BtaALTA0026256-3/4 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9161244-9161967:+
Coord C1 exon
chr23:9161244-9161459
Coord A exon
chr23:9161806-9161819
Coord C2 exon
chr23:9161820-9161967
Length
14 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CGCGGCCGACTCTCCCTCAGTCA
3' ss Score
5.74
Exon sequences
Seq C1 exon
CTGGCTGTGGGCTGCCCTGCCTCCGACAGCGGATGGAACGGCGGCTAAAAGGATCCCTGAAGATGCTTAGAAAGTCCATCAACCAGGACCGCTTCCTACTGCGTCTGGCAGGCCTCGATTATGAGTTGGCCCACAAGCCAGGCCCAGTAGCTGGGGAGCGAGTTGAACCAGTGGAGGCCTGTAGGCCTGGGCAGCACCGCTCTGGGGCCAAGTGTG
Seq A exon
TCAGCTGCCCGCAG
Seq C2 exon
GGAACGTATTACCACGGCCAGACGGAGCAGTGTGTGCCATGCCCAGCGGGCACCTTCCAGGAGAGAGAAGGGCAGCTCTCCTGCGACCTTTGCCCTGGGAGTGATGCCCACGGGCCTCTTGGAGCCACCAACGTCACCACATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226-21-26,21-25,21-24,21-23-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=87.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAGCTGGGGAGCGAGTTG
R:
CTGGCCGTGGTAATACGTTCC
Band lengths:
92-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development