Special

DmeEX6009432 @ dm6

Exon Skipping

Gene
Description
The gene Protein kinase N is referred to in FlyBase by the symbol DmelPkn (CG2049, FBgn0020621). It is a protein_coding_gene from Dmel. It has 17 annotated transcripts and 17 polypeptides (14 unique). Gene sequence location is 2R:9252310..9285097. Its molecular function is described by: protein serine/threonine kinase activity; protein kinase activity; ATP binding; protein binding; GTP-Rho binding. It is involved in the biological process described with 9 unique terms, many of which group under: cellular component organization; regulation of wound healing; localization; cell division; post-embryonic animal organ development. 65 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; array of sensillum rows; non-connected developing system; adult head; intracellular non-membrane-bounded organelle. The phenotypic classes of alleles include: female semi-sterile; some die during larval stage; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chr2R:9254275-9255022:-
Coord C1 exon
chr2R:9254651-9255022
Coord A exon
chr2R:9254481-9254588
Coord C2 exon
chr2R:9254275-9254415
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATAATAATTAATGTTTACAGTCC
3' ss Score
3.88
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
Exon sequences
Seq C1 exon
CAACACGTATGCTTTGTGATGGAATACGCTGCTGGCGGAGATTTGATGATGCACATCCACACGGACGTGTTCCTAGAGCCGAGAGCCGTTTTCTACGCCGCTTGTGTGGTTCTGGGCCTGCAGTACCTGCACGAGAACAAGATCATCTACCGGGACCTGAAGCTGGACAATTTGCTTTTGGACACGGAAGGATATGTGAAAATTGCGGACTTTGGTTTGTGCAAGGAGGGCATGGGCTTTGGTGATCGCACGGGCACTTTCTGTGGTACGCCCGAGTTTCTGGCACCGGAAGTGCTCACGGAAACTTCCTACACACGAGCTGTGGATTGGTGGGGCTTGGGTGTGTTGATCTTTGAGATGTTGGTTGGTGAG
Seq A exon
TCCCCATTCCCTGGTGACGATGAGGAGGAAGTATTCGATTCAATTGTCAACGATGAGGTGCGCTATCCGCGCTTCCTATCGCTGGAGGCCATAGCCGTGATGCGTAGG
Seq C2 exon
CTTTTGCGCAAGAATCCAGAGAGACGTCTGGGATCTTCGGAACGGGATGCGGAGGATGTTAAGAAACAGGCATTCTTCCGGTCAATTGTGTGGGATGACCTGCTCCTGCGAAAGGTTAAACCACCATTTGTGCCGACAATT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0020621-'38-29,'38-28,39-29=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.106
Domain overlap (PFAM):

C1:
PF0006920=Pkinase=FE(47.3=100)
A:
PF0006920=Pkinase=FE(13.5=100)
C2:
PF0006920=Pkinase=PD(9.6=53.2),PF0043319=Pkinase_C=PU(2.1=2.1)


Main Inclusion Isoform:
FBpp0111810


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0087682, FBpp0087683, FBpp0087684, FBpp0087685, FBpp0087686, FBpp0290726, FBpp0291759, FBpp0291760, FBpp0297540, FBpp0300526, FBpp0308399, FBpp0308400, FBpp0308401, FBpp0308402, FBpp0308403


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
HIGH PSI
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
HIGH PSI
Chicken
(galGal3)
HIGH PSI
([1])
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCTTTTGGACACGGAAGGA
R:
TCCGAAGATCCCAGACGTCTC
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Neural diversity
  • Neurogenesis
  • Neuronal activity
  • Splicing factor regulation (brain)
  • Splicing factor regulation (SL2)