GgaALTD0006329-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000016341 | CSMD1
Description
NA
Coordinates
chr3:92794115-92806888:+
Coord C1 exon
chr3:92794115-92794295
Coord A exon
chr3:92794296-92794303
Coord C2 exon
chr3:92806719-92806888
Length
8 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
TGTCTGTCTGTTTTCTTTAGCTG
3' ss Score
9.78
Exon sequences
Seq C1 exon
AATACGATCTAGAGCCATGTGATGATCCTGGTGTTCCTGCCTTCAGCAGGCGAATTGGCTTTCAGTTTGGTGTTGGAGACTCCTTGATCTTTTCTTGTTTCCCTGGATATCGCTTGGAAGGTGCTAATAAACTTACCTGCCTGGGTGGTGGTCGGCGTGTATGGAGTGCACCTCTGCCAAG
Seq A exon
GTGTGTGG
Seq C2 exon
CTGAATGTGGAGCAACTGTCTCTGGAAATGAAGGAACATTGTTGTCTCCAAATTTTCCATCTAACTATGACAACAACCATGAATGTATCTATAAAATTGAAACAGAGGCTGGAAAAGGGATCCATCTTAGAGCAAGGAGTTTTCAGCTGCACGAGGGAGACATTATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016341-15-17,16-17-2/2
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=0.018
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 Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATATCGCTTGGAAGGTGC
R:
TCCAGAGACAGTTGCTCCACA
Band lengths:
104-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]