BtaINT0112621 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010195 | PKN3
Description
Bos taurus protein kinase N3 (PKN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001205566]
Coordinates
chr11:99240622-99241267:+
Coord C1 exon
chr11:99240622-99240765
Coord A exon
chr11:99240766-99241191
Coord C2 exon
chr11:99241192-99241267
Length
426 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
CCTGCCCCCTGCCCCCACAGGTG
3' ss Score
13.25
Exon sequences
Seq C1 exon
GCCCGGGAGCTGGAGATCGGGGTCCACTGGCGGGACTGGAGGCAGCTGTGCGGCGTGGCCTTCCTGCGGCTGGAGGACTTCCTGGACAATGCCTGTCACCAGCTGTCCCTCAGCCTGGTGCCACAGGGACAGCTCTTCGCCCAG
Seq A exon
GTGCCTCCCGGCCCCTGCCCTCTGACCTCACGGGCCCCTGGCTCTGTTAGCGCGAGAGGGGCCTTGGAGACTGTGCTCCCCCACCAACCCACAGCTAGGAGTGGAAATTGAGGCCCTGAGGGAGGAGCTCTCCAGGGATGAAAGATTCCCAGCCGCTCTCTGAGGACTTCACAGGAGAGGAACGGCCTCTCCTTGTCCTGACCGCCCCGCCGCATGCACGACCCTGGACAAGTCCCTTTCTTCTCCAGGCCTCAGTTCCCCTCCTGGTACCAGTGAGGATGCTGAATCCATTCTCTGTGAATCCCTGTAGCTCTTGCATCTGTTGACAACGGGCTCAGGCTGGGATCCTGGAGGCTGAGGAGGTGCCCAGGGCAGGTTGGCAGGTGGGAGGGGACTGGTCTTCAGCCCTGCCCCCTGCCCCCACAG
Seq C2 exon
GTGACCTTCTGTGACCCTGTCATTGAGAGGAGGCCCCGACTGCAGAGGCAGAAACGCATTTTCTCAAAACGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010195:ENSBTAT00000013461:9
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=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCGGGAGCTGGAGATC
R:
AAAATGCGTTTCTGCCTCTGC
Band lengths:
206-632
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development