RnoALTD0007935-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000007057 | Csmd2
Description
CUB and Sushi multiple domains 2 [Source:RGD Symbol;Acc:1565728]
Coordinates
chr5:146576114-146581758:+
Coord C1 exon
chr5:146576114-146576294
Coord A exon
chr5:146576295-146576302
Coord C2 exon
chr5:146581589-146581758
Length
8 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
TATTGTGGTTGTCGTTCCAGCGG
3' ss Score
7.05
Exon sequences
Seq C1 exon
AGTATGACCTGGAGCCCTGTGAAGAGCCTGAGGTTCCGGCCTACAGCATCCGAAAGGGCTTGCAGTTTGGCGTGGGTGACACCCTGACCTTTTCCTGCTTCCCCGGGTACCGTCTGGAGGGCACGGCCCGCATCACGTGCCTGGGGGGCAGACGGCGCCTGTGGAGTTCGCCTCTGCCAAG
Seq A exon
GTGTGTTG
Seq C2 exon
CGGAGTGTGGGAACTCGGTCACGGGCACTCAGGGCACTCTGCTGTCCCCCAACTTTCCTGTGAACTACAATAACAATCACGAGTGTATCTACTCCATCCAGACCCAGCCAGGGAAGGGGATTCAGCTTAAAGCCAAGGCATTTGAACTCGCTGAAGGAGACCTCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007057-21-29,22-29-2/2
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:
PF0008415=Sushi=WD(100=87.5)
A:
NA
C2:
PF0043115=CUB=PU(50.9=94.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCGTCTGGAGGGCAC
R:
TGACCGAGTTCCCACACTCC
Band lengths:
97-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]