BtaINT0112614 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010195 | PKN3
Description
Bos taurus protein kinase N3 (PKN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001205566]
Coordinates
chr11:99245430-99246139:+
Coord C1 exon
chr11:99245430-99245510
Coord A exon
chr11:99245511-99245615
Coord C2 exon
chr11:99245616-99246139
Length
105 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
AGGTACGCCTTTGCCCCCAGACC
3' ss Score
7.3
Exon sequences
Seq C1 exon
CTCCTCCAGAAGTGCCCCGAGAAGCGCCTGGGGGCAGGCGAGCGAGATGCTGAGGAAATCAAGACCCAGCCTTTCTTCAGG
Seq A exon
GTGAGCGGTCGTGCCACGGTGGTCCCGGTGCCTGGCGCAGAGGGAGGGGTCGAGGGCCCACGGGGGCTGCTGTTCCCATCATCTGAGGTACGCCTTTGCCCCCAG
Seq C2 exon
ACCACCGACTGGCAGGCTCTGCTCGCCCGCGCCGTCCAGCCCCCCTTTGTGCCCACCCTCTGCGGCCCCACAGACCTGCGCTACTTCGAGGGCGAGTTCACGGGGCTGCCGCCTGCCCTGACCCCACCTGACCCCCGCAGTCCCCTCACCGCCCGCCAGCAGGCTGCCTTCCGGGACTTCGACTTCGTGTCTGAGAGATTCCTGGAGCCCTGAGGGCCTCCCGGCCTCTCTACCCCCTGCCCGCTCCCCCACCCCGGACGGTTTGAGCCTCTGCTTTGCCCACCTGTCTGCCCACCTGGGCACCCTGGGATTGATGGGCCCTTGGGGCTCGAGGTGGTGGACATGGGGCTGCTGTTGTGGGCACTGCTCAGTCACCGGGCGAGGGCTGCCCGCCCCCTTCTCCCAACCTCCTCTCCCCTGCCTGCTGCGAGACCTAGACCAGAAAGAGTGGCACAGTGAGGAATGGTTTTTTTTTTTTTAATACTTGACTTGCTTTATGGTTCATTAAATTTATAAATTTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010195:ENSBTAT00000013461:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=67.6)
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:
TGAGGAAATCAAGACCCAGCC
R:
CAGGGCTCCAGGAATCTCTCA
Band lengths:
243-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development