DreEX6022002 @ danRer10
Exon Skipping
Gene
ENSDARG00000044433 | sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:ZFIN;Acc:ZDB-GENE-100913-1]
Coordinates
chr6:27469561-27470205:+
Coord C1 exon
chr6:27469561-27469701
Coord A exon
chr6:27469828-27469990
Coord C2 exon
chr6:27470080-27470205
Length
163 bp
Sequences
Splice sites
3' ss Seq
CACTTCCACTCTCTTCCTAGGCA
3' ss Score
9.6
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
GTCAATACATTTCAAGTAGTTCTCATCACAGATGGTGAACTCTCCTTCACCATCTTCCAGTACCACAATATTACCTGGACAACAGGAATGCATGCTACCAGTGGTGGAGATCTCGCTGGCTTAGGGGGCATAGCTGCGCAG
Seq A exon
GCAGGTTTTAATGCTGGTGATGGGAAGCGCTATTTCAACATTCCAGGCTCCCGAACAGATGATATTGTTGAAATTGAAACCACTACGAATGTGGGATATCCTGGTCGTTGGGTCTTTCGTATTGATGATTCTCATGTTCAAGTGGGTGGCTGCAACGACTCAG
Seq C2 exon
CTTCAGTCTGTGCCAATTTAAGGCCCTGTCGAAATGGTGGACGTTGCATTGATGACTGCATCACTGGAAATCCCTCTTTCACTTGTTCGTGTTTGGCTGGATTTACTGGACGCAGATGCCAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044433-'3-5,'3-3,4-5=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF061199=NIDO=PU(50.5=97.9)
A:
PF061199=NIDO=PD(47.3=78.2)
C2:
PF0000822=EGF=WD(100=83.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGTAGTTCTCATCACAGATGGT
R:
GCGTCCAGTAAATCCAGCCAA
Band lengths:
243-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]