DreINT0016682 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25336511-25338570:-
Coord C1 exon
chr6:25338495-25338570
Coord A exon
chr6:25336689-25338494
Coord C2 exon
chr6:25336511-25336688
Length
1806 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ATAAACCTTGTTCCTCTCAGGTA
3' ss Score
7.97
Exon sequences
Seq C1 exon
GTTACATTTTTTAACCCAGTCATTGAGAGGCGACCCAAACTACAAAGACAAAAGAAAATCTTCTCCAAACAGCAAG
Seq A exon
GTAAGATTATGAAGTGGCAAATGTGCCTCAGTGTTGAGAAGGGTTGACATGCTCTCTTAAACAGATTAGATTGAGCAGGATACTCTTGACACAGTTCCGTGGTTCAATATTGCACTTCTGTGGGGCCAGTGTTTACACAGTGAAGTCAGAATGAACTTTGACCTTCTTGTTTGAACTCCTTTGAACCATTTATAGACAAAGGAGGAGGAGGATTGCTGGTCTAGAGACTTAGGCTGAGTTCCAGAATCTCATGAACAGCCTACTCCCTACATTAGAGGAGCCTTTTCAGAAAGTAATGGAACCTCAAACAGTGCTCCGCATAAGTGAATACACACCCTATAGGCATCTCCTTTCAGTTCATATTTTCTACAGGATGCTTTACAATAATATATTTGTGCATATACATTAGATTAGTCAGTAACTTGAGCTGAAACTGGAACTAATCTAACAAAATAACAACAATAAGAATAATATCACAGTTTATAATTGGTACGCTCAAAATGAATATGTTGGGGAAAAATATTAAATAAAATGTTAATAAACTACATCTAAATCTACAAAATTTAGTTGTAGTTAACTCTGAGCACACAGAATCTACATTCAAATTTTTTGAAAACTAAAACTCTAAAATTCCTAAAAATTATTATTTAGTTTTTTTATATTAATATCTGTGTTATAATTGAAAGATAATTTATTTTAGATACAAGTTGTATAGTAATATTTGCTGTCTTTTACTGAATGTATTATATCCAATATACTATTGAATTGGCTCTAATTAGATTTTGATTGTAGACCTTAAAATGCTTTTTTATTTTATTTTATGTTTTAGCCTTGATTATAAGTGACTGGACAATTCTATGTGCACATTGTTTCACACGAGCTAGAAAAATGATGATTTTTGAAAGTTATAAGTCTTAAATTTGATCAGATTTTCACAAATGATTAAAAACAGTCACCAACAGTCACAAACAGTCTGAATAAAGGGTCACCAAGGTAAATAAACCATAAGTAATTATAGCAAAGTCATGAATAATTTACAGTTATATACAATAGTGTGGGCTATTTACAAATATTAATAAACAGTTAAAAAAAAAAAAAAGCAAACGTACATACAGGAAAAGGAAGGCAAGCGGTGCTAATAGGCTTGGGCCGATATAATTTTCTGACGGTATGATAACCTTGGATGAATTGGTTTTACGGTATCACGGTATTGTGATTACTGTGTTGGCATTTCTGTGTGGAGTTTGCATGTTCTCCCAGTGCTTGCGTGGGTTTCCTCCGGGTGCTCCAGTTTCCCCCACAAGTTCAGACATGCAGAACAGGTGAATTGCAGAACAGTAGTGTATGTGTGTGAATGAGAGTGTTTGGGTGTTTCCCAGTGATGCGTTGCAGCTGGAAGGGCATCTGCCTCATAAAACATATGCTGGATTAGAAGGTTCATTCCGCTGTGGCGACCCCGGATTAATAAAGGGACTAAGCTGAAAAGAAAATGAATGAATGAATATACTTTGACTGTTTAAGAGTATTAGTTACTAGTTAAATTTATTAGTAATTAAAGAAGTTATGCTAATAACCTTAATCTTAATTTTTATTGTAATGCACTAATATGCACTTTTTATAAAGCTGCTTTGAAAAAATAAATATTGTATAAAGCGCTATACAAATAAACTTGAATTGAATTTAACTAATTATCACAATCATAAAAATCTCATTCCCACTATAGGATATGTGGTCTTCAATACCTAATAAAATTGACATCAAACTTCTGCTTTCTTTTATCTCATGCATAAACCTTGTTCCTCTCAG
Seq C2 exon
GTAAAACGTTCCTGCGTGCCCCTCAGATGAACATCAACATCGCCACCTGGGGCAGGTTGGTGAGAAGAGCCATTCCGTCAGTCAATACCTCATTCAGTCCTCAGGCGGCTGATCTGGGTTCAGCGATGAGCCATGAAACCGCACCCATGGGCCACCCAGATGCCCACTCTCTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.417
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:
TTTTAACCCAGTCATTGAGAGGCG
R:
CTGGGTAGAGAGTGGGCATCT
Band lengths:
246-2052
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]