DreALTD0018606-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000076623 | si:zfos-632h11.7
Description
si:zfos-632h11.7 [Source:ZFIN;Acc:ZDB-GENE-141219-34]
Coordinates
chr19:59143-59718:+
Coord C1 exon
chr19:59143-59188
Coord A exon
chr19:59189-59191
Coord C2 exon
chr19:59552-59718
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
TAAGACTCTGTTTCCTGCCGCAG
3' ss Score
-1.24
Exon sequences
Seq C1 exon
AATCCGGGTGTTGGTGTCCAGGGACCACGAGGACCTGCTGGAACTC
Seq A exon
CAG
Seq C2 exon
CAGGGCCTCCTGGTGAAGGCAGAACAGGAAGTCCAGGACCATCTGGTCGGCCTGGAAGCCCCGGGAGTCCCGGAAGACCCGGAATACCAGGACCGGTGGGTCCAGCAGGTCCTCCAGGATACTGCGACCAGAACGCCTGCCTGGGGTACAACGTAGGAGGTGAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076623-67-70,68-70-2/2
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=1.000 A=NA C2=0.974
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(7.0=25.0),PF0139113=Collagen=PU(23.2=81.2)
A:
NA
C2:
PF0139113=Collagen=PD(75.0=75.0)
Associated events
Conservation
Human
(hg19)
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:
AATCCGGGTGTTGGTGTCCAG
R:
CTTCCAGGCCGACCAGATGG
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]