RnoALTA0035106-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000019136 | Scamp2
Description
secretory carrier membrane protein 2 [Source:RGD Symbol;Acc:68348]
Coordinates
chr8:62356826-62357571:+
Coord C1 exon
chr8:62356826-62356924
Coord A exon
chr8:62357392-62357453
Coord C2 exon
chr8:62357454-62357571
Length
62 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TGTCACCCTCCCCACCCCAGGCT
3' ss Score
8.49
Exon sequences
Seq C1 exon
ACAAATGCAGCGACAACAGTTCCTGTCACACAACTTCCTGGGCCCTCCCAGCCAGCAGTTCTCCAGCCCTCAGTGGAGCCAGCACAGCCATCGCCCCAG
Seq A exon
GCTTCTCACTGCCTTGGTGAGCATGGCCCACAGTGGAGTTGTGTATTGCAGCTCCTGCTTAG
Seq C2 exon
ACAGGCCAGCAAGTTTCTGCCTGCCCGATTCCTGGCAGCGGGTGAGCCCTCAGAGAGGCAGATGCTACTAGGAGGAGATAGTAGTCCCAGGGACAGCTACATGTGCAAGCTTCCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019136-6-7,6-6,6-5-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.970 A=NA C2=0.326
Domain overlap (PFAM):
C1:
PF120723=DUF3552=PU(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
TTCTCCAGCCCTCAGTGGAG
R:
CACATGTAGCTGTCCCTGGGA
Band lengths:
146-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]