GgaEX6015026 @ galGal3
Exon Skipping
Gene
ENSGALG00000005045 | CDK9_CHICK
Description
NA
Coordinates
chr17:5526660-5529196:-
Coord C1 exon
chr17:5529106-5529196
Coord A exon
chr17:5526996-5527162
Coord C2 exon
chr17:5526660-5526831
Length
167 bp
Sequences
Splice sites
3' ss Seq
CCTCCTTGCCTCTCCTGTAGCCT
3' ss Score
9.15
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
Exon sequences
Seq C1 exon
TTCCCCATCACAGCTCTGCGAGAGATTAAAATCCTCCAGCTGCTCAAGCATGAGAATGTGGTGAACCTCATAGAAATCTGTAGGACCAAAG
Seq A exon
CCTCTCCATACAACCGCTGCAAGGGAAGTATCTACCTGGTGTTTGACTTCTGTGAGCACGACCTGGCTGGCCTTCTCAGCAACACCCACGTCAAGTTCACGCTCTCAGAGATCAAGAAAGTTATGCAGATGCTATTGAATGGACTGTATTACATCCACAGGAACAAG
Seq C2 exon
ATCTTGCATCGAGATATGAAAGCTGCAAACGTTCTGATCACGCGGGATGGAGTCCTGAAGCTTGCAGACTTTGGGCTGGCTCGAGCTTTCAGCCTGGCTAAGAACAGCCAGCCGAACCGCTACACCAACCGGGTCGTGACTCTGTGGTATCGGCCGCCGGAGCTGCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005045-'5-4,'5-3,7-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.1=100)
A:
PF0006920=Pkinase=FE(18.5=100)
C2:
PF0006920=Pkinase=FE(19.2=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCATCACAGCTCTGCGAGA
R:
GCCGATACCACAGAGTCACGA
Band lengths:
242-409
Functional annotations
There are 1 annotated functions for this event
PMID: 23140174
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, protein kinase assay, western blot. ELM ID: ELMI003213; ELM sequence: TKASPYNR; Overlap: PARTIAL_LEFT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]