BtaALTA0026124-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012094 | SCAMP3
Description
secretory carrier membrane protein 3 [Source:HGNC Symbol;Acc:HGNC:10565]
Coordinates
chr3:15433537-15434257:+
Coord C1 exon
chr3:15433537-15433657
Coord A exon
chr3:15434129-15434190
Coord C2 exon
chr3:15434191-15434257
Length
62 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
GCTCTTTTTGTGCCTTACAGCTC
3' ss Score
10.19
Exon sequences
Seq C1 exon
GCTTCAACTGCAGCAGCCACAGCTGAGCTGCTAAAGAAACAGGAGGAGCTCAACCGAAAGGCAGAGGAGTTGGACCGAAGGGAGCGAGAACTCCAGCATGCTGCCCTGGGCAGCACAGCTA
Seq A exon
CTCGACAGAACAATTGGCCTCCTCTACCTTCTTTTTGCCCGGTTCAGCCCTGCTTTTTCCAG
Seq C2 exon
GACATCTCCATGGAGATCCCCCAAGAATTTCAGAAGACAGTATCCACCATGTACTACCTCTGGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012094-5-6,5-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.780 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF049918=LicD=FE(35.4=100)
A:
NA
C2:
PF049918=LicD=PD(34.5=88.6),PF041448=SCAMP=PU(23.6=95.5)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAACTGCAGCAGCCACAG
R:
TCTTGGGGGATCTCCATGGAG
Band lengths:
146-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development