RnoINT0112257 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24811101-24814225:-
Coord C1 exon
chr19:24814082-24814225
Coord A exon
chr19:24811177-24814081
Coord C2 exon
chr19:24811101-24811176
Length
2905 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
AGCTGAGCATGTCCCCACAGGTC
3' ss Score
6.74
Exon sequences
Seq C1 exon
GCTCGGGAGCTGGAGTTGGCTGTGTTCTGGCGTGACCAGAGGGGTCTGTGTGCTCTCAAATTTCTGAAGTTGGAAGACTTCTTGGACAATGAGAGGCATGAGGTGCAGCTGGACATGGAACCCCAGGGCTGCCTGGTGGCTGAG
Seq A exon
GTATGGCCTGGTTTCTGACTTCTGACCCTAAGATGTTTCCTGCCTCCTTGCCTCTGATTGTCTAGTATGGGGGAGATTAATTTCAGATGCTTCTGAGCCTTAATGGGAAGTAAGTTTCATGAAAGCTGGGATTGGTGCCAGGAGCCACACATCACACAGGAGGAAGAACCAGCAGTGACAGACCACATACGTGACAGTGCTCCCAGAAGGCTGTGCCTGTCAGTTGTGTGTTGGTCTGGTGATAGGTAGGGCCCAATGGGTAAAGTGCTAGCCTAGCATGCACAAAGCCATGGGCCAAATTGTTACTTCAGATAAAACTAGGCGTGGGTACTGGAGAGATGGCTCAGCAATTAAGAGCACTGTCTGCTCTTCCCAGAGGACCCATATTTGATTCTCAGCTCCTACATGGCCACTTAGAGCTGTCTGTAACTCCAGTTCTGGGGGATCTGACACCCTCTTTTGGCCTCAGTCACTAGGTTCACATGTATTACACAGATATACATGAAGGCAAAACACCCACATACATTAAGCAAGCAAACATGAAAGCTAGATGTCATACAGCCTTAAGCCACATGATGAGCAAGAGACAGGAATATAAAGACTTACCAAAAAACACAGCCAAAGCTGAGTGAGCTTTAATCCCACAGTGTGGGAGCAGAGGCAAGCAGACTTCTGAGTTTGTGTCCCAGGCCAGTCAGGTCTATAGAGAGCCCCTGTCTGAAAAATAGAAGAACAAGCCAGGAACATTTTCTGCCACTGCAGTCTAGTGAGGCCTGCCTCAGAAAAGCAAGCACTGGGTGAGCCTTGTGTGGTGTGCTGGGCTCACGCCCTCAAAGTTTCATCCCCAGCATCGCACGGCAGCAACAACCAACCCAACTGGAGGTGGGTGCTGGTGGGAACCTCACAGCAAGGGGTGGCTGCAGCTGACAGACTCTCCCAGAGTGCTGTTGTCACTGAGCCCACCATGTCGAGTTCTACCATGGATAGAATGTTCTGTCTGAACTGTAGCTGGTGTAGCTGGAAAGCAGAGTTTTTCCCACTGACGTTTTGAGTGATTTAAATTTGATCTGCACACATGGCACCTGCACAGGAACATCTGGGTCTAGAGACCAGCGCCTGCTGAGTTGGACTTGGAGGACTAGGCTAAGTTATCCTGGGATTCGCACATGGGCAGCCCCATCACCCCCAAAGGGCCAGGTTCCATCCCTCTTGGCGCTGATGCAGTCTGAGATAGGGGTCTGAGAGTGTATCTCTCAGGTCCCAGGTAAGCAAAGCATCTTTCTGTCACTGTGACAAATGCCTGAAATAATCAGAAAGAGAAAGGGTTATTTTGGCCCAGGGGCTCTGCCCATGGCCCCTTAGTTCAAGTGGAGGAGGCATGTGTACCCAACGGAATACAGAAGCAAAGAGAGACACAGGAAGGGGCTAGGCTCCCAATATCCTGTATGTGGACGTACTCCAGTGACCTCACTTCCTCCCACTAGGACCTGCCTCTAATGGTCACACCACCTCCTAAATAGAGCCATAGGTTTGTGACAAAGTCTTCCATACACAGGGCCAATTTAACAGCCATGCCAGATGATGCCATTGTGGCCAACCTGCCACTATACTTGGGAATCAAGTCAGGTGATGGCAGACTTGTTTTCCAGACTTCCATGTCAGTCTTGTGGGCATAGATGACTCCTTTCCCTTCAGAGAAGGGTCTGATTGCCTGCGTCCTCCCTTTTCAAGATGGAAGCCTGTCTCGGTTTGAATATGAAGGTTCCTGTCTTAGGTGTTTTTCCTGCGACTGTAGTAAAGTTCCCTAGCAAAAGTTTTAAGGAAAAGAGGGTTTCTTTTGGCTCAGAGTCCACCGTGAAGGGCAAGTCAAGCAGTCACACTGCATAGGAAGTGAGGTCAGGAAGCAGAGTGGTGAATGCCTGGTGCTCAACTTGCTTTCTCCTGTCCATACTGTCCAGGACCCCCGCCTAGGGAAAGGTGCCTCTCATAGCTTTGGTGGGTCTTCCCCAACAGACATGACTACCATAGGTAATCCCTCACAAGTGTGCCGAGAGGCTGGTCTAGGTTATTCTAGTCAACTTGACAACCAACTTTAACTATTTCAGTCCCCATGAAGACGCCTGTGTTTGAACACTTGTCCCCAGCTGGTGCTCTTTTGAGAGGTAATAGAACTCCGAGGAGGTGGAGCCTCACTGAGAGAAATGTCACTAGGGTTATCGTTAGGCCCTAGTCCTGCTGCTTTCTGTTCTTTGGCCATCTGAGATGTACCTGGGCTTCAGTCGTCTGCCACTGTGGACCCCACTGCCGGTGCTGCCGTGTCCTCCTTCTGTGACGGACTATATCCCCTCAGCTATGCCCAGCTTAGAGCTCCCCCTGCAGTTGTTTCTGTCAGGTCCTCTGTCACAGTGAGGAGAACACAGACAGCACTGAGGGCAGACAGTGAGCGCGCTGACCACCTCTCCCTGCTCACCAGCACTCTGTTACGTGACAAAATACTTGGGAGAGATAAAGGAAGCAGGGTTCTCTGGGTTCATGGTTTCCAGGCAGCAGCCGTTCATCCTGTTGCTTCTGGGCTTGTGATGAAGCACTCTGTGGAGTCGAGCTGCTCATGTGCTGACAGGAGACAGAAGGAGGATGAGGGAGTAGGTCTGGCAGCTAGAGACCTGCTTCTTTTAATGACACCCCTCCTTGTGAAGTCCCCTGCTCCCCAACGGTCTATCAAGCTCTGAAGCCATCACTGGGTGAATCCATGAGTGAAGTCCTTGACCCTTCTGTGCATAGCCACTGTCAAAGGCTTAGCTTTGCACGGCTGCTAGGCCAAGCCACGCGTCCTCAGGGACGCTTGGTGTCATAGGTTGTGGTGCATCTGTTCCTGCCACCACTGCAGCTGAGCATGTCCCCACAG
Seq C2 exon
GTCACCTTCCGTAACCCCATCATCGAGCGGATCCCTAGGCTCCAAAGGCAGAAAAAAATTTTCTCCAAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]