DreALTA0023904-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000011490 | scube3
Description
signal peptide, CUB domain, EGF-like 3 [Source:ZFIN;Acc:ZDB-GENE-060717-1]
Coordinates
chr23:41433808-41441288:-
Coord C1 exon
chr23:41441085-41441288
Coord A exon
chr23:41433966-41433969
Coord C2 exon
chr23:41433808-41433965
Length
4 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
TGCTGGCTACTCTTTCTCAGTCA
3' ss Score
5.07
Exon sequences
Seq C1 exon
GGAACTGCAACATGATGTGTCAACGGCAGCACATGGAGCAGCAGATGAAGACGTACATTAAAACCCTGAAGAAGTCCATTAACCAGGAGCGTTTCCTGCTGCGTGTCGCTGGACTGGAGTATGAGGTGGCACAGAAGCTCACACAGACAGCGTTGAAGCAGGAGAACTGCGGACCGGGCCGAGAAAAGGACAGCGGACGTTGTG
Seq A exon
TCAG
Seq C2 exon
ATGTTTGCCTGGCTCATATTACCATGGGGAGCAGGAGCGATGCATCCAGTGCCCACCGGGAACCTTCCAGGAGCGGGAAGGTCAGCTTGCCTGCGATCTGTGTCCTGGAGGAGACCGGCATGGCCCACAAGGAGCCCGCAACATCACGTCATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011490-12-14,12-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.145 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
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCGTTGAAGCAGGAGAACT
R:
GCTCCTGCTCCCCATGGTAAT
Band lengths:
95-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]