DreALTA0025314-2/5 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000075487 | si:ch211-267e7.3
Description
si:ch211-267e7.3 [Source:ZFIN;Acc:ZDB-GENE-070912-265]
Coordinates
chr2:20936078-20941343:-
Coord C1 exon
chr2:20941197-20941343
Coord A exon
chr2:20936213-20936215
Coord C2 exon
chr2:20936078-20936212
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTCTGTCTCTGCCAGGACAGCAG
3' ss Score
-0.2
Exon sequences
Seq C1 exon
CTGTGGTGAAGATCAGGGGGGCGAGGTCTGCTTGTTCTCAAATGAACCATGTACTGTCTCTGGACGGCAAGAGTCGGACACACTCTACTACCATACTTTCTCATACACGTATGGATTATTAATACAGCAGCAGGTGTAAATGTTAAG
Seq A exon
CAG
Seq C2 exon
TGAGGGGAGGGAGGATTTGCAGAGGCATCCAGACGAGGTAGCGCAGTGGTGGGGTGAATGGAGCAGCTGGTCCACCTGTTCCCGTACCTGTGGAGGAGGAGTGCGCTCTCAGGAACGTCACTGTCTGCAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075487-0-4,0-3,0-2,0-1,0-0-2/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009014=TSP_1=PU(49.1=56.2)
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:
GGCAAGAGTCGGACACACTCT
R:
CTGCAAATCCTCCCTCCCCTC
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]