RnoINT0112268 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248738560-248743300:-
Coord C1 exon
chr2:248743158-248743300
Coord A exon
chr2:248738668-248743157
Coord C2 exon
chr2:248738560-248738667
Length
4490 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TATCTTCTTATTTCGTCTAGTCT
3' ss Score
5.61
Exon sequences
Seq C1 exon
GAATGGGGTATGGAGATAGGACAAGCACATTTTGTGGTACTCCTGAATTTCTTGCCCCAGAAGTATTAACAGAAACGTCGTACACAAGGGCTGTAGATTGGTGGGGCCTTGGCGTACTTATATATGAAATGCTCGTCGGAGAG
Seq A exon
GTAAGCAGCAAGAAATAGGAGATTGAAGAGATAGAAGATGATTGGAGGATAAAGCACATCATTTTTATAAAGATATGTACATGTGTCTTGTACATGAGTGGGAACTCAGTTTTATAAATATTCATAGTGTTCTAATGATTGGCTGTGTTTCTACAATATCTTTACTAGCCTAGTTTAAATTTTTATATAATGGATGGATTGAATTATGAATGTCCTCAAATAGCTTCTTGTATTTAAGTGGTATAGGTAGTTATGTTTTGTGATTTTTCATATAACTGATATTTTGTAGGGAATACATGAGACTAATAAAATTATATCCTATAGGCAGGTATGGTGGTATAAGCTTGTATTCCTGCCTCTTTTGGGGGCTGAGACAGGAGGAATAGGAATTTAAGACCAATCTGGCAAAAACACCTTGTCATTGAATCAATATACAATCAGTCAATCAATTAATCAATAAATTTGAATCTATAAAGAAAAGTGTGCTGTACATTTATCAGAAATAAGTATGGTCTTCAAAAACAACAGCAGTGTTGGAGAGATGGTTCAGCAGTTGAGTACGTATTATGGTTGCAGAGGACCCCAGTTAAATTCCCAACACCCCGTTATGAGAACTCACAAGCACCTGTAACTCCATAGGCATCTGTACTCAAGTAGACTTATCCCAGACAGGCCCACTTATACGTAACTAAAATACTTGTACAACCTCGGTATTGTGGCATGCTCCGTTAATCCCAGCATTTGGAAGGCAGAGGTGACCAAATATCTGATTTCAAGGCCAGCTTTGTCTACAAAGTAAATTCCAAGTCAACTAGGTCTGTTACATAGAGAAACGCTGTCTTGAAAAACAAACCAAAAAACTTTTACAACCCACTGTTTAAACAACAGAGCAGAATTGGCCATCAACACTTACCCCATTTTCTGTATATTAACAAAAGTCATTTTTGAGGATAACTGAATTATAATAGAAGTTTCTACAGTTTGTGAAACAGGAAGTCAGTGAAAATGATAAGGGGCCCAATACATGTTTTCTGAATTGCTAAGAAGTATAATAGGAATGGAATTTAGAATGAGTACATTTTTTGACAAGGCAGTTGAAACCTTTCTTGAGAGGGATTTATCTGGAGATACAAGACAACTTTCTTGGAAATGATTGATCATTCTGGAGTTTCCCACTGCCAGCCACCTTCCATGTATATACAGCTCACGAGTCATTTAGAGCTGGATGAGGGAATGGACGTATACTTAGTGTCATATGGTTCTAAAGTTTTAGCCTCTGTGTTGCTTACTGGTATTTAGCCATAATGAACAGTTCTCTCCAATGGACAGCCTTTTCCGTGTGTGAAATTGGACTAGAATCTCTAGAAAAGGAGGAGAGGAATGACTCATTAAAGAGTGTTGTGCTTCATAAATATTAGCTCCTTTTATTTGCATCTACTTTAATAGTTACAGAGTGGTTAATATGTCACAGAGCACTTGTGAGGTGGGGTTGTGAATTTTTGTTCTTGACATTTTTAGAACCTGTTTCTAAACCATGTACTTGTACTTTAGGATCAGAGGTGAAGTCCATCCCACCTCATTTATTTTCTTAAGACATGAGATCCAGACTGAATTTCACACCTCTATTTAGAAAAGCTGCTATAGGTATTTGAAATGGAAAAAAATTGATTTAGCCTTAATATATAGATTGGTCCTACTTTCTCAGGTGTCAGAAAACTCCTGATACTATTGCTGGAGGCTGTGGCATACTTAAACTCTCTCTATTCCAGTTTTGAAAAGAAATGTTTCTGTTGCCATATTTTTATATGTTTCATTTAAGTAAGTCTAAGATTTAATTCTGATCCAAAAGGAGGTACTTTCTTATAATTTACTTTCTGCCTAGAACAGCGGTGCACACCTTTATTCCCAGCATTCAGGAACAGGCAGGTGGATCTTTGTGAATTTGAGGCCAGCCTGGTCTACACAGTGATCAGGACACCCAGAACTATATAGCAAGACCCTGTTTCAAACCTGACCTCACATCCCCAACAAATGTTCTATGTTAGAAATGATATGCAAAAGGTACTGTCGTAAATCTTGTTGAACTTTGACTTCTTCTGTTCAAGCTACTGGCTTAACAAATAAGCACAGAAGTCCCTGCTTCATAGCTTTAAAAAAGGCTTCTAATTGTTGAGTTTTAAACACACCCAGAAGGTATTGCTATTCCATTATAGTTGCCTTTTAATTCCATTTATCTTTAGTGCCTCCACAGGAAGGTAATTAGGAAACGAATTAATACCCACTGGTCTGCATTATAGTTTTATAGTATTATTGAAGCTTCAATGATAATGTTTATTTTTTTAACTTTTATTGGTTCTTTGAGAATTTTACATTGTGCACCCCAGTCCAACTCATCTTCTCCTTCTCTTTATCCCCTCCCTCCACCCTTGCAACCTCCTCCTCAACAGACAAACAAAAATCTTATTGTGGAATCTGTGTAGCATGTCACAGTGTGTCCCACAGTATACCCTTTTGTATACACTTCTTTGCTGGCAAATGTTCCTTGCAATGACTCGTTGGTCTGATACAAGGCCTCTGGCTTCTGCTGCTCTGTTAATACTGGAAGCTCACTTGGACTTCTCTAGGATAACCTGTTATTACCCTGTGTCATGGAGAGTCTATAGTTTTGGATCTACAGGAGTGGCCCCTTCGTGCACTCCAGCAGTTCACCGATAGGGTAGATGTTGGGTTGGGCAAATTCAAAGCCCTAGATCTGGGCCTGAGAGATACCAGTCTGGTCAGCACTCTGGCTGTCCCACCCTCATGCTAGCCTTCCTGCTCTCACACCCTCAGGGCAGACTAACCAGCATGCACGCACACATGCACGCACGCAGTTCCAACAGCTCTACCCTGATGCCCAAGTAAAGTGCCGGCAGGGCCTATTTTTCTGAGTGTTGTAGCTGATAAGGGACACGGTCTGTTCTCCCACTCTCATGACTGGGGTCCAGCTCTCCTCCCTGCCATAGATGGCAGAGAAGGAGGACATCTATGCCAGCACCTGGCAGACAAGAGGCAGAGCCAACTCTTCCACAGTCACGCATTTTAGACTGCTCACCCACAACCTCACATTCAGAGCCAGCTCTCCAACTTTCCTGCTCTGATGATAATCTGGGCCAGGTCTCCTGCCTGCTGTTAGTGGCAAGGGGTAAGAGGTAGAGTGCATCTCTCTTCACCCATGTCACCCCGTGGCTGACAAGTACAAGGCCAGGACCACATCATGTGGCATCCTCAACAAGTAACAGACTATTCCTCACTACCCTCATTTTCAGTTCTGTCTCTCTTTCATTTCTCCACTACATGCTTGCTCCTCTTAGAGGAACCCAGGGTCTTCTGAGTGTCTGGGGTCATCTCATGAATCCTGTGAGACACCCCCCCCCACACACACACACACCTGTTTGTGTATTTTGACCTCTGACAAGGGTCATCATGGACATGGTCGGCCCGCTCTCCCACCCCTGCCTTAACTCTTATGCATCACCAGACCAGTCATCTCAAGCTGGCTCCCTGTCCAGGCACCATGGCACCAGTCTTGGGCATCAGGGTAGAGCTGTTGGAACTGCGTGCGTGCACGTGTGCGTGCGTGCTTGTTCCTCACCCAGGCCGCACCATATTCGAGGATCATCTGACTCAGGCTTCCTCCTGCGGCAGGCGGGGTTCTTCTTGTCTCCTGCTGGCTCCCAGTCTACTGGGGCCAGCACAGCACAGAACTATCTTAGGCTCACTGTTTTTCAGAGAATGTAAGGCTACTACTGATAATTCAGATTTTCATAGGTCAGAACTCTCCTCTCTGCCACCATTGATGTTCATGTAAACAGCAGCTATACCTGACCTGCAATACTTCTAGGGGCAGCCAGGGTTTTCTTGTTTGCTTGTTTCTTTTTTTGTTTGTTTTACTGTTGAAAGTATGGTTTGGCTAAACTTTGTTTAGTTTTGGTTATTTGTTTTTGTCCCATTGGGTCATCCTCTGCATTTCTTGCGGGAAGGGTTGAAATAGGGCCTCACATCGAAGCCCATGTTGACCTGGATTCAACTGTGGTCCTCCTACTTCAGTCCCCAAGTGCTTGCATAGTAGATATGAGCCACCATGCTCAGCTCGAATCAGAGCTTCTCTTATAGAGTTTGTTTGTTCGTTTGTAACGTGGTCTCATGCAGCCCAGAAACAGCACAAGCTGCTTACACTGCGTAGCAGGGGCTAGTCCTGAACTTCTCATTTGTCTGCTGCCTCTTTCTTTCAAGGGCGAGGAGGGCAGGCTTGTCCACCGTTCTTGGAGGTTGAGCCCAGGCTTCACGAGGTGGGCCAGCACTGACTGAACTCACCTCCAGGCCCCATTTCGTTTCATTTCATTATCATTGCCTGAATCTTGGTTCAACTTTGAATATATGATGTTTTACTATCTAAGACTTTTATATTTAGTTCTTATTTCTTCTTATTATCTTCTTATTTCGTCTAG
Seq C2 exon
TCTCCCTTTCCTGGTGATGATGAAGAAGAGGTTTTTGACAGTATTGTAAATGACGAAGTAAGGTATCCAAGGTTCTTATCTACAGAAGCCATTTCCATAATGAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:19
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=0.028
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
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:
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]