HsaALTA1020851-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000121904 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr1:33527196-33533229:-
Coord C1 exon
chr1:33533050-33533229
Coord A exon
chr1:33527259-33527261
Coord C2 exon
chr1:33527196-33527258
Length
3 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTTCCACTCTTTTTCCCCAGCAG
3' ss Score
8.98
Exon sequences
Seq C1 exon
CCCACCACTGCAGGCAGCCAGAGACGCCAACGCATGCCAACGTCGGGGCCCTGGATTTGCCCTCCATGGGCTACACGCTCATCTACTCCTGCCAGGAGGGCTTCTCCCTCAAGGGTGGCTCCGAGCACCGCACCTGCAAGGCGGATGGCAGCTGGACAGGCAAGCCGCCCATCTGCCTGG
Seq A exon
CAG
Seq C2 exon
AGGTCCGGCCCAGTGGGAGACCCATCAACACTGCCCGGGAGCCACCGCTCACCCAAGCCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121904-108-134,108-133-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.8)
A:
NA
C2:
NO
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAAGGGTGGCTCCGA
R:
GCAGTGTTGATGGGTCTCCC
Band lengths:
108-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains