DreEX6023295 @ danRer10
Exon Skipping
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40219238-40222628:-
Coord C1 exon
chr6:40222584-40222628
Coord A exon
chr6:40220849-40220884
Coord C2 exon
chr6:40219238-40219273
Length
36 bp
Sequences
Splice sites
3' ss Seq
TTTCCTTCCCCTCTCTTTAGGGC
3' ss Score
13.83
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
GGAAGTCAAGGAGAGTCAGGAAAACCAGGACAAGATGGGAAGCCG
Seq A exon
GGCTTGCCTGGGTTCCCAGGAGTGCTGGGCAGACCG
Seq C2 exon
GGGAATCCAGGAGAACCAGGAATAAGAGGACCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720-'85-89,'85-88,88-89=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.2=100),PF0139113=Collagen=PU(22.2=93.3)
A:
PF0139113=Collagen=FE(13.8=100)
C2:
PF0139113=Collagen=FE(13.8=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGTCAAGGAGAGTCAGGA
R:
AGTTGGTCCTCTTATTCCTGGT
Band lengths:
81-117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]