BtaINT0080146 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002328 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr17:55899388-55900632:+
Coord C1 exon
chr17:55899388-55899420
Coord A exon
chr17:55899421-55900487
Coord C2 exon
chr17:55900488-55900632
Length
1067 bp
Sequences
Splice sites
5' ss Seq
TTGGTGTGT
5' ss Score
3.29
3' ss Seq
TCCGGTTTGGGTCCCCGCAGCGC
3' ss Score
8.33
Exon sequences
Seq C1 exon
ATGGAGGCAGAGAAAGACTCTGGAAGAAGATTG
Seq A exon
GTGTGTAGCTTTTTTTTTTTTTTCCAAATCTGTATCTGGTTTATGATAGATCTATTTTTTTTTGGTCGTTGTTTCTTGCTGCCTTTTCTTTCCTTTTCTGTATTTTGCAAGAGGACCGGAAAAAAATATAATAAATTGCATGCAAAAGGAAGCAAGCAGCTTACTCCTCCAGTCCCTTGTGAGACTGAGTCTCAGACACTTACGTGGGGAGGTGGTAGCGGGGAAAGGCGTGGGGGGGGGGCGCTCAGCGGGCTCGGGGTTCGCCCGGAATCTGGGGGGCTGCGGGGCCGGGCGCTCGGCGGTGGAGGGAGGAGGCAGGGGATGCGGGGAGTGGTGGGGGATTCTCCTAAAGAAGTGAGTGTGCGCGCGCGCTTGTGGGGAGATGAGGCAGCTGCTGGTGCGTTTTGGGGTCTCCGATGGGAGCTTTGTGGCGGGCCGTCTGCCTCTCCCCCTCCCAAGCCGCGAACCCCCCCCCCCTTCTTCTCGCACTAGCGGTCGGGCGGCTGGGGCGGCTGGGGTCTCAGCCCTTCCATTTCAGCTTTCCAGCTTACCCGGTAGCTCGGGGGCGGCTCCAGGCTTAGAAATGCCGCCGGCCCCCGGTTCCGGCTTCCCGGCTCTGCCGCCGCGGCCGCCAGGGCTGCTGTTACCGCCGAGCCGGGCGCTGCGGCGGCTCCTCCCGGGGCCTACAAATGCCCCGCCAGCCCGTGTGCGGAGCCCCCCTCGCGGGTTACATAACCAGGCTCCCGGTCGAGTGGGCAAAACTCAACACCTCTCGGGGGTGGGGGGCTGGAAGCAAGGGAGAGTCCTCCAGAAATCCCTTCCACGGCCTCCAAAGATGTAGGAGGGGAGTGCCCTGTATAGGGCGCCGCCTGACCCTGGGGGGTGCGGGTCCCTCTCCTTATCCCGATTTTCAGCATCTTTGGCTTCTGCGCAAAGTTGCTCCGGTCCCAAAGGTGGGGTGCACGGGGGCGCGCGGCTCCTGCACCTGTTCGAGCTGGGCCCAGGGTGAGAGGCGACCCCCAGTTCCCCCAATAATGTCCCGGGCTCTCCGGTTTGGGTCCCCGCAG
Seq C2 exon
CGCCCGATTGACCGCCAAAGATACGACGAGAACGAGGACTTGTCGGACGTGGAGGAGATCGTCAGCGCCCGCGGCTTCAGCCTGGAGGAAAAGCTGCGCAGCCAGCTGTACCAGGGGGATTTCGTGCACGCCATGGAGGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002328:ENSBTAT00000003003:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=0.143
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development