RnoINT0112271 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248735699-248738354:-
Coord C1 exon
chr2:248738274-248738354
Coord A exon
chr2:248738187-248738273
Coord C2 exon
chr2:248735699-248738186
Length
87 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
ATTTATATTTTGTGATCTAGCTA
3' ss Score
6.13
Exon sequences
Seq C1 exon
CTGTTGAGGAGGAATCCTGAGCGGCGCCTGGGAGCTGGTGAGAAAGATGCCGAGGATGTAAAGAAGCACCCGTTTTTCCGG
Seq A exon
GTAAGTGTAAAAGTTCAAAGTTTTTTATGAAGCTTGAGTGGTTAGGAACATGAAACTAACCTGGCTGATTTATATTTTGTGATCTAG
Seq C2 exon
CTAACCGACTGGAGTGCACTACTGGACAAGAAAGTAAAGCCACCATTTGTACCTACCATTAGAGGACGGGAAGATGTTAGTAACTTTGATGATGAATTTACCTCAGAAGCACCTATTCTGACTCCCCCTCGAGAACCGAGGATACTCTTGGAGGAGGAGCAGGAGATGTTCCGCGATTTTGACTACGTTGCTGATTGGTGTTAAGTTTCTGGACACGGAGACCAAGCGGACTGACAGACAAGAAGACCTCTAGAGAACAGCAGCCTTTCATTTGCTTTCCGTGCCCAGGAGCTTTTGAGGCCATATAAAGCACATGAAGATGTGGTTACAGCACTGTTCATACCTTCTTAATGTTTTCAACGGAAATCTGAACACTGGAAGCAGTTTCACGGAGTTTAGGCTGAGTGAACATTGGCCATGGAAATCCATTACAAATAAATACTTTTACATCAATACTCTATTTTTAAAAAGAAGAGGAACCACTCTTTTATAGTCCCCATCTTTGCCCTAGCCTGCCTTAAGTGGAAGGAAGATTAATCACTTAACTGTATTTTACAAAAGAAAAAATAGGGCTTTGGATGCTATTACTAGTCATATAAAAAGTATGATTCTGTTTGACTAAGGCAATTATTCTTTAAGAAATCACTATAATATGAAAAACTGTGGCAGTTTGTACACCCTTGGTGGCTTGATTTTAAGAAAAAAATGAGAATGTACTGATGTGTAGTTTGATGAATTTTCTGTATTTATCAGGAGAACACTTCATTGCCTTAACGTTACCAACCATGCAGCAGAGCCTCACGGCTTCCAGCTGCGCTGCCTGCCACACGAGCTGTGCTTATTAACAGTGCTGCAGAACGATAGGAGCGCCAGCGCCCACTCACAGTCTCAGCCAGGCTCTGGGCAGCCGGGACCAAGGTACCGTGCTGACTGTGTGCACTCCCCAAGTCCAGGCCCCACGGAGGATGTTCTGTCGGGTCTTCCCAAGTCAGAGCCCGATGGACCCTTATCATTCTATGCATTCTACACGGATTTCAACCGAGACATCTTGTTCTTGTGTCTGCTGTAGGAGGGAACTCTATCTTTGTTAAAAAAACCATAGAGATTATCATGGTATACATGCTGTGAACATGTATATGTACAAGTTGTAATGTATTCTGTGTTGTAGGCATATTATTTAATTTCACCAAATCATCACTTTTGTACAGTGGCCAAGCAGACACCTCCAACTCCAGCATTTCTATTAAGTGCATTTGTACATTTTAGGCCGCTGGATCCAGACTTTATATTGGCAGTTACTGAGGGCAAAAGCAATATATTGTAACAGAATGTATAAATATTTTTGATAAAACAGTCTATATTTTATAAAAAGTTATTATAACACTAAAGCTGTACCTCAAAAGTCTCACAAATAATTTGATCAAATACTCTACACATCCTCAGAGGATCCGTTTGTGGCTTTTTATCGCTCTCATCATATGCCGTTTTGCAAATCATGATCTTCACTGGGCTGGAAATTTTTTAGGTTTTTGTTTTGTTTTTCTCTTGCCTGTCACTCCATTGTTCTCCCTCAGTTCAGTAATATCATTGATAACACTGTGCTTAGCATGTTAGGGCCATGATACCTCAGGAACAGCAAGTTGGCCACTAACCACACTTGAATTAACCATGTAATCACAGTGAGCTCATCTCTTACAATTGTCCAGATCTGAGTCAATGAGAAACAGGAAAGCACACAAATACATGAAGAGTTGAGCTTGAGACAGCCTTGCTGAGATACATTGGCCTGTTGTCACTGTACTCTGAGAATAATTAAATTTGTCCAGAGATAGTTTATAATACCTTCCAAATTCATTACCATTTTTCTCCCAAGATCCTTTGGAAGAAATTTTCTAAAAAGAGGAGCAATATGTTGCTGTAAGTTGCTTTAAATGCCAGTTAATTGCCTTGGAAAAGAACAATAGAAAAAATAGCATAATTGTCTAGCTTCAATTTGAACAGTGTTAACACAATCTGAAAATAAAACGCTAACTACTTTTGAGGTACAGTCTGCATACCTTTGTTGGTTCTGAAATATGCACAGAAAGCAGCGTTTCAAATGGGCTTTTAGCATTAAAAACTGACAGAGTTATATATACAGTGTACAAAAACTTTTTTAATTGAGGTCAATCACTAAAAAAATTAGCGATCAGGGTATAGTCACACAATTATGCTGAAAAAAAAAGCACTCATTTTTCTGTAGTTTAAAAAATATATATATTAGCCAGATTTTAAATTTTAAGAGTGTAAATAGATGTTGCTATTACTGTATGTGTACTGGCTGCTCAAGCACTTTGTAAGGAGAGCGGATACTTTAGAATGGTACCCTATGCATCCAAATGAAATGTGTGCCTTTACGTCATTCTGAGAAAGAGGGGGTTTGCAGTTATAAGTTTCCACAAATGCACAAATTAAAGTTCAAAATAGATTGAAATTTGTAACTTTGGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.149
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTGGTGAGAAAGATGCC
R:
GGGGGAGTCAGAATAGGTGCT
Band lengths:
179-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]