RnoALTD0026768-2/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000013123 | Scube2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:RGD Symbol;Acc:1563998]
Coordinates
chr1:174434029-174436335:-
Coord C1 exon
chr1:174436169-174436335
Coord A exon
chr1:174436142-174436168
Coord C2 exon
chr1:174434029-174434181
Length
27 bp
Sequences
Splice sites
5' ss Seq
CCTGTGCGT
5' ss Score
4.27
3' ss Seq
GCTCTGTCTTTTCTTGGCAGCTT
3' ss Score
8.98
Exon sequences
Seq C1 exon
AAAGTGTGGAGGGGAGCTGGGGGATTTCACAGGGTACATTGAATCCCCAAACTACCCTGGGAACTACCCAGCCAACTCAGAGTGCACCTGGACCATTAACCCACCCCCCAAACGCCGGATCCTGATTGTGGTCCCTGAGATCTTCCTGCCCATAGAGGATGACTGCG
Seq A exon
GTGACTACCTGGTGATGCGGAAAACCT
Seq C2 exon
CTTCATCAAATTCTGTGACCACATATGAAACCTGCCAGACCTATGAACGCCCCATCGCCTTCACCTCCAGATCAAAGAAGCTGTGGATTCAGTTCAAGTCCAATGAAGGGAACAGTGCCCGAGGATTCCAGGTTCCCTATGTGACATACGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123-23-26,24-26,25-26-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(57.3=94.0)
A:
NA
C2:
PF0043115=CUB=PD(41.8=88.5)
Main Skipping Isoform:
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:
TGGTCCCTGAGATCTTCCTGC
R:
TGATCTGGAGGTGAAGGCGAT
Band lengths:
113-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]