GgaINT1021754 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5218454-5221898:+
Coord C1 exon
chr17:5218454-5218474
Coord A exon
chr17:5218475-5221633
Coord C2 exon
chr17:5221634-5221898
Length
3159 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGGGCAGCTGTCTCTTGCAGCTG
3' ss Score
5.4
Exon sequences
Seq C1 exon
ATGGCGGCGGGGAGTCCGCAG
Seq A exon
GTGAGCGGCGCGGAGGGCGGGGCGAGCGTGAGGTGGGGGGCATCGAGGCGTCTCCCCCGAGCCCGGTCCTGGGGGCCCTCTGAGGGTTTCCCCATCCTCCCGCCTGGAAAACTCGGCCCCGTGCTCCGCCGGAAGCCCAGAGGGGGCGGTGGGCAGAGAGGATTGCGGCTCTCTCCCACGGACCGCGCCCCGGGCGCTGCGAGAGGGAGTGGGTGGGGGGGGAGCGATCCCGCAGCGCCCGGCGCTCCTCAGGGAATCGGGGTCTGTGCTGCGGAGGAAAGCGGGGTCCTCCTCGGCATGGGAGGGGCTGCGCGGCTCCCCGCTGGGCAAAACACTGATTTCTGGGATAAGCTCCCCGGCACAGGGGGTGCGAACTCCTCCATGAGGCGTTTCGAGCCGAATCTGGGCAAGAAGTGATGGAGAGGCGGCACAAAGAGCTCTCGGTGCCATTGCTGCGGTGTGCCCCATCCTGCAGCCACACGGGCTCTCCGTGCTTGCCAAAAATCTCATCGCCCGGTGTTGGAAGGAGGACCAGCTCCAGGCAGGGCTGCAATCGCTTTTTTCCAAACCGAGCCGTGTCCTTTTCTTGTGAAGAGTGACTGCGGTTAACGTGAGTCTGCCCGACATGGGCCTCGACACGAAGTTGCTGTGAAAGAAGGGATTTAAAACGCTCTGGTGAACGCGTGCGGTCTGCAGCGGGGATGCGCTCATCGCCCCTGACTCCTTACATCAAACTGTAGATCGGTTTCAGTCGGTCAGAGCTCTGAGGGACGGCTCTGTGCTGGGCTTTGTGCGGGTGGAGCTGATGGCCGGGCTGGGTAGCAGCCCAGGGGCTGCGATCCAGAGGGCTAAGGGCAACTTGGGCTCTGCTGAAGTCTTTGCTGGTTAGGAAGCAGTCTGGATGCTTCAGCACAGCCTGAGTGCAGCTGAAGCCCTGGGTGAGATCTAGCAGCCAAAAGTACCCCAAGTGAGCTAATTAAAGCTAGCTGGGGGTATTTCTGTGCAAGCTGTGAATGTGCGCCGGGATTGCACTGTAGGCATTCGCTGAAGGGCTGACCTCTGGAAAGCCAGGAACAGCTGCACGTGGGCTGTAGCGACATCCCGACATCCCACCGACGTTCCTGGGTCAGAATGCAAAATGCATCAACACAAATGCAAATGTAGCTTTCTTATCCTCCTCAGTAATGCAATGTTCTATGCTCCTGGAGCAAGCTGTATCTATGTTAAGGCATCCCTGCTCTATAGAGGGGTAGTAGGACCCAGTAAAGCATACCATGCTTACATTCTAATTGTATTTAGGAAATGAGTGTGGTGCATTCTGACCAGCTTCTGGCAGAGTGACTTGAAGGAAAACTGACCTGACTGCTGCCCAGATTGTTCCTGTTCTCTGAATCGGTATCCAGGTTTCTGGACTCGGTACCCTTTGTCAGCATTAATCTTGCATCAGCTACTCATTCTATTGCTCTGGGTGGATGGAGGGGAAGAACTGCTTACCTCCATTTGCATAGTTTGGATAGAAAATAAATCTACCTGCTTTTTCTGATTTTTTTTTTTTTTAAATTAGCCTTAACCAGCAGACTAATGTTAGTCACTTTTTACACACTGGATAAAGAGCTTTTTGATTTTCCAAACTCGAGCTGGTAGAGGTTGCTTGTGAGTCAGGAACTCCATGATTCAAGTTCTTCCTCGCAAAACCCTGGATGTTTTTCAAAGCTCTGGCTTAGTTCCTGGCTTTATTAATTGGGCGAGAACTTCCTGGACTCAGGATGTTAATCTGAACCTTTTTGTTTTGCTACCAATCTGAACAATTCCTATTATGGCTATAGCGTATCCCTTGCAGACCCAACTTGGTTTTAGGCCAAATTTAAAATAGATTTGTTTTTCCTTCTAGTTCTTTCATTATTTTGCTGTCAGGCTGAAATTGTACTGCAAACTGATCGAGGATCTTGGTTTGGGTCTTTGAGATGCGTAACGAAATATACAGAGTGTGATTGGATAATTATGTGTTTCTGTGTGAGTGGCACAGGCTTTGGGTACATAGCACACTTAAAGTGCAGCAGTGTACGTTGAGTAATGCAAAACCAGTGTGGTTTATTGTTGGGAATGTGGTCAACCAATTAAAGAATATGAAAGCAAGTCAGGATTCCTGAGTTCTGTCTTTAGTGTGGTTGTGTGGTATCGAGTTGGAAGGGAGTTTGGCTGTGCAACCATTTCTTTTGCATTTAAGTGGGGAACGTGATCGTGCTACGTTGTTAAGATGTTAAATGCTCTTAATGCCATAAAGCCACCCCTTGTGCAGAAGAGAGAAGCACAGCCTCTTGTTTTGATCTGTTTCTTTAGGTATTAGGTAGCATCCTTCTGGGTAAAGTCTTAAGAGCTCCTGTTTGAATTCAGTGCTTGTTTGGTGAGTGAGATATACCTTAGATGCTGCTGCCTATACTGTGCCGGTTCAAGGTTTGTATACAGAACACCTCTGTCCAGAGGTGCTGCTGAGGCATATCTCAGCAGAACAGGGCGTATTGAAAACAATACAAAACAAAGCCCAGAGCAAGTGTGGTGTCTGCTGAATGAAACATGGAAAGTGGCCTTGCTGCCTGCAAACCACAGGTGGAGCACAAGTTGAGACAGCAGGCTGCTTCCCTTTTCAGACACAGCTGAAAGTTAAGCTTATTCTCTGCTCGTTCGTAAGCAGCTGCTGTAGGGGTTATGTTTTTCTTCTTTGGGATAACAGCTTTGAGTTGTGATGTTCTGTAACGTCTCTAACAGGTTAGTTGGTGTGTGTCTTTGGACATATAATCTGTATTTACTGTATGGTACTAGTAAAACGTGATCAGGACAAAGGCAAATATTGGCTAAGCTTTGATACTGTAGGAACAAAGATTTATGTAGCCATTAAGTAACCAAAAGAAAACTAAGATGGAGGTTTGTTTCTACTGTGATTTAAAGCCAAATTACGGCACAGTATAATCAAAGTTACATTTTGTCCTCCAGAATTTGAATCTAAGTCTTGAAAACTTCATGAAAGGATGAGCTTCAGAGTTTGTGCAAACCATTTTCTAAATGAAATGAGAGAGTGGAATCTTTATAAGGGTATTGTTTCATCCTTAAAAAGAAGGTTAAACTGTTATTGCTTGATTGCAGGGCAGCTGTCTCTTGCAG
Seq C2 exon
CTGGGCAATGGTGTGAACTTAATGGATCCAAGCTTCCAGCAAAAACTGGAGGGCGAGAAGGAACTACTTCGTCGTGCTATACAGAAAGAACTGAAAATTAAAGAGGGAGCAGAAAACCTGCGTAAAGCGACGACAGACAGAAAAAATCTTGCTCATATAGAGCATGTGCTGAAATCCTCCAACCGCAAACTAGAACAACTTCATTGGGAACTTCAGGAGCTCAATGCAAGGATTGTGATAACTGACAAAGAGGACAATAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.337
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218511=HR1=WD(100=75.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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]