BtaINT0080133 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044032 | KDM2A
Description
lysine (K)-specific demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Coordinates
chr29:45782721-45783560:+
Coord C1 exon
chr29:45782721-45782859
Coord A exon
chr29:45782860-45783475
Coord C2 exon
chr29:45783476-45783560
Length
616 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TAACAATTGTTTTCTTATGGTGA
3' ss Score
-1.44
Exon sequences
Seq C1 exon
CGTGGTACCATGCGACGACGCTATGAAGATGATGGCATTTCAGATGATGAAATTGAAGGAAAAAGAACTTTTGACTTGGAAGAGAAGCTCCACACCAACAAATATAATGCAAATTTTGTTACTTTTATGGAAGGAAAAG
Seq A exon
GTCAGTATCATTTGGATTCAGACCTGCAGCCACTTGACGTAGGAGGTTGTAGACTCTGGGAGCTGTGGGCTCAGCATGTCTGCAGCCAAAATACTGCCTGTTAATGCTGTGATGCTGTTTATCTTTATTTTCTCTTCTTACACAATGCCACTCATGCACCAGCCTCTCCCTGTCCCCCAGCCCTACCCCATGAGTCATTCTCTGCTATATTGGAAGAAGCAAGCCTTTATTAGGACAGGAATGTTGGGATTTTTTCCCCTAAAGGCCTCTTCCTTCTCTTATCCCTTGGTTTGGGTTTAATTAAAAATAGTTCAATAGCAATTCCTTTATGCATGTACCTGCTCCACCATGACTGAGCTCCGTGTGTGTCATGCAGCTCGTTCTTTGGCAAACTGACAAGGATGTCATGGTGTGTATTGCAGGGGGCAGAATTAGATGTTAGGCTGTTAAGGCACAGGATGTGGTTTCTGCTTGGGATTTATGAGATGACTCAATAGTACTATCCCCTGTTGGTTAAATTCTGAATGATTGTGGAAATCTCTTATCGTATTACGTAGGTCCTTTTATCTTTTTCCAGCTAAACCTCTTGGCCTTTCTAACAATTGTTTTCTTATGG
Seq C2 exon
TGACAGATTTTAACGTAGAGTATATCCAGCGGGGTGGCTTAAGAGATCCTCTGATTTTCAAGAATTCCGATGGACTTGGAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044032:ENSBTAT00000061554:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGTACCATGCGACGAC
R:
TATTCCAAGTCCATCGGAATTCT
Band lengths:
222-838
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]