GgaEX1016999 @ galGal4
Exon Skipping
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9082716-9084050:+
Coord C1 exon
chr12:9082716-9082775
Coord A exon
chr12:9082885-9082929
Coord C2 exon
chr12:9083970-9084050
Length
45 bp
Sequences
Splice sites
3' ss Seq
ACCTCCCCTTCTGCTTGCAGGGT
3' ss Score
11.38
5' ss Seq
ATGGTACGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
GGTGACCCAGGGGCTGGGCTGCCAGGAGCCAGAGGTGAACGTGGAGACCCAGGACCACGG
Seq A exon
GGTGAAGATGGGCGCCCAGGGCTGGCAGGTGACCGCGGGCCAATG
Seq C2 exon
GGCTTGCCTGGCCGGGATGGCATTGCTGGAGCACGAGGAGAGAAGGGGGACATAGGGCCGCTGGGCTTGCGTGGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811_MULTIEX2-65/78=64-72
Average complexity
C2
Mappability confidence:
86%=93=94%
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(11.7=35.0),PF0139113=Collagen=PU(25.4=75.0)
A:
PF0139113=Collagen=FE(23.7=100)
C2:
PF0139113=Collagen=FE(28.9=100),PF0139113=Collagen=PU(15.3=55.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCCAGGAGCCAGAGG
R:
CCCAGCGGCCCTATGTCC
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]