BtaINT0112574 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12416264-12416811:-
Coord C1 exon
chr7:12416666-12416811
Coord A exon
chr7:12416478-12416665
Coord C2 exon
chr7:12416264-12416477
Length
188 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCAGGCTTCTCCCACCTCAGGCC
3' ss Score
5.83
Exon sequences
Seq C1 exon
GGAGTCCGGACTTGGGGGCAGTGGAGCTGCGCATCGAGGAGCTGCGTCACCACTTCCGAGTGGAGCACGCGGTGGCCGAGGGCGCCAAGAATGTGCTGCGCCTGCTCAGCGCCGCTAAGGCTCCGGACCGCAAAGCGGTCAGCGAG
Seq A exon
GTGAGGGGCGGGGCATCGACCCGGAGAGGTGGGGCTTCAGCATGGGATGGGGACTCATGTGTCAAGTCGGACCCAGATGATTTGAGGGCTCGGGCTTCTGGGGAGGAGCTCCAGGTGGGACTTAGCCAGCCTGGGGGAGGGGCGTGCCGGATCCCGCCCCCAGCCCGGCCAGGCTTCTCCCACCTCAG
Seq C2 exon
GCCCAGGAAAAGCTGACCGAGTCCAACCAGAAGCTGGGGCTGCTTCGGGAGGCGCTGGAGCGGCGGCTTGGGGAGCTCCCTGCTGACCACCCGAAGGGGCGGCTGCTGCGCGAAGAGCTCGCCGCGGCTTCGTCCGCAGCCTTTAGCGCCCGCCTGGCCGGGCCGTTCCCCGCCACGCACTACAGCACCCTGAGCAAGCCTGCACCACTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.486
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF0218511=HR1=PD(43.8=44.4)
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:
AAGAATGTGCTGCGCCTGC
R:
CTTGCTCAGGGTGCTGTAGTG
Band lengths:
258-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]