RnoALTA0035445-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75180947-75181849:+
Coord C1 exon
chr13:75180947-75181059
Coord A exon
chr13:75181722-75181728
Coord C2 exon
chr13:75181729-75181849
Length
7 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TCTGTTTTGTTTCCTCTGAGGGT
3' ss Score
-0.89
Exon sequences
Seq C1 exon
GTCAGGCTACGAGGACCCCTATCAGAGCTACCACACTCCGACACCGAGGGATGAGTACGCTTATGGAAATTACTACTACCACGGGCATCCACAGCTGCCGCAAGGAGAAAGAG
Seq A exon
GGTGCAG
Seq C2 exon
TGGCAAGGCAAGGGAGTCCTTATATCTGGCATGAAGATCACAGAGACCAAAGGCACTTCAGTGAGCATCATTGGGAAAAGCACAACAGTACATTTGAAGCAAACAGTGACACCCAATTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229-6-5,6-4-2/2
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=0.949 A=NA C2=0.951
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:
TACTACCACGGGCATCCACAG
R:
TGCTCACTGAAGTGCCTTTGG
Band lengths:
107-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]