BtaINT0080152 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002328 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr17:56008501-56009028:+
Coord C1 exon
chr17:56008501-56008587
Coord A exon
chr17:56008588-56008767
Coord C2 exon
chr17:56008768-56009028
Length
180 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTCTGTTTTTGGCCTACAAGCAA
3' ss Score
2.31
Exon sequences
Seq C1 exon
ATTAAGGAGTCAGAGGGCGTGGTCAACGATGAGCTTCCAAACTGCTGGGAGTGTCCCAAGTGTAACCACGCCGGCAAGACCGGGAAA
Seq A exon
GTGAGTGCCGGGCTCCAAGTCCCAGGGGTCAGCCCGGGAGGGGTAGACCTTGGCCTTGCCAGACCCAGCTTGTCCCCGCCACGGCGACGTCGGCTGGGAGGGGCTACTGCGGACTCTGGGGCAGGGGCAAGTCCAAAGATATACAGTTGGTGTGTTCCTTCTCTGTTTTTGGCCTACAAG
Seq C2 exon
CAAAAGCGTGGCCCTGGCTTTAAGTACGCCTCCAACCTGCCTGGCTCCCTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAGGAGCCTGCCAAGCGGAGGAGTGAGTGTGAGGAGGCGCCCCGGCGCAGGTCCGACGAGCACCCCAAGAAGGTGCCCCCCGACGGCATCCTGCGCCGAAAGTCGGACGACGTGCACCTGAGGCGGAAGCGGAAATACGAGAAGCCCCAGGAGCTGAGTGGACGCAAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002328:ENSBTAT00000003003:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(35.4=79.3),PF0030115=Rubredoxin=PD(60.0=93.1)
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:
GTGTCCCAAGTGTAACCACGC
R:
GTGCACGTCGTCCGACTTTC
Band lengths:
244-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development