BtaINT0080131 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044032 | KDM2A
Description
lysine (K)-specific demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr29:45812343-45813259:+
Coord C1 exon
chr29:45812343-45812612
Coord A exon
chr29:45812613-45813127
Coord C2 exon
chr29:45813128-45813259
Length
515 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
CTGTCTTTGTCCTCTTATAGCCC
3' ss Score
10.66
Exon sequences
Seq C1 exon
CTTAAATTCCCAACCCGGCCAAAGGTGCGGGTTCCTACTATCCCCATCACAAAGCCTCACACTATGAAACCAGCGCCGAGGTTAACACCTGTGCGCCCAGCCGCTGCTTCTCCCATCGTGTCTGGAGCCAGACGGAGACGAGTGCGATGTCGAAAATGCAAAGCCTGCGTGCAGGGAGAGTGTGGTGTTTGTCACTACTGCAGGGACATGAAGAAGTTTGGGGGGCCTGGTCGCATGAAGCAGTCCTGTGTTCTCCGGCAGTGCTTGGCA
Seq A exon
GTGAGTGATCTGCTGGGTAAAGAATATGGGGGAGGGGTGTGGTGCCGGGGGTGGGGCTGGAATATACATATAGTATAGACCCGCAGAGCTGGAAAGAAGATTCTGCTGTCTATGGCTTTTTTCATTTTGCCCCTTTTGTCTCTGGATTTAGAAGGAAGATGTCTGATATTTAACATAATCTAATTTTTGCCTAATTTTCAAATGAGAGACTAGTGTTTGAAGGACAGATCACTGCAGTCCGTTCCCTCTTTAAGTGGATTAGAAAGGAAGGACCTGGGAGGCCAAGGATAGGCCAACTGAAAATAAACTGATCCCTGTTGGTCTCTACTCAGCTGGTTGACTCTTCCTATCTTCCTTAGTCATTTTCCTGCCAAAACCTCTCTTCTCTCCACCTCATCTCCATTCTCTCTTAAGTGTTTACTGGAGAATTGCAGGAACCAAATTGTCCACCTTCAGTTAAAGGAAAGCTGAATGATAAGGATCTAAGCTTGGTTTCTGTCTTTGTCCTCTTATAG
Seq C2 exon
CCCAGACTGCCTCACTCTGTCACATGTTCCCTCTGTGGAGAGGTGGATCAAAATGAGGAGACACAGGACTTTGAGAAGAAACTCATGGAATGCTGTATCTGCAATGAGATTGTTCATCCTGGCTGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044032:ENSBTAT00000061554:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0200815=zf-CXXC=WD(100=52.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACACTATGAAACCAGCGCC
R:
AGGCAGCCAGGATGAACAATC
Band lengths:
342-857
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]