GgaINT0015622 @ galGal3
Intron Retention
Gene
ENSGALG00000004735 | MAP2K3
Description
NA
Coordinates
chr14:4514546-4515015:-
Coord C1 exon
chr14:4514902-4515015
Coord A exon
chr14:4514666-4514901
Coord C2 exon
chr14:4514546-4514665
Length
236 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTTTCCTTAATATTTATCAGAGG
3' ss Score
6.21
Exon sequences
Seq C1 exon
AACTTTGAGGTGGAAGCTGATGACCTGGTGACTATTTCAGAGCTGGGCCGGGGGGCCTATGGTGTGGTGGAGAAAGTGAGGCATGCTCAGAGTGGCACCATCATGGCCGTGAAG
Seq A exon
GTGAGGATGGCTTCCTCCTGGTGGGGAAGAGGAGCTGTGGGGTAGAATGGGGTGTCAGAGATGGGGGCTTGTTGGATTTGGCAGCCTCCTGTGTCCCCTTGCAGTCCAATATGGCACTTAGGTGGTGTCATCCATTATGGGGCTGTTTGTAAGAGGTCATCTGGGCACCTCTGGGGGGTGTGCAGGCTACAGAACTCCACCTACATCAAAACCTTTTTTTCCTTAATATTTATCAG
Seq C2 exon
AGGATTCGTGCCACGGTGAACACTCAGGAGCAGAAGAGGCTGTTGATGGACCTGGATATCTCCATGAGGACGGTTGACTGCTTCTACACGGTCACTTTCTATGGAGCCCTATTCCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004735:ENSGALT00000040763:5
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=PU(11.1=76.3)
A:
NA
C2:
PF0006920=Pkinase=FE(16.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGTGGAAGCTGATGACCT
R:
TCTCGGAATAGGGCTCCATAGA
Band lengths:
228-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]