GgaEX1016989 @ galGal4

Exon Skipping

Gene

ENSGALG00000005811 | COL7A1

Description

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

Coordinates

chr12:9080735-9082463:+

Coord C1 exon

chr12:9080735-9080770

Coord A exon

chr12:9080878-9080958

Coord C2 exon

chr12:9082428-9082463

Length

81 bp

Sequences

Splice sites

3' ss Seq

TCCACTTTCACACTCTACAGGGG

3' ss Score

8.1

5' ss Seq

TTGGTATGA

5' ss Score

5.24

Exon sequences

Seq C1 exon

GGCCCACCGGGTGCACCTGGGCTGCCAGGACAAGTG

Seq A exon

GGGGAGAGTGGCAAACCAGGTGTGCCTGGGCGGGATGGTGTGCCGGGGAAGGACGGCGAACCAGGGATGCCTGGGAAGTTG

Seq C2 exon

GGCATACAAGGGGCCTCGGGGCTGAAGGGTGACAAG

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005811_MULTIEX2-55/78=54-63

Average complexity

C1*

Mappability confidence:

88%=90=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=FE(17.5=100)

A:

PF0139113=Collagen=FE(41.3=100),PF0139113=Collagen=PU(29.3=63.0)

C2:

PF0139113=Collagen=FE(18.3=100)

Main Inclusion Isoform:

ENSGALP00000009317

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Other assemblies

galGal3

Conservation

Human

(hg38)

chr3:48572862-48572942

HIGH PSI

HsaEX0016660

(COL7A1)

Human

(hg19)

chr3:48610295-48610375

HIGH PSI

HsaEX0016660

(COL7A1)

Mouse

(mm10)

chr9:108975326-108975406

HIGH PSI

MmuEX6069076

(Col7a1)

Mouse

(mm9)

chr9:108877371-108877451

HIGH PSI

MmuEX6069076

(Col7a1)

Rat

(rn6)

chr8:117716993-117717073

HIGH PSI

RnoEX6037752

(Col7a1)

Cow

(bosTau6)

chr22:51881100-51881180

HIGH PSI

BtaEX6095650

(COL7A1)

Zebrafish

(danRer10)

chr6:40215963-40216043

HIGH PSI

DreEX6023299

(col7a1)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

TGGGCTGCCAGGACAAGT

R:

CTTGTCACCCTTCAGCCCC

Band lengths:

55-136

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

GgaEX1016989 @ galGal4

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]