DreEX6021982 @ danRer10
Exon Skipping
Gene
ENSDARG00000044433 | sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:ZFIN;Acc:ZDB-GENE-100913-1]
Coordinates
chr6:27509651-27512479:+
Coord C1 exon
chr6:27509651-27509733
Coord A exon
chr6:27511864-27511962
Coord C2 exon
chr6:27512363-27512479
Length
99 bp
Sequences
Splice sites
3' ss Seq
TCATGTTATCTTTTAAGCAGAGC
3' ss Score
4.59
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
Exon sequences
Seq C1 exon
ATATACAGAGCTTATCGACGGAAGGGGGAGAATTACAGCTAAATTTACCAAACTTCCACATAAAACCATCAGACACCGCATTA
Seq A exon
AGCCTGATCCTCCAATCAAATTAGAAAGGATGGAAGAAACCACAAATAAGATTAGTCTAGCTCTGGAAATTCCTGAAGAAGCGTCAAAGAGTAAATCTG
Seq C2 exon
AGTCATCTCAAGACTGCAGAACTCAGCCCTGTCAGAATGGTGGAACGTGTGCACAGATCAACGAGTCCTTCAGCTGCAACTGTCCAAGCGGTTTCAAGGGCAGACGGTGTGAGCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044433-'28-35,'28-34,29-35=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.466 A=0.926 C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
PF055076=MAGP=PU(8.2=23.5)
C2:
PF055076=MAGP=FE(40.2=100),PF0000822=EGF=WD(100=77.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
ATCGACGGAAGGGGGAGAATT
R:
CCTTGAAACCGCTTGGACAGT
Band lengths:
169-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]