RnoALTD0026768-3/3 @ 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
chr1:174436067-174436168
Coord C2 exon
chr1:174434029-174434181
Length
102 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGA
5' ss Score
3.37
3' ss Seq
GCTCTGTCTTTTCTTGGCAGCTT
3' ss Score
8.98
Exon sequences
Seq C1 exon
AAAGTGTGGAGGGGAGCTGGGGGATTTCACAGGGTACATTGAATCCCCAAACTACCCTGGGAACTACCCAGCCAACTCAGAGTGCACCTGGACCATTAACCCACCCCCCAAACGCCGGATCCTGATTGTGGTCCCTGAGATCTTCCTGCCCATAGAGGATGACTGCG
Seq A exon
GTGACTACCTGGTGATGCGGAAAACCTGTGCGTCTCTCCCTGGGCTTCCCTCCCTTCCCAAGGCAGTCTGGGAAACCTGATGACCTGCCCCCAGCTTTAAAT
Seq C2 exon
CTTCATCAAATTCTGTGACCACATATGAAACCTGCCAGACCTATGAACGCCCCATCGCCTTCACCTCCAGATCAAAGAAGCTGTGGATTCAGTTCAAGTCCAATGAAGGGAACAGTGCCCGAGGATTCCAGGTTCCCTATGTGACATACGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123-23-26,24-26,25-26-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
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 Inclusion Isoform:
NA
Other Inclusion 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGTGTGGAGGGGAGCTGG
R:
TTGATCTGGAGGTGAAGGCGA
Band lengths:
242-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]