DreALTD0023213-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000052188 | znf541
Description
zinc finger protein 541 [Source:ZFIN;Acc:ZDB-GENE-060526-239]
Coordinates
chr5:61307152-61307893:-
Coord C1 exon
chr5:61307793-61307893
Coord A exon
chr5:61307652-61307792
Coord C2 exon
chr5:61307152-61307284
Length
141 bp
Sequences
Splice sites
5' ss Seq
CATGTAACG
5' ss Score
5.28
3' ss Seq
CTGTCCTCACTGTTCAACAGGAA
3' ss Score
9.02
Exon sequences
Seq C1 exon
AGTAAATAAGGTGTAAATAAATAGGATTGAGAAGAATAACTGAGCATGGAAACAACTAAAGCACCCTGTAAAGTCGTCACGTGTAGAAACTACTGAATAAG
Seq A exon
GTAACTTTCAGGGCGTTAATCTACAACACAGTACAAGCGAATCGGTTCTTTGAATCGGTTACCGTTAATTGAATCGCAAAGCTTCCCTCGGAGTTTCTGCCGTTTTCCCAAAAAACCCGACTCTCAAGTTTGGATAAACAT
Seq C2 exon
GAAAACAGCTAGCAGTCAGTGAAGAAGATGCAAGATTCCTCAGATGCTCGCAGTGTGCCTAACGACACGACCTACATAACAGAGCTGCCGCTCAGAGGGTCAAATCTGTGGCTAAACACCATGACTGATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052188-0-0,1-0,2-0-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.611
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:
GGATTGAGAAGAATAACTGAGCATGG
R:
TGAATCAGTCATGGTGTTTAGCCA
Band lengths:
210-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]