DreALTD0017422-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000077905 | si:ch211-236p22.1
Description
si:ch211-236p22.1 [Source:ZFIN;Acc:ZDB-GENE-050419-118]
Coordinates
chr16:47755196-47757956:-
Coord C1 exon
chr16:47757810-47757956
Coord A exon
chr16:47757798-47757809
Coord C2 exon
chr16:47755196-47755384
Length
12 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
AAGCATGCTCTGGTCTTCAGCCA
3' ss Score
2.15
Exon sequences
Seq C1 exon
GTCCTAACATCTACAGTCAGAGTCTGGCGGTGTTGAGTGGAGATCTCAGCGTGCCCTTCAACATCACCACCACGGGTCACCAGCTGTTCCTGCGCTGGTCGTCTGATCATGGCACCAACAAAAAGGGCTTTCGTATCACTTACGTGG
Seq A exon
GTGAGTATCAAA
Seq C2 exon
CCATGTACTGCAGCACTCCAGACTCTCCTCAGCATGGCTTTGTGCTCAGCCAGACGGGTGGTCATGTGAACAGTGTGGTTCGCTGGGCCTGCGACCGTGGATTCAGACTTATCGGGAAAAACATGGCCGTCTGCAAGAGGACAGAGATCGGCTTTCTGGCCTGGGACTCTTCTGTGCCTGCATGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077905-50-49,51-49-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(44.0=96.0)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
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:
CTGGTCGTCTGATCATGGCAC
R:
AAGCCATGCTGAGGAGAGTCT
Band lengths:
93-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]