DreALTD0017421-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000077905 | si:ch211-236p22.1
Description
si:ch211-236p22.1 [Source:ZFIN;Acc:ZDB-GENE-050419-118]
Coordinates
chr16:47940218-47943450:-
Coord C1 exon
chr16:47943270-47943450
Coord A exon
chr16:47943262-47943269
Coord C2 exon
chr16:47940218-47940387
Length
8 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
CCTTCCTCTCCTGTCCACAGCTG
3' ss Score
12.02
Exon sequences
Seq C1 exon
AGTATGATCTGGAGCCATGCGAGGACCCTGGCGTGCCCCAGTTTGGCAGGCACAGCGGTGGCAGCTTTGGCATCGGCGACACCCTGGCGTTCTCCTGTGACCCTGGGTACCGTCTGCAGGGAGTTCCACAGATCAGCTGTTTGGGCGGCGGGCGGCGCATATGGAGTGCACCTCTGCCAAG
Seq A exon
GTGTGTGG
Seq C2 exon
CTGAGTGCGGATCAACCGTGTCCAAAAACGCCGGCGTTCTGTTGTCCCCAAACTACCCTCGCAATTACGATAACAACCATGAGTGCATCTATAACATCCAAGTGCAAGCAGGAAAAGGAATCAACATCTCTGCCAGCAGCTTTCATCTGGCTCAAGGTGACGTTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077905-22-23,23-23-2/2
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
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCATATGGAGTGCACCTCTG
R:
AATTGCGAGGGTAGTTTGGGG
Band lengths:
92-100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]