BtaINT0080161 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002328 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr17:55903697-55905199:+
Coord C1 exon
chr17:55903697-55903775
Coord A exon
chr17:55903776-55905152
Coord C2 exon
chr17:55905153-55905199
Length
1377 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
CTGCGTTCCTCTTTTTCCAGGAT
3' ss Score
10.69
Exon sequences
Seq C1 exon
ATTTCAACTATGAGTATGTGCAGAGAGAAGCTCTCAGAGTTCCCCTGGTATTTCGAGAAAAGGATGGCCTGGGAATTAA
Seq A exon
GTAAGTTGCTGAAATGAATTGCTTCTTCCCCTGTCTCCTTCCCTCACACAGTTTATAGGTTGGGATGGATTTCTTCCACTCTTTCCCCTACCTTTCGTCACTGAGCAGGATTTTTCTCTGTTATTTGGGGATTGCACTTCCTTGTTCAAGGCCTGAAAGAGGAGGCAAAAAATCTCCAACGATGGGTCTGGATTCTCAGAGAATTTGGATGGAGAGGTCACAGGGTACTTCAACCGTGTGGACTTTCCCTTCTGATCCATCCCACTTATACGCAGTGACTTCCTAAAGGGAAACTGAGGCAGTGCCTAAGCTGCAAAGGGATTAGCCAGCCTTTGGGCAGAGGCAGAATGCCTATATGCCTGTTTCTACTCAGACCTCCCACTGTATGGGAAACTGGTCCTTTTCTTTGGAAGGCATGTTCCTTTTTTTTTTTGGCCCTGCCTCTTGGCATGCAGGTTCTTAGTTCCCCGAGCAGGGATCAAACCTGTGCCCCCTGCAGTGGGAGTGTGGTATCTTAGCCACTGGACCGCTGGGGAAGTCCTTGGAGGGGATGTCAGGACACTAGGTCCTGTCTCCTCTTTCTGCTGGTGCCCTAGCACCTGCCTCCCCACAGTGGCTTGTTTGGTTTACATTCTCTTTGGAGATCTGTCAGAGCTCCAGATCGGGGAGAGATCCCGGAGGAAGCCTGGAAGAACAGGTTTCTGCCCCTGGGGCAGGGGTTGGAGGAGGTTGAGGGTGTCCTCGTCACAGCCTGCCTCCTTCCACAAGCATCTACGGCCAGATTTGCTCAAGAGTCTCATTCCTATGAATAGAAATGAAACCTTTGGCATCACTGTCAATTAATAGTGAACATCATCACTGCCACAGTAGCCAGGGTCACCAAATCCTTGCAATCGGTGTGATGTGGTTTTTTTCCCCCTCGAAACTTAAAGAGGTTCCTCCCACCCTCCATACAACACCTTATGGAAAGTATTTTCTAAAAGTGGAGCCACGGAGAGAGCTAGCCACTCTAAAAGAAAGCAGAGGTTTGAATGCCCAACTCTGGTGCTTACCTTGACAGCACACTTCAGTCTTCCTGGGAAAAGTGGGTGGGGGGACAGTGAGTTCCATCCTCTTCTCTATAGCAGTGTTGAGTTTGGGTGTCGGGGAGAGTGGGGTTTGATTTGCCTGTTGAGTTGAGAAAACTGCTCACTAGTTCCGGGGTGACCCTCCAGGCACCAACTCGTCACTACCCTTTTGCTGAGTTATCTCATTGTGGATTTTCAGCCTGAGAACCAGGGAACTCTCTTAGAAAAATGGCCTCCCCTGTCCCCATTGTGAGATCTAATCCTATTGTTTCTGGCTTCCCACCAAATGTCTGCGTTCCTCTTTTTCCAG
Seq C2 exon
GATGCCTGACCCTGATTTCACAGTCCGAGATGTCAAACTCCTAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002328:ENSBTAT00000003003:3
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF136211=Cupin_8=PU(4.2=52.9)
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