BtaALTA0026123-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012094 | SCAMP3
Description
secretory carrier membrane protein 3 [Source:HGNC Symbol;Acc:HGNC:10565]
Coordinates
chr3:15432609-15433452:+
Coord C1 exon
chr3:15432609-15432686
Coord A exon
chr3:15433330-15433369
Coord C2 exon
chr3:15433370-15433452
Length
40 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GTCTTTTCCAAACTCAACAGCCA
3' ss Score
6.23
Exon sequences
Seq C1 exon
GACCCAGCTGTGATCCAGCATCGACCCAGCACGCACTATGCTACTCTTGACGTCTACAACCCTTTTGAGACCCGGGAG
Seq A exon
CCACCAGCAAGCTATGAGCCTCCTGCCCCTGTTCCGATAG
Seq C2 exon
CTCCACCCTCAGCTCCACCCTTGCAGTCCTCAAGAAAACTCAGCCCCACAGAACCCAAGAACTATGGCTCCTACAGCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012094-2-3,2-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF049918=LicD=PU(28.3=78.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
TGTGATCCAGCATCGACCCAG
R:
GTTCTTGGGTTCTGTGGGGC
Band lengths:
132-172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development