GgaEX1016983 @ galGal4

Exon Skipping

Gene

ENSGALG00000005811 | COL7A1

Description

collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]

Coordinates

chr12:9079065-9081360:+

Coord C1 exon

chr12:9079065-9079127

Coord A exon

chr12:9079524-9079568

Coord C2 exon

chr12:9081319-9081360

Length

45 bp

Sequences

Splice sites

3' ss Seq

ATCTCCATCTCTTGCTCCAGGGC

3' ss Score

9.13

5' ss Seq

CCGGTGAGT

5' ss Score

10.9

Exon sequences

Seq C1 exon

GGTGAAGGCGGCTCACGGGGCGAGCGAGGAGAGCCTGGCGAGAAGGGCAGGGATGGCTCTCCA

Seq A exon

GGCCTCCCAGGAGAGAGGGGTCTGGCTGGCCCTGAGGGGAAGCCG

Seq C2 exon

GGTGAGCCGGCGCTGCTGGAGGGCGTGCTGCTGGGTGAACCC

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005811_MULTIEX2-47/78=46-56

Average complexity

C3

Mappability confidence:

89%=92=97%

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(31.7=100)

A:

PF0139113=Collagen=PD(12.7=53.3),PF0139113=Collagen=PU(17.7=73.3)

C2:

PF0139113=Collagen=PD(6.9=28.6),PF0139113=Collagen=PU(5.8=21.4)

Main Inclusion Isoform:

ENSGALP00000009317

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Conservation

Human

(hg38)

chr3:48574262-48574306

HIGH PSI

HsaEX6055821

(COL7A1)

Human

(hg19)

chr3:48611695-48611739

HIGH PSI

HsaEX6055821

(COL7A1)

Mouse

(mm10)

chr9:108974065-108974109

HIGH PSI

MmuEX6069082

(Col7a1)

Mouse

(mm9)

chr9:108876110-108876154

HIGH PSI

MmuEX6069082

(Col7a1)

Rat

(rn6)

chr8:117715786-117715830

HIGH PSI

RnoEX6037758

(Col7a1)

Cow

(bosTau6)

chr22:51879783-51879827

HIGH PSI

BtaEX6095657

(COL7A1)

Zebrafish

(danRer10)

chr6:40222543-40222548

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

AGGAGAGCCTGGCGAGAAG

R:

GGTTCACCCAGCAGCACG

Band lengths:

78-123

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

GgaEX1016983 @ galGal4

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]