DreALTA0001232-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000077920 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr19:45130122-45206345:-
Coord C1 exon
chr19:45206149-45206345
Coord A exon
chr19:45130186-45130329
Coord C2 exon
chr19:45130122-45130185
Length
144 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TTTTCGTGTTTGGTTGACAGCTG
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGAATTGCAGAGCAGTTCTTGTGGGAACCCTGGCGTCCCGCCTAAAGGCATTCTGTACGGGACGCGCTTTAATGTAGGCGACAAGATCCGCTACAGCTGTGTGACCGGCTACGTGCTGGACGGCCATCCGCAGCTCACCTGTGTGACTAATGCAGGCAACGCTGCCGTATGGGACTTTCCAGTGCCCATCTGTAGAG
Seq A exon
CTGAGGACACATGTGGTGATACTCTGAGGGGTTCAAGTGGCATCATTACGAGTCCCAATTTCCCGAGTGAATATTACAATAGTGCGGACTGTACGTGGACCATACTTGCTGATCCCGGAGACACCATTTCCATCATTTTTACAG
Seq C2 exon
ACTTCCAGACGGAGGAAAAATACGATTATTTGGAGGTGGAGGGGTCCGAGCCGCCAACAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077920-0-1,0-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.9)
A:
NA
C2:
PF0043115=CUB=PU(62.7=91.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAGAGCAGTTCTTGTGGG
R:
CATATTGTTGGCGGCTCGGAC
Band lengths:
257-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]