DreALTD0016446-3/4 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000017010 | scamp2l
Description
secretory carrier membrane protein 2, like [Source:ZFIN;Acc:ZDB-GENE-030131-6432]
Coordinates
chr7:56800391-56801301:+
Coord C1 exon
chr7:56800391-56800413
Coord A exon
chr7:56800414-56800474
Coord C2 exon
chr7:56801184-56801301
Length
61 bp
Sequences
Splice sites
5' ss Seq
CTGGTGATC
5' ss Score
0.38
3' ss Seq
GTGTACTGATTGTGTTGCAGTGG
3' ss Score
7.22
Exon sequences
Seq C1 exon
GTGTTGATTTTCCTGGGCTTTCT
Seq A exon
GTGAGTGTGGGATCTGTTATCTGTAATGACATGGACATCCTCATGGTCATATGCTTTTCTG
Seq C2 exon
TGGCTGGATCACGGCCATCTCGGTGATCAAAACTAACATAGCCTTGTCTGTCTTCATGATGGTGGTGGCTGGATTCTTCACTGTCAATGCCGTGTTCTCTGTTATCTTACTGAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017010-16-14,17-14,18-14,19-14-3/4
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=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=PD(0.8=33.3)
A:
NA
C2:
PF041448=SCAMP=FE(21.9=100)
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTGATTTTCCTGGGCTTTCT
R:
CAGTAAGATAACAGAGAACACGGCA
Band lengths:
135-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]