BtaINT0080135 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044032 | KDM2A
Description
lysine (K)-specific demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr29:45817106-45819839:+
Coord C1 exon
chr29:45817106-45817818
Coord A exon
chr29:45817819-45819675
Coord C2 exon
chr29:45819676-45819839
Length
1857 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TCTCTTTCCTTCTGTTACAGGTG
3' ss Score
13.09
Exon sequences
Seq C1 exon
AAGCGGAAAATGGAAGAGAGTGACGAAGAAGCCGTGCAAGCCAAAGTCCTCCGGCCCCTGCGGAGCTGCGACGAGCCCCTCACGCCCCCACCTCACTCGCCCACCTCCATGCTGCAGCTCATCCACGACCCGGCCTCCCCCCGGGGCGTGGTGACTCGGTCATCCCCTGGGGCCGGCCCCAGCGACCACCACAGTGCCAGCCGCGATGAGCGCTTCAAACGGCGGCAGTTGCTGCGGCTGCAGGCCACAGAGCGCACCATGGTACGGGAAAAGGAGAACAATCCCAGCGGCAAAAAGGAGCTGTCTGAAGTTGAGAAAGCCAAGATCCGGGGATCGTACCTCACTGTCACGCTGCAGAGGCCCACCAAAGAGCTCCACGGGACATCCATTGTGCCCAAGCTGCAGGCCATCACGGCCTCCTCTGCCAACCTTCGCCATTCCCCCCGTGTGCTGGTCCAGCACTGCCCAGCCCGAACCCCCCAGCGCGGGGATGAGGAGGGGCTGGGGGGAGAGGAGGAGGACGAGGAGGAGGAGGAGGAGGAAGATGACAGTGCAGAGGAGGGGGGTGCGGCCAGGCTGAATGGCCGGGGCAGTTGGGCTCAGGATGGAGACGAAAGCTGGATGCAGCGGGAGGTCTGGATGTCTGTCTTCCGCTACCTCAGCCGCAGAGAACTTTGTGAATGTATGCGAGTGTGCAAGACGTGGTATAAATG
Seq A exon
GTGAGCAGGGCTACAGGGATCAGGCACAGGGGTATGGGCGTAGGTGGCAGCTTTCCATGTGAGAACAGCATGTGTCTTGGCTCCTGGAGGCTGGTTGGGCCCTAAAGGATTAAATCCACCCAGTCTGTTTCCCAGACACAGGGGTCCTCTTGAAAGATGTGGCCGGCCGTGCCTGCAGGTGTCATCAGGGAAATCTGGCCCTCGGCCCCTTCTCCCTGCTCTGTACTTTCCCGTCTTTCCTTACTGGACTTTGAATGGATTTGTACCTTGGGGCTTGGGGGTGGGTACGGTGTGTCCTAAAACTTCGGAGTCATGATCCCCCTGCCCCCAGTTAGTTGAACACATCATGCATTTGTTACGCCAGTCACTCCTGGGGCTGGGGACACAGACGACTGCTCTTACACCGCTGCCCCATTACGTCTCCATCTCCTGAGAAAGGTATACGTGCTTTTCAGAAACTTTGCAGGTGCTCACAGGCTCACAGTTTTCCACAGTTCTAATTCTCATACTCTAAACCTAGGCCAGAATACCTTTCTCCAGCAAGCAAGGTTCAGTTTTGAGGCTTCCTGAGACTTTATTGTCCTTCTTAGTGAAACCTGTCATTTCTTCTCAAGTTAGACATTAAGACCTAAGGGAGCATCCCTAGAGGTGATGAACAAAGATTTCCATTGGACACTGTTTTTCCTTAACTTCCTAAACCCTAGGATAAATCCTTTATATCTGGGTCAAATCCTGTTAACGGTCGTTTTCAAAGTGTGATGCCCAAACCAGTGTCATACCTGGGACCTTGTTAGAAACGCAGGTTTTCAGGGCATATCTCAGACCTGCTGATCAGGACCTTGAGGGTGGGGCTGGGCAATCTGTTTTTAATAAATTCTCCACCAGAGGATTCTGATACACATTAAAAATTTGAGGTCCAGGGCTCTTGTTTTTGCCATACAAGTTTCACGTGCCCTGGGTGAAGTTTTCAGTCTCTAAGTGAAGACGCCATTGTTGCAACCATGAGTTTACGTCCCAAATCTGCATTGACATGTGACCTCCAGATTCTCCTGATACTTTTGTCTTTGTAGGGCTCAGTGGTGGCTCTGTCCCTCAGTTTCTAGGCCGAGCCACATAAGACTCCCATTATATGCCATCTCCTCTTGCCCTGCCAGCCAGACGCTGAGCCAGGCTGGGCTGTAAAATATTAAAGAGAAGCCGCGTGTTGCAGTGCTATTTGTGGCCTGTGGATTTGTCGCAGAAAGGCAGGCCTCTCCCTTTCTGTTCTGATGTAGACTGGCTAGAAAAAGTAAAGATAGCACTGAGGCAGAAACCTAAGGGTGGTGGAGGACTCTCCAGGCCTGATTTTAATAAAGAGCCTCTTGCGACCTGATAATGAAATGGGCTCTTTCTGGAGTTCAAGGCACAATGAGCTGGATGTGCCAAGTAGCACCACTCTGCGTCTCAGGCGGCTGGGAGAGACTTTGAGGAGAGTAGAGGGAAACCTAGTAACTTCTAGCAGTAAGAAGTCAAGAAATTTTTTTAATGTTCCTTTGTATACACTTTGGTGGGAGCCATACCATTTTAATGCAAATGAGGGGTTATAGTATATTGTTTTACTGTGTGTCCCTGACAGTCGCTCTGTGCTCTCAACCTGGCCAAAGTAAATTGGGGTGGACTGGTCAAGTAATCTCTCTTCGCTGAGGCAAGAAATGGCAAGGCATGATCCTTATATGCATGAAGAAGCATCTAGGGAGGGAGATCTCCAAGGCTCTGCTTTTCCCAGAAGCCTCCAGAAGCCTCCAGCAGCCTGTGGTGAAGTTCCTCTGACAAGGGATGTGAGGTCTTGACAGCTGGTTCTCTTTCCTTCTGTTACAG
Seq C2 exon
GTGCTGCGACAAGAGACTTTGGACAAAAATTGACTTGAGTAGGTGTAAGGCTATTGTACCCCAGGCTCTCAGTGGCATCATCAAGAGGCAGCCAGTTAGCCTTGACCTCAGTTGGACCAACATCTCCAAAAAACAGCTGACATGGCTCGTCAATAGGCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044032:ENSBTAT00000061554:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.777 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064628=F-box=PU(72.3=14.3)
A:
NA
C2:
PF0064628=F-box=PD(25.5=21.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATCCATTGTGCCCAAGCT
R:
TCCAAAGTCTCTTGTCGCAGC
Band lengths:
356-2213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]