BtaINT0112569 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12403124-12403860:-
Coord C1 exon
chr7:12403718-12403860
Coord A exon
chr7:12403232-12403717
Coord C2 exon
chr7:12403124-12403231
Length
486 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CCAAGCTCTCCTTGTCCCAGTCC
3' ss Score
5.13
Exon sequences
Seq C1 exon
GGATGGGCTATGGAGACCGGACCAGCACTTTCTGTGGGACCCCAGAGTTCCTGGCACCTGAGGTGCTGACGGACACGTCGTACACTCGTGCGGTGGACTGGTGGGGACTGGGCGTGTTGCTCTATGAAATGCTGGTTGGTGAG
Seq A exon
GTGAGATCCCATGCGCTCCACCCTGCCTGTCCCTGGTAACCTGCGTGTGTGCTGGTGAGGTGGGAGGGTTGTTTAATCACTAAGTCATGCCCAACTCTGTGACACTGTGGACTGTACCCTGCCAAGCTCCTCTGCCCATGGGATTTTCCAGGCAAGAACACCGGAGTGGGTTGCCATTTCCTTCTCCAGGGAATCTTCTGACCTAGAGATCAAAAACTTGCATCTCCTGCATTGGCAGGCGGGTTCTTTGCTGCTGATCCAGCAGGGGGGCCAGTAGGAGGAGGGTGTCAGATTCACCCTCCACTATGGGCTAGCTGATTGAGGACAAGTAGCTCTGCCTCCTTGGCCTCAGTTTCTGCATCCGTAAATTGGGGTCCTTCCCCTCTCAAGTGAGCCATGTCAAAGTACAGCTGGACCCCTGGGTGAATGGAACCAGGTGTGGTATGGTCAGAGGGGCCTAATTCATCCAAGCTCTCCTTGTCCCAG
Seq C2 exon
TCCCCATTCCCAGGGGATGATGAGGAGGAGGTATTTGACAGCATCGTCAACGATGAGGTTCGCTACCCCCGCTTCCTGTCAGCTGAAGCCATTGGCATCATGCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:18
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=0.028
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
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:
GGCTATGGAGACCGGACCAG
R:
CCTGCGCATGATGCCAATGG
Band lengths:
246-732
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]