DreEX6023291 @ danRer10
Exon Skipping
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40222708-40224047:-
Coord C1 exon
chr6:40224003-40224047
Coord A exon
chr6:40222880-40222993
Coord C2 exon
chr6:40222708-40222779
Length
114 bp
Sequences
Splice sites
3' ss Seq
TTTGAAATTTTCCCCCCAAGGGA
3' ss Score
5.86
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
Exon sequences
Seq C1 exon
GGTCCAGCAGGATTACCCGGCTTAGGGGGGCCTCCAGGGCCAAAG
Seq A exon
GGAGATTCTGCTTCCGTTCAGAGTGGTTTGCCTGGTCCAAGGGGTCTGCCAGGCCCTGCAGGTGTCCGAGGAGAGCCAGGTGCAGTAGGACCTCAAGGATCTCCTGGAGAGCGG
Seq C2 exon
GGCTACACAGGTGCTCGTGGGGAGAAAGGAGACAAAGGAGCAAGCGGAGAAAGAGGAAAAGATGGCTCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720-'82-85,'82-84,83-85=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=FE(22.2=100)
A:
PF0139113=Collagen=PD(7.9=13.2),PF0139113=Collagen=PU(50.8=84.2)
C2:
PF0139113=Collagen=FE(36.5=100),PF0139113=Collagen=PU(21.2=70.8)
Main Skipping Isoform:
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:
TCCAGCAGGATTACCCGG
R:
TGGGGAGCCATCTTTTCCTCT
Band lengths:
115-229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]