BtaINT0080144 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044032 | KDM2A
Description
lysine (K)-specific demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr29:45794645-45795038:+
Coord C1 exon
chr29:45794645-45794798
Coord A exon
chr29:45794799-45794899
Coord C2 exon
chr29:45794900-45795038
Length
101 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTCCGTTCCCTTTCTCCTAGGCT
3' ss Score
9.51
Exon sequences
Seq C1 exon
GTCTTCTGGCTCATCCCCCCTACAGCCCACAACCTGGAGCTGTACGAGAATTGGCTGCTGTCAGGGAAACAGGGAGACATCTTTCTGGGTGACCGGGTATCAGATTGCCAACGCATTGAGCTCAAGCAGGGCTATACCTTCGTCATTCCCTCAG
Seq A exon
GTAAGCAAGATGGAAAAAAGTGAGTCGTCTACTCTAACCTCTGAGGGAGCCACACTACAGTGAGTGCTTATAGCCTCTGCCCTCCGTTCCCTTTCTCCTAG
Seq C2 exon
GCTGGATTCATGCTGTGTATACTCCTACAGACACCTTGGTGTTTGGAGGCAATTTTTTGCATAGCTTCAATATCCCCATGCAGTTAAAGATATACAACATTGAAGATCGAACACGGGTAAGTAACTGTGTAAGAATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044032:ENSBTAT00000061554:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0237317=JmjC=FE(50.5=100)
A:
NA
C2:
PF0237317=JmjC=PD(17.8=38.3)
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:
ACAACCTGGAGCTGTACGAGA
R:
ACCCGTGTTCGATCTTCAATGT
Band lengths:
244-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]