BtaINT0080158 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002328 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr17:56011645-56012059:+
Coord C1 exon
chr17:56011645-56011808
Coord A exon
chr17:56011809-56011897
Coord C2 exon
chr17:56011898-56012059
Length
89 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CCCCCTCTCTGTCCCCCCAGGGC
3' ss Score
14.19
Exon sequences
Seq C1 exon
GTGCTGCGATAAGCGGTTATGGACCCGCATCGATTTGAACCACTGCAAGTCCATCACGCCCCTGATGCTAAGCGGCATCATCCGGCGACAGCCTGTCTCCCTAGACCTCAGCTGGACCAATATCTCCAAGAAACAGCTGAGCTGGCTCATCAACCGGTTGCCTG
Seq A exon
GTGAGCACTGGACCAGGGACCCCCCAGAGTGCAGTATTGGGGGCTGGGGGCGTGTCACCTGACCTGTGGCCCCCTCTCTGTCCCCCCAG
Seq C2 exon
GGCTCCGAGACTTGGTGCTGTCCGGCTGCTCGTGGATCGCAGTCTCTGCCCTCTGTAGCTCCAGCTGTCCACTGCTCCGGACCCTGGATGTCCAGTGGGTAGAAGGGCTGAAGGACGCCCAGATGCGGGACCTCCTGTCCCCGCCTACAGACAACAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002328:ENSBTAT00000003003:20
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=0.200
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4)
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:
CATCACGCCCCTGATGCTAAG
R:
AGCTACAGAGGGCAGAGACTG
Band lengths:
173-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development