GgaINT1021749 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14119741-14121335:-
Coord C1 exon
chr8:14121193-14121335
Coord A exon
chr8:14119849-14121192
Coord C2 exon
chr8:14119741-14119848
Length
1344 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
GTTTATCACTTCAATTATAGTCT
3' ss Score
4.81
Exon sequences
Seq C1 exon
GAATGGGATTTGGAGACAGAACAAGCACATTCTGTGGCACACCAGAATTCCTTGCTCCAGAGGTGCTGACAGAAACTTCCTATACAAGAGCTGTAGACTGGTGGGGTCTTGGTGTCCTTATCTATGAGATGCTTGTGGGTGAG
Seq A exon
GTACGTTCCAGTAAAATACAACGAAGTCATAATAATGTATGTTACAAAATTTAAAATACTGGCCTGTAAAACATTTAATATGCCCTACACACAACAGTTATATTGATATACAGTATGTATAGGCACACCTAGTTTTAGACTGAGCATCTTCAAGATTCATTAAGAAAAAACAGGAACCATTTAACTGATACTAGCTGCTCTTAACACTGCCAAAATTGATTAGTCATGTCATGGGCTTAAGTTACCAGCTGCTCTGCAAGCAACTGAGTCATAGTCTGTTCAAGACCTTTGAATTTGTTCGGTTTGCTTCTAATTACATCATTATGTCTTAAATCAAATTATGGTAATGACACATTAATATCAGCAAGAAAATGGCACGTTTGGTTTGGGGAGTTCGGTATCTAGCATGCAGGGCAGAGCAGTAACAACTATCCATTTCAGTTACCTCGTCTTTTATTGCCAAATTTGGATGCATAATGCTATAGCAGTCTTCTTTTTTCCAGTGTCTGAGTTTGGAAAATCAACTCCTTAACTCCTGTAGCTTGAATGGAAGAAAACCTTAATTCATAGAACTGGGTAGTAGTGAAAGATGATGCCGAAGTTACCAATTATCTGAATTACCCATTCGAACAGAATTGCCCCAGTTCTGTATAAATGAGATGGTACAAAGAAATTATTATTAGGTAGTTACTTAGCATTGCATATGTAGCCTTACCTTCAGGTCTATGTTGTTAGAGTTATCTCCAGAGTAACGTGGTGATGGCTTACATGCTAAAAATGTGAGAGAAAACTATAGATTTGTTCGTCATAGTATTCTTTTTGAAACAAAGGTAGCTCCTTTCAGGTTTTTTAAGGAGGGAAAAAAAAAAAAAGGACAAAAAACTTGCAAGGTGTGGTCTGCATCATTCAGGCCGCTCTAAAACATAAGCTATAGCATGGTGAAGATATAAACCAGCCTTTCACGTGTTACTTGTGGGTGGCAGCTGTCCCAGCAAAGAACTAATAAATGCCTTCCACATTCTCTATCTGTCTTGTGTCAAGAGTTCAGAAAAGAGACTAGTTAGTTATAGGTTTTTCTGCTTTTAAAAACACACTTTTAAAGCACAGTCCTTTAGTTTAAAAAAAAAAAAAAAAAAGAGGGATAACAACAGATTACTTAGAAGGGATAACAGATTCTCTCTTAGTTACGGAAAAGGATTGTGTATTTCCAGGGAAAGGAGAGTTTCAATTTAGGAAGACCAGCTCCAAGCTGTCAGCTGAAAACATTGCAATTTTTTCTTCTTTGAACTGCGAGTGATTTTTAAGCCTGTTCAGTAATTGTGGGGTTTATCACTTCAATTATAG
Seq C2 exon
TCTCCTTTCCCTGGAGATGATGAAGAAGAAGTGTTTGACAGTATTGTAAACGATGAAGTAAGATATCCACGATTTCTGTCTACAGAAGCCATCTCTATAATGAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:18
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=0.000
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATTTGGAGACAGAACAAGCA
R:
CGTCTCATTATAGAGATGGCTTCTGT
Band lengths:
246-1590
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]