DreEX6017861 @ danRer10
Exon Skipping
Gene
ENSDARG00000103902 | nde1
Description
nudE neurodevelopment protein 1 [Source:ZFIN;Acc:ZDB-GENE-050913-61]
Coordinates
chr3:36538413-36540575:+
Coord C1 exon
chr3:36538413-36538549
Coord A exon
chr3:36538648-36538851
Coord C2 exon
chr3:36540490-36540575
Length
204 bp
Sequences
Splice sites
3' ss Seq
TATCTCTCTCCTCGGGGAAGATT
3' ss Score
3.47
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
Exon sequences
Seq C1 exon
GGCAACTATAATGTCACTTGAAGACTTTGAGCAGAGAATGAATCACGTTATAGAGAGAAATGCCTTCCTTGAGAGCGAGCTTGATGAAAAAGAGAATCTTCTAGAGTCAGTGCAGAGGTTAAAAGATGAAGCTAGAG
Seq A exon
ATTTGAGACAGGAGCTGGCTGTTCAGCAGAAACAGGAGCGCAAGCCATCAATCAGCCTGGCTAAAGATGCGGAGAAGCCAGAAGCCACACCCGCAAGACCATCCTCTGTTGTTAACTCCGCCCTCCCGTCTCTCCTTGCCACACCCTCCAGACCTCCAGGATCAGGGAGTGCATTCAATACCCCGTCAGCATCCTACAGCAGAA
Seq C2 exon
TTGAAGGTCTGACTGGAACTCCTCTCACTACATCTGCACGAATATCTGCCCTCAATATAGTTGGAGAGTTGTTAAGAAAAGTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103902-'4-7,'4-5,5-7=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=1.000 C2=0.172
Domain overlap (PFAM):
C1:
PF151481=Apolipo_F=FE(33.8=100),PF0252012=DUF148=FE(51.7=100),PF048808=NUDE_C=PU(24.3=87.2)
A:
PF151481=Apolipo_F=PD(33.8=66.7),PF0252012=DUF148=PD(2.2=2.9),PF048808=NUDE_C=FE(40.2=100)
C2:
PF048808=NUDE_C=FE(16.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAACTATAATGTCACTTGAAGACT
R:
CCCGACTTTTCTTAACAACTCTCCA
Band lengths:
223-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]