DreALTD0017112-3/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000054313 | si:ch211-14a17.6
Description
si:ch211-14a17.6 [Source:ZFIN;Acc:ZDB-GENE-030616-589]
Coordinates
chr2:38305030-38305675:-
Coord C1 exon
chr2:38305575-38305675
Coord A exon
chr2:38305566-38305574
Coord C2 exon
chr2:38305030-38305214
Length
9 bp
Sequences
Splice sites
5' ss Seq
GTGGTAATG
5' ss Score
4.46
3' ss Seq
CCTCTGTCATTTTTTTCCAGATA
3' ss Score
10.3
Exon sequences
Seq C1 exon
GAGAGCGTTTGGTTGGCACCTCCTTGGTCTGCGCTACCCGACCATGAATTGCCTGTGGCTTTTTGTTTTTGCAGTTGCCACAGCATTTGAGTCTGACGAAA
Seq A exon
GTAATGGTG
Seq C2 exon
ATATACAAGTTAATTGCAAGGACCATTCTGTTCATGTCAAGTGGAAATTGGAGAAAACGATGACTGCAAATCCTGCTCGTCTATTCTTGGGTAGCTGCTTTCCTTCAGTGTTCTCTAACATGACGCAAGATGGAGCATATGCAGAATTTCACTATCCATTCAGTGCGTGCGGCTTCAGACGGATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054313-0-0,1-0,2-0-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010018=Zona_pellucida=PU(23.4=91.9)
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:
TACCCGACCATGAATTGCCTG
R:
ACATGAACAGAATGGTCCTTGCA
Band lengths:
104-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]