GgaALTA0002038-2/3 @ galGal4
Alternative 3'ss
Description
NA
Coordinates
chr20:5580301-5581273:-
Coord C1 exon
chr20:5581178-5581273
Coord A exon
chr20:5580507-5580509
Coord C2 exon
chr20:5580301-5580506
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTATGTTTTTCCTCTCCAGAAG
3' ss Score
9.78
Exon sequences
Seq C1 exon
GGCGTCAACCTGTATGTGAAGAACCTGGATGACGGGATAGATGATGAGCGGCTGAGGAAGGAATTCTCTCCTTATGGCACCATCACCAGTGCCAAG
Seq A exon
AAG
Seq C2 exon
AGGCTACCAAGGCCGTGACCGAAATGAACGGACGGATTGTTAGCACTAAGCCTCTCTACGTTGCGCTCGCGCAAAGGAAAGAGGAAAGGAAAGCAATTCTCACCAACCAGTACATGCAGCGATTGGCCACCATGAGGGCACTGCCTGGCCCTTTCCTTGGCTCCTTCCAGCCTCCCCCGGGGTATTTCCTCCCCCCCATCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004123-11-9,11-8,11-7-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.101
Domain overlap (PFAM):
C1:
PF073187=DUF1464=PD(12.0=37.5),PF0007617=RRM_1=PU(40.6=87.5)
A:
NA
C2:
PF0007617=RRM_1=PD(56.5=43.8)
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:
GATGATGAGCGGCTGAGGAAG
R:
ATCCGTCCGTTCATTTCGGTC
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]