DreALTA0023894-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000063097 | scube1
Description
signal peptide, CUB domain, EGF-like 1 [Source:ZFIN;Acc:ZDB-GENE-050302-78]
Coordinates
chr4:8911643-8912112:-
Coord C1 exon
chr4:8911906-8912112
Coord A exon
chr4:8911801-8911804
Coord C2 exon
chr4:8911643-8911800
Length
4 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
AATTTCTGTTTGTCTCCCAGTCA
3' ss Score
8.02
Exon sequences
Seq C1 exon
AATCATGCAACTTGGACTGCGTTCGCGAGAAAACCAAACAGCGATTACAGAACGCCATGCGCACACTAAGAAAGTCCATCAGTAAGCAACAGTTCTACATCCAGTTTTCTGGCACCGCATATGAAGTTGCCCAGCATGCTTTACGACATACGACTGAAGGAGATGAAACCTGCAGTATAGGACAGGTCTTTACCGATGGGAAGTGCG
Seq A exon
TCAG
Seq C2 exon
CTGCGTTGTGGGAACATTTTACAGTGGAGAACAGGAACAGTGCGTCATGTGTCCTCTTGGAACCTATCAAGACAGGGAAGGCCAGCTGTCCTGCGAGCCCTGTCCCAGAACTGAAGGACAGGGCATCGCAGGAGCCAAAAACGTCTCTGAGTGCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063097-17-21,17-20-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.071 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 Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
TCTTTACCGATGGGAAGTGCG
R:
GGCCTTCCCTGTCTTGATAGG
Band lengths:
104-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]