCAGGCGACCAGCCCCTGCTGGCCGAGGGCACGGCGAGGAGGGCGCTCCCTGCGGCCGGGGCCGGCCCGGGGCTCGGGCCCGGGCTGCTGACCGCTGGCCTGGGGGAGGCGGGGGCGCCCCGGGCTCGGCGCCGAGGGGTCGCGCTCCTCTCTCCTGACGCCTCCGACTCCCGGTCTCCAAAGCCAGAAGAGAAGGTTTGATTCAGCAACTGTTTGCTCCCTTTTCCTGGTCGCTCTGACCCTCTCTGGATACTGGGTTGATCCACGGAAAAACCGAAGACGACGTTTGGGATTTAATTATTCCTCTCAGCTTTGGAATCTTTTACTTCTCACTTGGACAAGAACTCAAGAGCAGAATCTCCG
Seq A exon
GTGAGTTTCCCCCTCCCCCCCCTCATTTGGAAGTTTGGTTGACTGTGTTATCCAAAGACTGAATGCAAAGTTTCTATCTCTTTTTCCGATGGGTGAACCATTGAAACGCCTTTTCCTGGGGGAGCCCAGCGAGATTCGCCCTTTTTCCTCTCCGGCCCTGGCTGCTCCATGCCCAGGCGGTCGTCGCCCAGGGGGTGCAAGCACGGTTTCCCTCCCGACTTCGGGCCAGGGCTTCCTCCGGGAGGGCTCTGCCTCTAACTGCTCTGCAAACTGTGTCATCGGGTCCTCTGGTCTCGTAGCAGTTTTGAAAGGATGCTGTTAACGTGGCTGTAATGTAGTGACAAAAACGGGGGGAACCTGTGTTCTCAATGGAAGCCATTATCCACGAGAATATTTAGAAAAAAGAAAACCCTTTCTTGGTATTACGGATTGACCGTCGCGCCGGCCGGTCTTTTATTTAATTTTTGGACAAGATGTATTTTCCTTGTATCCTTAGATGCAATCGTTTATTTTATTACTTTATCCAAAAAGATCAGATGGAATTTTGGTCCTTGATTTGCACCTCTGAAATTTGTTTCAGAGTTGTGCACATCTTGTGTTGGGGTGGAGGGTAGATTTGGGAATGATAAGATCCGGGGAGTCTAGAAAGGAAGGCGACGATTGTGCACGGCCTTACAGGAGGGGTATGGGAAATTGTTTTGGGGTCATTTAAATCCTAATTTTTTGTCCTCTTTTTACATAGTCAGTTTGCCCTTCTTTCCTTTAGTTTCTGATTACCGGTGAGAGAGAACTAATTTGGTTAGGATCTGGATTAGTTCAGTGGTGCTTCACCTGGTCAGCTCTCTGGAGATAAAAGTCCTGGGCTTTTTTTTTTTCTTGCTGATGCTGCCATGAAGGAGATCCTTGCTAGTTGTAATCCTGTGGGGAGAAACTGGTGGTGTGGCCCTTCCACAAGGAACTGAAACCAACATCTCGTTTCGTCTAGGCCTCCGACAGTTGTAATGTGATTAATGTTGAACATGACATGGAACCACTTGCCCAAGAGCAGAAAGGTCCCAAACTCATGAAGAGGAACCTGATTTTTCAGAGAGCCTTTAACACTTACCTTAAATACTCCTTTCCGTGAACAGAAAGCACAAGTTTGAGAATGAGTTCTCATTTCTGCTTATATCATTATTCTTTAG
Seq C2 exon
TGTTGCAATCTGGTTCCTAAGGAGGAAGAGGAAGGCAGCCCTGGAGTGGTTTCTTTACAGTAATTTCAACAGAAGAGTGAGAGATGGAACCCGAAGAAGAAAGGATTCGTTACAGCCAGAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173120:ENST00000398645:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.696
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTCTCTCCTGACGCCTC
R:
ATCTCTGGCTGTAACGAATCCT
Band lengths:
342-1526
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