DreEX6023303 @ danRer10
Exon Skipping
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40211829-40212490:-
Coord C1 exon
chr6:40212395-40212490
Coord A exon
chr6:40212087-40212212
Coord C2 exon
chr6:40211829-40211900
Length
126 bp
Sequences
Splice sites
3' ss Seq
ATGTTTTTAATTGGTTCCAGGGT
3' ss Score
7.42
5' ss Seq
AGGGTTAGT
5' ss Score
5.02
Exon sequences
Seq C1 exon
GGAGTGAGAGGACCCCCGGGACCCAAAGGGGTCAAAGGAGAGGCTGGAGTGGGGATGACTGGTCCTCCAGGACAGCCGGGACCCATTGGCTTGAAG
Seq A exon
GGTGACCCTGGCTTACCAGGTCCTCCGGGCCCTCCTGGGCCACGTGGATTAGATGGGACGCCAGGACTGGCAGGACAGAGAGGGGAAGCAGGTCAGCCAGGACCCCCTGGACTACCAGGAGAAAGG
Seq C2 exon
GGTCTTAACGGAATTATAGGCAAAACAGGAAATCCAGGAACACCAGGAGATGCTGGACCACCTGGACCCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720-'101-103,'101-102,102-103=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(27.6=50.0),PF0139113=Collagen=PU(28.1=50.0)
A:
PF0139113=Collagen=PD(68.4=92.9),PF0139113=Collagen=PU(28.3=40.5)
C2:
PF0139113=Collagen=FE(38.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGTGAGAGGACCCCCG
R:
TCCAGGTGGTCCAGCATCTC
Band lengths:
162-288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]