RnoALTA0035444-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75212873-75213801:+
Coord C1 exon
chr13:75212873-75212971
Coord A exon
chr13:75213690-75213692
Coord C2 exon
chr13:75213693-75213801
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
CCTGCCTCTTTCTCACCAAGCAG
3' ss Score
3.8
Exon sequences
Seq C1 exon
AGCTCTGGATTCGGCTGGTTCAGCTGGTTTCGATCAAAGCCTGCCAGCAGTGTGTCCACCTCTGGAGATGAAGACTCTGTGGACAGTTCTGACTCAGAG
Seq A exon
CAG
Seq C2 exon
GAGTCTCCCAGAGCATCACCTCCTCACCATGCCAGCCTGGGCCTCTCACCAACACCTCCTCTCTCATCCCCATCTCTGCCAGGTGCCAGCACCTTCCCGAGAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229-31-37,31-36-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.606 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCGATCAAAGCCTGCCA
R:
AGGTGATGCTCTGGGAGACTC
Band lengths:
95-98
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]