DreALTD0017176-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000102406 | si:ch211-165e15.1
Description
si:ch211-165e15.1 [Source:ZFIN;Acc:ZDB-GENE-081028-59]
Coordinates
chr13:1360035-1363194:+
Coord C1 exon
chr13:1360035-1360070
Coord A exon
chr13:1360071-1360157
Coord C2 exon
chr13:1363117-1363194
Length
87 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
CATCTCTGTCATCTTCACAGCCG
3' ss Score
8.59
Exon sequences
Seq C1 exon
CCAAGGGAGCGTGATTTACTGAAGACGTTGCGGTTG
Seq A exon
GTGAGTGCGGCTGACGCATGTGCGGTTGAGCAGCATGGACGTGCCGTTCGTCATGATGACGATGATGATGATGATGAGGATAAGGGG
Seq C2 exon
CCGCGGGAGAAGGGCCGCATGCGCTTCCACAGACTCCAGAATGTACAGATCGCACTCGACTACTTAAAAAGACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102406-10-10,11-10-2/2
Average complexity
Alt5
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=0.013
Domain overlap (PFAM):
C1:
PF0030726=CH=FE(9.7=100)
A:
NA
C2:
PF0030726=CH=FE(24.8=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENSDART00000159047fB5616
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGGGAGCGTGATTTACTGA
R:
GCGTCTTTTTAAGTAGTCGAGTGC
Band lengths:
111-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]