GgaEX1016978 @ galGal4

Exon Skipping

Gene

ENSGALG00000005811 | COL7A1

Description

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

Coordinates

chr12:9076923-9081360:+

Coord C1 exon

chr12:9076923-9076958

Coord A exon

chr12:9077087-9077122

Coord C2 exon

chr12:9081319-9081360

Length

36 bp

Sequences

Splice sites

3' ss Seq

ACTGCTTTGCTGTATTTCAGGGG

3' ss Score

10.07

5' ss Seq

CCGGTGAGT

5' ss Score

10.9

Exon sequences

Seq C1 exon

GGCTCACCCGGCCTCCGTGGCATCGCTGGACCGAAG

Seq A exon

GGGGACCCAGGGGAGCCAGGACCACGAGGGGAGCCG

Seq C2 exon

GGTGAGCCGGCGCTGCTGGAGGGCGTGCTGCTGGGTGAACCC

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005811_MULTIEX2-37/78=36-56

Average complexity

C3

Mappability confidence:

96%=100=96%

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(0.1=0.0),PF0139113=Collagen=FE(18.0=100)

A:

PF0139113=Collagen=FE(18.0=100)

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)

chr3:48576249-48576296

HIGH PSI

HsaEX6055815

(COL7A1)

Human

(hg19)

chr3:48613682-48613729

HIGH PSI

HsaEX6055815

(COL7A1)

Mouse

(mm10)

chr9:108972193-108972240

HIGH PSI

MmuEX6069090

(Col7a1)

Mouse

(mm9)

chr9:108874238-108874285

HIGH PSI

MmuEX6069090

(Col7a1)

Rat

(rn6)

chr8:117713917-117713964

HIGH PSI

RnoEX6037767

(Col7a1)

Cow

(bosTau6)

chr22:51877894-51877941

HIGH PSI

BtaEX6095666

(COL7A1)

Zebrafish

(danRer10)

chr6:40225099-40225137

HIGH PSI

DreEX6023287

(col7a1)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

CTCCGTGGCATCGCTGGA

R:

GGTTCACCCAGCAGCACG

Band lengths:

65-101

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

GgaEX1016978 @ galGal4

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]