DreEX6023292 @ danRer10
Exon Skipping
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40222584-40222993:-
Coord C1 exon
chr6:40222880-40222993
Coord A exon
chr6:40222708-40222779
Coord C2 exon
chr6:40222584-40222628
Length
72 bp
Sequences
Splice sites
3' ss Seq
GTGATATGCTCCCCTCTCAGGGC
3' ss Score
8.95
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
Exon sequences
Seq C1 exon
GGAGATTCTGCTTCCGTTCAGAGTGGTTTGCCTGGTCCAAGGGGTCTGCCAGGCCCTGCAGGTGTCCGAGGAGAGCCAGGTGCAGTAGGACCTCAAGGATCTCCTGGAGAGCGG
Seq A exon
GGCTACACAGGTGCTCGTGGGGAGAAAGGAGACAAAGGAGCAAGCGGAGAAAGAGGAAAAGATGGCTCCCCA
Seq C2 exon
GGAAGTCAAGGAGAGTCAGGAAAACCAGGACAAGATGGGAAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720-'83-86,'83-85,84-86=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(7.9=13.2),PF0139113=Collagen=PU(50.8=84.2)
A:
PF0139113=Collagen=FE(36.5=100),PF0139113=Collagen=PU(21.2=70.8)
C2:
PF0139113=Collagen=FE(19.2=100),PF0139113=Collagen=PU(22.2=93.3)
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:
GGAGATTCTGCTTCCGTTCAGA
R:
CGGCTTCCCATCTTGTCCTG
Band lengths:
159-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]