HsaINT1017276 @ hg38
Intron Retention
Gene
ENSG00000173120 | KDM2A
Description
lysine demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr11:67248281-67250346:+
Coord C1 exon
chr11:67248281-67248370
Coord A exon
chr11:67248371-67250085
Coord C2 exon
chr11:67250086-67250346
Length
1715 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTTCTGGGCCTGTTTTGCAGAAG
3' ss Score
7.9
Exon sequences
Seq C1 exon
ATGGACGGAGAGGGGTTGCTTAACGAAGAATTGCCAAATTGCTGGGAATGTCCAAAGTGCTACCAGGAGGACAGCTCGGAGAAAGCCCAG
Seq A exon
GTAAAGGAACCTTATCAGATTTGCACTGTGACAGAAAGGAGGCATCAAATGTGGGGGATTGCTACACGTTTGCCTTTGCATTAGTGTTCACACAGTTTCTCTGACCTAGGAGATTATTTTTGTTTGGTTTGGTATGTTTTTCCTTTGGTTAATTTTTAGTATTTTCTTTGTTAGAGTTTGTAGCATTGTGTTTTGTATTACTAAATGTTGTTCCACTTGGGATCTGCAAATTCCTAAGGTCCTTTTATACTCTGGGGCCCTACAAAGAGAGGAACCACGGCTGGGCTATTTGAGGAGAGAAATTAGGTGAGTATGATCCCTCCTGAGGAATGTTAACTAGAGGAGAGGCAGTGGCCTGAGGCAGCCAGTGAGTGCAGCAGTGTACTTGAGCTTCCAGTTAAGCAGGTTCACATTTTTGTCATCTTCACTTTTGTGGCCTGGCAGAAAGCCCTGCCCTGCCCATCCCACATGCCCAAATGTGTCATGTGGAGGCAGCCCCTCCCCCAGAGAGGACCAGTGCTATGACCTTGGCCCAGAGGAGCTGAGGTTGCTGACCAGTGGTTGCCAATAATGTCAAAGGGCCAAAAGGACTGTACTTACTCAGGCTGACAAGGCAAGACCAGCTGTGGACACCTACAGGAGGAGATGGCTTTCCAAGTGCCAGTCTTTCAAGGACCCTTGCACGGGAGCAGGGAAGGGGGCAGAAAGGAATTTTCTTACTTTTTATTTCTTCCCACTTGGATACTAAGATAGTTGAATTTTTCAATCTATTTGTCTTTGAGGGCAAGGATTTTTGAAGTTGACTAGGGCCAAAGTTCTCCTTAGTTCTTGCACTAGTGACCTTTACATGTGTCTTCATTAGTGATGTTGAGTGTTTGCATCTCTGCTGTAGCAGATGTGTTGTTGGCAGATGGCTGTGTTTTAGTATTACCTTCTAATACATTGGAAAAGGTAGCACCCAAAAGGTGGTCATTTTCTTCCAACCATAATGATAAAAAAATGTAAGGAGGAAAAGGAGCAGAGAACAGGGTTGTTGCTTAGAGACATAAAATGTCTCCTTGCAAAAAACCTGAACTACTGATACGGTTCCTAGTGGAACATGTTTACTGGGCTTTGTCATAGCATAGTCATAGTGGGCTCCAGGAAAAGACAAGTATCTAGAGAGCACAAATGCCACAGATAAAGTTGGGGGCTCTTGTGGGATTCCTCACCATAATCCTGAGTGAATCTCTCTGTAGCAACCCAGTTTCTCAGAGAGGTTCTTGTTATCTGCTTTATTATTCACGTGGGGGTTGGAGTGGAAGACGCAGCCTGGTGGAGTCAAACTTAGACTGTGGTAGAGCTAGAAGCCAATGGTGTTTACCATTGTCAGACTCAGGATCTTAGTTCAAATGGTATATGTGGGCTTTTTCCACCATGAAACAGAAATACGTCTCTTGGGTGAAAGAGGTAAGTCAGAGACGCAATTAAAAATGGTCAGGCCAGGTGCAGTGGCTCACACCTATAATTCCAGCACTTTGGGAGGCCAAGGCAGGTGGATCACTTGAGCCCAGGAGTTGGAGACCAGCCTGGGCCGACTCTGAGGGAATGACCCCCTCTCCAACGTGACCTTTCTTCTCTCTGGTCCCCTGAGAGCAAGGGAGGTCCACCCTGTCGGTTCAGAGGGTTTGGAAGAAAGGAAGCACTGATGTTGCTTTTCTGGGCCTGTTTTGCAG
Seq C2 exon
AAGCGGAAAATGGAAGAGAGTGACGAAGAAGCTGTGCAAGCCAAAGTCCTGCGGCCCCTGCGGAGCTGCGATGAGCCTCTCACGCCCCCGCCTCATTCACCCACTTCCATGCTGCAGCTCATCCATGACCCGGTTTCCCCCCGGGGTATGGTGACTCGGTCATCCCCTGGGGCTGGCCCCAGCGACCACCACAGTGCCAGCCGCGATGAGCGCTTCAAACGGCGGCAGTTGCTGCGGCTGCAGGCCACAGAGCGCACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173120:ENST00000398645:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.710
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0064628=F-box=PU(72.3=14.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGAGAGGGGTTGCTTAAC
R:
CATGGTGCGCTCTGTGGC
Band lengths:
348-2063
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains