DreINT0115012 @ danRer10
Intron Retention
Gene
ENSDARG00000079585 | pkn3
Description
protein kinase N3 [Source:ZFIN;Acc:ZDB-GENE-030131-1902]
Coordinates
chr5:31245262-31247873:-
Coord C1 exon
chr5:31247722-31247873
Coord A exon
chr5:31245479-31247721
Coord C2 exon
chr5:31245262-31245478
Length
2243 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TTTTTCTTTTCATTGTCCAGGCT
3' ss Score
8.64
Exon sequences
Seq C1 exon
GTCGCCCTTCTGAAACAATCAGTCCTCTCGAGCTGCGGGTGGAGGAGCTCAGGCACCATCTAAGGATTGAGGCAGCTGTGGCAGAAGGTGCCAAAAATGTGGTTAAGCAGCTTGGTGTCCGTAAAGTGCAAGACCGACGTGCTCTAGCGGAA
Seq A exon
GTAAGTGCTTGCATTGTTTTGCGATGGAAAAGCTTTTCAGAAACCAACAGACATGCTTGATGGTTTCTGAATGCTTTGTATGCGGGGACTTACAGATTGTTCAGTCCAGACTGTTTCTGTACTGTACATTATGCTACTGGCATTTTAATACACTGATGTAATTAAAAAAAATGTTCATTCTGCAATTTAAAACGGTGAATTTTGTATTTTTCATACAACCTGATGTTTATTTCAGTTTCAGCCCAACAAGACTGTAAAAACAACTTTAGTTTTATTCTTGCTTTCCATGTGCCGGTTTACTGCTGTCTGTCATGGGATGTATGCACTCACCATGAATCATCTGTGTCATTCTGTGATGATTCAGATCAGTTGAGATTTCAAAGAAATCCCAATATAGTGAATAAATCTCTGAGAAGAACTGACTGTCTTTAGAAAAGTAAATGTTGTATTTCCTGCACATCTTGCCTGTGGATAATGCATCTTCTTCATAAGTGCCTGGAAGTGCAGGAAACCCTATTGACCTCATTCTATTGTTTTAGAACTTCCGATTCAGTCGCCTATGGGAAAAATGACTAGGAATAATGAATGGCAGAAAACGATCAAACTACTTGCTCTACAAACAAATGTTTGCATTACTATACAGACCAAGTAGATTAATATAATAAGAAAAAATCAGTTTGCAACATCAAACAGCGAAACAAGCAGTTTTTAATGTCTAAAAATGAATGGAAGTGAATGAGACCAGAAGTCTCGAGCCAGAAGATTGGCAGTTGGCAGAGAGTAATTTTCCATCTCCTTCAGCTTGTCTGCTGTTTTGTTCCGATGTTATATGTGTACAGACCTGTTTGTGTTTGCTTCAGATTTTGAAATCATACAGTCTAATTTCGAGGAAAAACTGAACATGCTGGCTGCATCATCGTTTGAATCTTGATTAAAATGCAGTAAAGATCTCCTAAAGTGTATCGATGCATTTTTGCAAAAACAACTTACAAAAGAAGAGGCTGTCTTTCTGGCAGATTGTTTTTTTAACTGCGCTGCTGCATTTGATTTAACTGCAGTACATGCACTAATCATGGGCTAATTTTAATTTTTAGGTGAAATAACCCTTTGATTTTTTTTTTTTTTTTTTATCTCACCATAATTTGTCAAACTAGGTTCAGTCAGCACCTTTTAAACTACTTAAATACAATAATATGTATAGAATTATTTTATTCTATAAAAATGATTATCAAAATCATTATTTGAAATGCCACTTTAGATATAGGGATGTCTCAATCAGAAACCCCATCCGATACTTTTATAATACATTTTTTTTTTTTAAAAGAAGAAAGAAAAGGGAAGAAACAGATATAGGATGTTCCCTGTTTTTTATTTAATTCACCTTATTTTAACTTTCAACAATTCTGCCAACAGAGCATTTCTGTGAGGGAGCTGGAACAATCAAGTAATAAATAACATCAATTCTTCACTTTTGAACTTTAGTGCAACAGTAAATGAAAAAAAAAATTTACATAAAAACAAATAGCACCTTAACTTAAAATACCGGCAAAAAATCCCAAGTTTACATATCTCACAGTTTGCTATGACATTGTTGTCGCCATCAACTTTATAATGCCTCCAGACCGCTGACATACTCGCACTTTCTGCATCAAGCTGTTACCGTGTTTTACTTTGCTGGCCACGTGATTGGAACATCCCTAATTAGATACATTTGAAATGTAATTTGATGAGGATGCCAAAATGGGAAAACTCTTATCAGATTGCTACTCATTTTCATGGGTCAGACCAGGAAGTACTTTTGGAAGTATTTTGATTCATTCTTGAGAACTGCTTAGAAGGGCAGTATTGTTCAGCCAAGGGTTTTTGACCTCGAAGCAGCACACAGTTTGTCACCTAAGATGAGTCCACTGAAAGGGATAAAGGGATAAAGTGAGAAGATTGCGCTCTAACACAGCTCAGATAATTTCAACGGCAGTCATCATCTCTCCTTTTTCTTTGCCTTTTTACGTTTGACATTTTATAAGAGCCCACTTACAAGCATTAGATTTGTTTATCAGCCCATTCTCTTTTTCCTCTTCTCATTCATAACATCAACATGTCATCCTTAGAGTTTATATCTAATACCTAAAATCTGTCTCTCAATGGCCTTGTTTTATTGCGCCATCATTCAGAGAGGTAGCTGAGTGTTTGCAGAGTCTCTTCTATATTTGTGAGCAGGGTTTTTTTTTCTTTTCATTGTCCAG
Seq C2 exon
GCTCAGGCCCGTTTGCAGGAATCCTCTCAAAAACTGGACCTGTTGCGTTTGTCTCTGGAGCAGCAGCTTGGAGAACTTCCCCAAGACCATCCCAAACGAGCTGCCATTAAAGAAGAGCTGACAGTAGGTTCCTCTCCTGGTATTGGGTTGCAAAGGGAACGCCTGCGCTCTTCATCTTCAGCATCCTCTTCTCTCTTTAAACCAGCCAGCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079585:ENSDART00000112546:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.255 A=NA C2=0.548
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=76.5)
A:
NA
C2:
PF0218511=HR1=PD(43.8=43.8)
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]