BtaALTD0006105-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112686500-112693505:+
Coord C1 exon
chr3:112686500-112686680
Coord A exon
chr3:112686681-112686688
Coord C2 exon
chr3:112693336-112693505
Length
8 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
TATTGTGATTCTGTTTCCAGCTG
3' ss Score
8.5
Exon sequences
Seq C1 exon
AGTATGACCTGGAACCCTGCGAGGAGCCCGAGGTCCCAGCCTACAGCATCCGGAAGGGCTTGCAGTTCGGCGTAGGCGACACCTTGACCTTCTCCTGCTTCCCCGGGTACCGTCTGGAGGGCACGGCCCGCATCACGTGCCTGGGGGGCAGACGGCGCCTGTGGAGTTCGCCTCTGCCAAG
Seq A exon
GTGTGTTG
Seq C2 exon
CTGAGTGTGGGAATTCGGTCACGGGCACTCAGGGTACTCTGCTGTCCCCCAACTTTCCTGTGAACTACAATAACAACCACGAGTGCATCTACTCCATCCAGACCCAGCCAGGGAAGGGAATTCAGCTCAAAGCCAAGGCGTTTGAACTCTCTGAAGGCGATGTCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784-32-30,33-30-2/2
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:
CGTGACCGAATTCCCACACTC
Band lengths:
99-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development