GgaALTD0006243-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132992891-132997040:-
Coord C1 exon
chr2:132996860-132997040
Coord A exon
chr2:132996852-132996859
Coord C2 exon
chr2:132992891-132993060
Length
8 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
ACATTTTGTTTTACCTGCAGCTG
3' ss Score
10.69
Exon sequences
Seq C1 exon
AGTATAATCTTGAACCTTGTGAAGATCCAGGAATCCCACAGTTTGGTAACAGAGTAGGATTTAATTTTGGAGTGGGAGATACTCTGACGTACTCCTGTTCATCTGGATATCGTTTAGAAGGAACTTCAGAGATTATCTGTCTTGGTGGTGGCCGACGAGTATGGAGTGCACCTCTGCCAAG
Seq A exon
GTGTGTGG
Seq C2 exon
CTGAATGTGGAGCCTCCACAACAAATAATGAAGGGATTTTACTGTCCCCCAATTATCCTCTTAACTATGAAAACAACCATGAATGTATTTATAGCATTCAGGTACAAGCAGGGAAAGGAATAAACATTTCTGCCAGAACATTTCATTTAGCTCAAGGAGATGTTCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111-24-27,25-27-2/2
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
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCGACGAGTATGGAGTG
R:
AGAGGATAATTGGGGGACAGT
Band lengths:
94-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]