Special

GgaEX1016990 @ galGal4

Exon Skipping

Gene
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9081319-9082463:+
Coord C1 exon
chr12:9081319-9081360
Coord A exon
chr12:9081457-9081501
Coord C2 exon
chr12:9082428-9082463
Length
45 bp
Sequences
Splice sites
3' ss Seq
ATACTGCTCTCCCTCCCTAGGGC
3' ss Score
12.3
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGTGAGCCGGCGCTGCTGGAGGGCGTGCTGCTGGGTGAACCC
Seq A exon
GGCTCCAAAGGTGCCCGAGGTTTGCCCGGCCCCAAGGGTGAGAAG
Seq C2 exon
GGCATACAAGGGGCCTCGGGGCTGAAGGGTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811_MULTIEX2-57/78=56-63
Average complexity
C3
Mappability confidence:
88%=94=92%
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(6.9=28.6),PF0139113=Collagen=PU(5.8=21.4)
A:
PF0139113=Collagen=FE(26.9=100)
C2:
PF0139113=Collagen=FE(18.3=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGCTGCTGGGTGAACC
R:
CTTGTCACCCTTCAGCCCC
Band lengths:
55-100
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]