DreALTD0016517-3/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2522078-2522687:-
Coord C1 exon
chr9:2522587-2522687
Coord A exon
chr9:2522551-2522586
Coord C2 exon
chr9:2522078-2522238
Length
36 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTATTTATGTATTTGTTTAGATT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GAAGGTGCATGCGGATTCATGTCAAAGTCTGCGGCAGTTTTGTTTATGGGGAAAGGAAAAGGAAAGTAAACAGATGCTTGTTCTCTTCGAGCAGAACACAG
Seq A exon
GTTGTCTTTGTTTCTGATACATGTATATACGCTGAG
Seq C2 exon
ATTTCAGGATGTACCCAAGGTCTTGTGACACATTTGTAGCCTTGCCGCCGTCCACTGAGGGTCAGCGGATAATCTTCGGGAAGAACTCGGACAGACCCTGCGATGAGGTTCAGGAGGTGGTCTACTTCCCTGCAAAGGAACATGAACCAGGAAAAGTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611-0-0,1-0,2-0-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.020
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
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:
GCGGCAGTTTTGTTTATGGGG
R:
CGGCAAGGCTACAAATGTGTC
Band lengths:
118-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]