DreEX0051225 @ danRer10
Exon Skipping
Gene
ENSDARG00000056156 | npdc1b
Description
neural proliferation, differentiation and control, 1b [Source:ZFIN;Acc:ZDB-GENE-140106-58]
Coordinates
chr5:28278311-28315065:-
Coord C1 exon
chr5:28314677-28315065
Coord A exon
chr5:28287106-28287252
Coord C2 exon
chr5:28278311-28278406
Length
147 bp
Sequences
Splice sites
3' ss Seq
AAGTTTGTTTTCTTTCTTAGTTG
3' ss Score
6.89
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
CAGACGTGATGACGACAATGTTTTGCGTAGCTCGAGCGCGCAAGCTCTGGTATTTTCTCCGCTCAGACTCAAAGTGAGAGAGATCGGCTCAGCTCTTCGTGTCAGTCACGCAGCGCACAGGCAGCATCATCAGCATCAGCATCATCAGCTGCAGCAGCGAGCGATCCCGCACACCGTAAACACTCCTCATCCACTGCAGACCTGACTGCCATTGCACAGACATTACAGGCGCAGGTTTTCCGCGACTGTGGGACGGGGGAATGATAAACCCCGGGTCCCCAAAGCCGTTGTACTGCTCGTAAGGATGCGATCACTGAGTCGACCGTGGGCCTCGACACTCGCCGAGGCTTTCCTCATCACAACAGTGGCCGTCAGCGCCGCGATGGCAG
Seq A exon
TTGTAGGGCATTGTCCTCGGAGCCTGGATTGTGCCCGAGAGAGACGGCACTTCTGCCAGCCCGGCTCTTTACATTGCGGCCCATGTCTAGACCCATTCATGGAGAACAAACGAGGGAAGTGTGTGCTCAGGAGACGAAATCATCCTG
Seq C2 exon
CAGCCAAAGTCAGCCATCTCCCAGAGCTGGATGAAGAGATAGACATACTGTCCTCCATCATCAGCAAACACAGAGAATCTGAGATGAAGCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056156-'0-3,'0-2,2-3
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.100 C2=0.328
Domain overlap (PFAM):
C1:
PF068096=NPDC1=PU(6.0=62.1)
A:
PF068096=NPDC1=FE(16.2=100)
C2:
PF068096=NPDC1=FE(10.6=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACACCGTAAACACTCCTCA
R:
GGAGATGGCTGACTTTGGCTG
Band lengths:
242-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]