RnoALTD0026868-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3876431-3876866:-
Coord C1 exon
chr3:3876746-3876866
Coord A exon
chr3:3876744-3876745
Coord C2 exon
chr3:3876431-3876605
Length
2 bp
Sequences
Splice sites
5' ss Seq
GGTGTGCTG
5' ss Score
-13.57
3' ss Seq
TGCTTGATCTCTTTCCCAAGAGT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGACCCCTATGGAGAAGAAGTAGACAGACGCAGCATCCACAGCGAGCACTCAGCCCGGAGCCTGCGCAGTACTCACAGCCTGCCCAGCCGCCGCAGCAGCCTCAGCTCCCATTCACACCAG
Seq A exon
GT
Seq C2 exon
AGTCAGATTTACAGAAGCCACCATGTGACTGGCGGTTCCTTTGAGGCCCCCCATGCCCCAGGCTCATTTCATGGTGATTATGCCTATGGTACCTATGCCAGCAATTTCAGCGGTGCCCATGGTTTTCCAGAGTACAGCTACCCTGCAGACACCTCCTGGCCTGCTGCGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122-11-10,12-10-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.687 A=NA C2=0.525
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGCTCCCATTCACACCAG
R:
CACCATGAAATGAGCCTGGGG
Band lengths:
97-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]