GgaALTD1004880-1/3 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000003509 | C9ORF9
Description
chromosome 17 open reading frame, human C9orf9 [Source:RefSeq peptide;Acc:NP_001264636]
Coordinates
chr17:6714997-6715753:+
Coord C1 exon
chr17:6714997-6715097
Coord A exon
NA
Coord C2 exon
chr17:6715591-6715753
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGG
5' ss Score
9.77
3' ss Seq
TTTCTCTCCCTTTCTCCCAGATT
3' ss Score
10.83
Exon sequences
Seq C1 exon
GAACGGCGGCGGTTGCTACGGAGACGGCGGCGGCGGTTGCTAGGGACCCGGCTCGCGGAGCGCGCTGAGCCCGGCCCAGGCCGCACCGCCCCCACGCGCCG
Seq A exon
NA
Seq C2 exon
ATTCCAACAGAGGGAAAACATGAACGAGGTAAAGGATACTCTAAAAGTCATAGAAGACAACTACAAGCTCTTCCTGCAGCAGCAGTTCACGTTTGTTGGAGCTCTGCAACACACCCGAGAGAACGCACACGACATGATCAGACCCGTGGCGAGCATCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003509-0-0,1-0,2-0-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF151201=DUF4561=PU(27.5=97.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCTAGGGACCCGGCTC
R:
GCTGCAGGAAGAGCTTGTAGT
Band lengths:
145-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]