DreINT0016688 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25328545-25329774:-
Coord C1 exon
chr6:25329598-25329774
Coord A exon
chr6:25328608-25329597
Coord C2 exon
chr6:25328545-25328607
Length
990 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TAATTGTTTTATGTCCTCAGTTT
3' ss Score
7.26
Exon sequences
Seq C1 exon
CCTGATGTGCGAAAAGAGGATCTTTGAGACTGTGAACAGTGTTCGGCATCCATTCCTGGTGAACCTCTTTGCTTGTTTCCAGACCAAGGAGCATGTGTGTTTCGTCATGGAGTACGCAGCTGGAGGAGACCTGATGATGCACATCCATGCAGATGTGTTTTCTGAAACGCGCTCTGT
Seq A exon
GTGAGTAACTCGTATATGTGCTTTTGTACTGCTGCTGCTACTGTCATGTTCACACAACTGGTTGTGTTTAAGCTGGCACATGAAACCCCATGTTTTGATAACATCTGACACAGATCAGCATTTGTTACACATGTGTAAGCAAAAACGATTTATCTATTTATCTGTGTCAAATACTTTAAAGTTTTCAGTTTAGTTTCAGTTTCCTTTATTTTTGTCATTAAAAACATCACAATAAATTCCAATGCAGAACAAAATTATATTACATCGGACCCAGCAAGAACATAAAAAAACATCAATCACTAAAAAAACCCAACATAATAAATAAGCTTTTGTAATTTCATAAATATATAAACATATAGTTATATAAAAAAAAACTAGTTTTTTTGTCACAGAAAGGAATTAATAAATACTTAAATAACTATTGAACAGTTTGTTGTATTAGTTATAATATTGACTATTTGTCCTAGTTTATTTATTTATACATTTATTAATACAAACTATCTATCAATAGCAGTTAAAACAATTGGCAGTGTTTATGCTGGCACATAAAAGCCCATGTTTTGGTCACATCTGACACAGATCAAAATTTGTTACACGTGTAAACAAAAATCTGCACAACAGTCCATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATCTCTATTTAGATGTGGAATGCTTTTAAAGTTTTAAATATAATTGCAGTATTCAATTAATCTATTCAGTCTAATTAATTGATGTTGGATGTGTTTTTGTTGACTTTTAGATCAATTTATTATTGAAAGTCTATCCACAATTCGAGGGTCAGTTGTGGCACTCATAGTGAATGATTAAAGATTATTTGTTCGAGATTTATGTAAACTGTAATCAGGTAGTCAAATGACAGGATATTTCAGTGTAGATGCAGACATTGTTTCTCTCATAAAAGTATACATATTAGAATAGAATCTGAAATAATTGTTTTATGTCCTCAG
Seq C2 exon
TTTTTATGCTGCTTGTGTCGTCCTGGGCCTGCAGTTTCTGCATGACCATAAAATAGTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:16
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(22.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.1=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:
CCTGATGTGCGAAAAGAGGATCT
R:
TGTACACTATTTTATGGTCATGCAGA
Band lengths:
239-1229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]