BtaINT0080153 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002328 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr17:56008768-56009332:+
Coord C1 exon
chr17:56008768-56009028
Coord A exon
chr17:56009029-56009218
Coord C2 exon
chr17:56009219-56009332
Length
190 bp
Sequences
Splice sites
5' ss Seq
CGAGTACGC
5' ss Score
4.62
3' ss Seq
TCCTCTTCCCACCCCTTTAGGCC
3' ss Score
10.93
Exon sequences
Seq C1 exon
CAAAAGCGTGGCCCTGGCTTTAAGTACGCCTCCAACCTGCCTGGCTCCCTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAGGAGCCTGCCAAGCGGAGGAGTGAGTGTGAGGAGGCGCCCCGGCGCAGGTCCGACGAGCACCCCAAGAAGGTGCCCCCCGACGGCATCCTGCGCCGAAAGTCGGACGACGTGCACCTGAGGCGGAAGCGGAAATACGAGAAGCCCCAGGAGCTGAGTGGACGCAAGCGA
Seq A exon
GTACGCTTAGGGGCAGGGGGCAGGGGGCGGGCAGCGAGGGGTGGCCTGGCTGGTCCCGGATGCAGGGGCGCCCGGGCGGGGGTGGGGACGGGCAGCGGGCCGCCCCAGCAAGTCACATAAGTCCTGAGAGCCCAGCCCAAGAGAAAAGGAGGGGAAAACCAGCGAGTCACTCCTCTTCCCACCCCTTTAG
Seq C2 exon
GCCTCGACGCTTCAAACGTCCCCCGGTTCCTCCTCTCACCTCTCGCCGAGGCCCCCTCTAGGCAGCAGCCTCAGCCCCTGGTGGAGATCCAGTCTCACTTACTTCCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002328:ENSBTAT00000003003:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.921
Domain overlap (PFAM):
C1:
NO
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:
GAGCAGAAGATGAACCGGGAC
R:
GAGAGGTGAGAGGAGGAACCG
Band lengths:
248-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development