BtaINT0112565 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12404475-12406135:-
Coord C1 exon
chr7:12406044-12406135
Coord A exon
chr7:12404652-12406043
Coord C2 exon
chr7:12404475-12404651
Length
1392 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
CTCCCTCCTGCCCTGCCCAGCCT
3' ss Score
6.69
Exon sequences
Seq C1 exon
GTGCTGCTCTCTGAATTCCGGCCCAGTGGGGAGCTGTTCGCCATCAAGGCTTTGAAGAAAGGGGACATTGTGGCCCGAGACGAGGTGGAGAG
Seq A exon
GTGGGGAGCCTGCTCATGCCCTCTGAGAACGTCAGTCTTCTCTTCTGGGAAGTGGGAGACAGAGCACCCCCTTCCTGGGAGTTCTGTGAGAATGATTCATAACAATCATTCCTACTTACTAAGCTAGTTGTCATTGAGTTGCTAAGTTGTATCTGACTCTTTTGCAACCCCGTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCACTTCCTTCTCCAGGGGATCTTCCCGACCCAGGGATCGAACCCGGGTCTCCTGCATTGCAGGTAGTCTCTTGCATTGCAGGCATATTCTTTTACCGACTGAGCCACCAGTATTTAATGACTCTTAGCAAGCACCCATCATGTCCTTTACATTCAGTAACTCCTTCCTCACAACAGCTCTAAGAGGTCAACACTGTTATGGTCCCAGTTCTGATGGCACAGAGAAATTGAGCCAGTTGCCCAAGGTCACATAGCCAGTAAGCAGTAGGTCTGGGATTTGAACTTAGGGACTTGGGTTCTGAAGCCTGTGCTATTAATGGTGCCATGTACTGACTCTGCTTTGGGGTCAGGACCCTGAGCTCAAATCCTGCCTCTGCTACAGATGTGCATAGAAACCTTAGAGTGTTCACTTTACCCTCTGAACCTCAGCCTCCCCATCTATAAAAGGGGAGTAATCCTTTCTTGCAGGGTTGCTGGGTGGATTGAATGGGAGGATGCCTCTAGATCATTCTGCAGAGTGCCTTGCGCCCTGTAAATGCCCAGTAGAGGCACTGAGATAGTCCCAGTCTTCTTGACATCCCTTTATTAACCAGGAATCCAACTTAGACAGGCTTAAGCAAATAGAGGAATTTATTGCTCTGGATCAGAAAAGTCCAGGGGTGGACTACCTTCAGGCATGGCTGTATCCAGGTGCTCAGTTGACGTCTCTCACTTCTGCTTTTATCTGTGTGGGCTTTGCTTGTACTCCCCTCATAGGGTCAGAGATACCTCCTGCTTTAGCACTTTAGGGCTCATCTGCCAGCTTTGGCTCTTCTCCCTTATTCATTCCAGCAGAAATCTTGAGTTTGAACCCATTGGCTTGGCTTGCCCATTCATGAACCAATTCCTGGCCTGGGAGATGGGGTGCTCTGAAGGGAAGTAACAGTTCCCCTGGTGGTTTCCCAAAAGGAAGTTAGGGGACTGTTACTAGGACAATGGATGGATTCTGGGTGCCTCTTGAGCAGGTTCAGACGCATTAAGCAACTTGCCCAAGTGTGCACAGCCATTCAAGGCCCTTGAGCAAACATCTGATGATTGAAGACTAGGGAATGACGGGAGTCAGGGGTAGTGAGCTGCTGTGTTCTCTGACCCCCATCCCCCTCCCTCCTGCCCTGCCCAG
Seq C2 exon
CCTGATGTGTGAGAAGCGGATCTTGGCAGCTGTGACCAATGCGGGACACCCCTTTCTGGTGAACCTGTTTGGCTGTTTCCAGACACCAGAGCATGTATGCTTCGTGATGGAGTACTCAGCTGGTGGGGACCTGATGCTGCACATCCACAGTGATGTGTTCTCGGAGCCCCGTGCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:14
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:
PF0006920=Pkinase=FE(11.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTGCTCTCTGAATTCCGG
R:
GGGGCTCCGAGAACACATCA
Band lengths:
262-1654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]