DreEX6023304 @ danRer10
Exon Skipping
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40211692-40212212:-
Coord C1 exon
chr6:40212087-40212212
Coord A exon
chr6:40211829-40211900
Coord C2 exon
chr6:40211692-40211727
Length
72 bp
Sequences
Splice sites
3' ss Seq
TGCTTTTTATTCTGTTTAAGGGT
3' ss Score
9.79
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGTGACCCTGGCTTACCAGGTCCTCCGGGCCCTCCTGGGCCACGTGGATTAGATGGGACGCCAGGACTGGCAGGACAGAGAGGGGAAGCAGGTCAGCCAGGACCCCCTGGACTACCAGGAGAAAGG
Seq A exon
GGTCTTAACGGAATTATAGGCAAAACAGGAAATCCAGGAACACCAGGAGATGCTGGACCACCTGGACCCACT
Seq C2 exon
GGTGCTGCAGGCCTTCCAGGACTTAAGGGTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720-'102-104,'102-103,103-104=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(68.4=92.9),PF0139113=Collagen=PU(28.3=40.5)
A:
PF0139113=Collagen=FE(38.3=100)
C2:
PF0139113=Collagen=FE(18.3=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:
GGTGACCCTGGCTTACCA
R:
ATCACCCTTAAGTCCTGGAAGG
Band lengths:
159-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]