BtaINT0112560 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017037 | PKN1
Description
Bos taurus protein kinase N1 (PKN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080246]
Coordinates
chr7:12423173-12426189:-
Coord C1 exon
chr7:12425883-12426189
Coord A exon
chr7:12423325-12425882
Coord C2 exon
chr7:12423173-12423324
Length
2558 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
TGCCCCATCTACCCCTCCAGATG
3' ss Score
9.64
Exon sequences
Seq C1 exon
CAGAGTGAGCCGCGCAGCTGGTCCCTGCTGGAGCAGCTGGGCCTGGCGGGTGCCGACCTGGCAGCCCCTGGGGTACAGCAGCAGCTGGAGCTGGAGCGGGAGCGTCTGCGGCGGGAGATCCGCAAGGAGCTGAAGCTGAAAGAGGGTGCAGAGAACCTGCGGCGAGCCACCACCGACCTGGGCCGTAACCTGGGCCCTGTGGAGCTGGTGCTGCGAGGCTCCTCACGCAGGCTTGCCCTGCTGCACCAGCAGCTGCAGGAGCTGCATGCCCACGTGGTGCTGCCCGACCCTGCGGTGGGCGTGCACG
Seq A exon
GTAAGCCAGGCTTCCCTGGGGTAGGGGGTGGGGGATGCGGGATTGGGGGCCTCCACTGCCCAGGGCTCACCCACTGTGTCCCAGAGTGAGGCCAGCCAGCCCATTGCCACTGACCCTCAGGGAAACACACTCGGTCACGGCAGCTTCCAACCTGAAAATGCAGGCGGCTGCTATTACTGCTGCAAGTGCTCAGTTGTGTCCAACTCTGTGTGACCCCATGGACTGTAGCCGGCCAGGCTCCTCTGTCCAGTGGAATTCCCCAGGCAAGAATACTGGAGTGGATTGCCATTTCCTTCTCCAGGGGATCTTCACGACCCAGGGATTGAACCTGCATCTCTTGCGTCTGCTGCATTGGCAGGCGGATTCTTTACAGTGGTGCCACCTGGGAGGCCCAAATACAGGCAGACCAAAGGCCAAAACCAACACCCAGAGAAGGGTACACATACTCACACCCACACCCGGACAACACCAAAGGGCTTACATGGTATCACACAAATATCCAGACTCACAGTCACACCCACACCCAGACAACACCAAAGGGCTTACATGGTATCACACAAATATCCAGACTCACAGTCACACCCACACCTGGACAACACCTAAAGGCTCCAGCTGATTTAAAAAAATGTTTAATTGTGATTAAAAAACACATAACAGCACCTGAAAGTATAACAGTGTTGTTAGCTGGCTATTGTTATTGCTTCTGTTTAGACCCCATGTTTGTGACCCCATGGACTGCAGCCTGCTAGGCCCCTCTGTCCATGGGATTTTTCAGCAAGAATAGTGGAATAGGTTGCCATTTCTTTCTCCAGTGTATCTTCCCAACCCAGGGATTGAACCTGCATCTCCTGCTTAAGAGGCATATTCTTTACCACTGAGCCATCAGGGAAGTCCCTTAATCACCTATATTCCAATATAAAATAAAATGTTTTGGAAAAAAACATGTTACAGAAAACTTATCATTTTTGAGCATACAGCTCAGTGGTATTGAGTATTTTCACATTTTTGTGCAAGGAATCTGCAGAACTTTTCATCTTACAACTAAAAACAAAGATGTAACACACATCACATCAGTAGCCAGAGACCCTCACACACAGTTGCGCCAGCACCCAGACAACTCTAAGGGCCTACCCTGTGGCTCAGCGGTAAAGAATCTGCCTGCAGTGCAGGAGATGTGGGTTCGATCCCTGAGTTGAGAAGATCCCTTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGGCCTGGGAAATCTCATGGACAGAGGAGCCTTGGCCGTCTACACTCCATGGGTTGCTAAAGAGTCAGACATGACTGAGTGACTAAATAGCAGCATTATTCTGTGAATACCCAGAGACTTCCATGCTGCCAACCAGGACCCAGTTAAATGCACACTCCATCACACCAACACATACACAAAACCTAAGGACTTGCACATGCTCACACCAACCCCCAGATATTCAGACACACAGAGCTGCTGTCACAGGTGTTTACCAACCCATAAACAGCCTGAGACTTACACACACAACTGGACAAGACCTGAGACTCAGCACCACTTAGCCCAACACCCACACACCTCTTTGTTGTGTCAATAGCTGGAGGCTAACAGACGGAGAAGGCAATGGCACCCCACTTCAGTACTCTTGCCTGGAAAATCCCATGGACGGAGGAGCCTGGTGGGCTGCAGTCCATGGGGTCTCGAAGAGTTGGACACGACTTCACTTTTCACTTTTCACTTTCTACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACAGGGAAGCCTGGTGGGCTGCCATCTGTGGGGTCGCACAGAGTTGGACACGACTGAAGTGACTTAGCAGCAGCAGCAGCAGCAGCAACACTATCAGATCAACACTTGCAGATGATGAAAAAGAGTTCAGCCAATGCTCAAAAACCTCGTCCCGTCACAGCTGTACCTAGAGTCCCTCTGATGGTCATACCACTCTCTGGAGATTCACACAGAGCTGTGCCAACCTCCAGAGACACACATGTCCAGCTGTTCCAACACTCGGACGCTGTCACACCAGTGCCAGGAGATCTGATTGCACAGTTGTGCTGACAGTCGCAAACATGTGCACAGAGTCATCCCCATCACCCAGAATCTCACAAAGTCATTCTAACACCTCACATCTCGCAGTTAAACTAGCACCTGGGGAGACACACACTCAGTTATGCCAACACCCTGAAGGTCACAGACTTAACCACAGCCACACCTGCTGACGCCTACACAACCGTGTACATCGTTGGGGTGTATATACCTTCTCTACAAAGGTATATACGGTCACACCAAGGACTCACATACACCTGTGTTCATTCACACTGGTCCCGCCCCAGCCCTGAAAGGGTTTCCCTATGAGGGCTGGTGGGGAGTGGGCCCTGTGGCCCCTGGCCCCCAGCTCTTCCTCCTCCCAGGCCCAGGGGTGGATCCTCTCAGCTGGCGCAAAAGCACCTGGGCAGTTGGAGAGGAGGGCTGTGGTGACTGTGCCCCATCTACCCCTCCAG
Seq C2 exon
ATGCCCCCCAGTCCCCTGGCACAGGCGACTCTGCCTGCTCAGCCACCAACCTGAGCCGCGTGGCCGGTCTGGAGAAGCAGCTGGCCATCGAGCTGAAGGTGAAGCAGGGGGCAGAGAACATGATCCAGACATACAGCAACGGCAGCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017037:ENSBTAT00000022652:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.223 A=NA C2=0.451
Domain overlap (PFAM):
C1:
PF0218511=HR1=WD(100=67.0)
A:
NA
C2:
PF154561=Uds1=PU(48.6=70.6),PF0218511=HR1=PU(43.8=62.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]