GgaALTA0006585-2/3 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000012526 | PRPF40A
Description
NA
Coordinates
chr7:37183686-37184052:-
Coord C1 exon
chr7:37183938-37184052
Coord A exon
chr7:37183769-37183777
Coord C2 exon
chr7:37183686-37183768
Length
9 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTATCTAGTTTCTTCATCAGGAT
3' ss Score
5.54
Exon sequences
Seq C1 exon
ATATTTTTAGATGAACTGCACGAGCACGGACAGTTACATTCGATGTCCTCTTGGATGGAGTTGTACCCAACCATAAGCTCTGACATCAGATTCACTAATATGCTTGGTCAGCCTG
Seq A exon
GATCAACAG
Seq C2 exon
CACTTGATCTCTTCAAGTTCTATGTTGAAGACTTAAAAGCACGTTACCATGATGAGAAGAAGATCATAAAAGATATCCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526-23-30,23-29,23-28-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(67.9=100)
A:
NA
C2:
PF0184614=FF=PD(17.9=32.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAACCATAAGCTCTGACA
R:
TGGTAACGTGCTTTTAAGTCTTCA
Band lengths:
100-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]