GgaEX1016982 @ galGal4

Exon Skipping

Gene

ENSGALG00000005811 | COL7A1

Description

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

Coordinates

chr12:9078764-9081360:+

Coord C1 exon

chr12:9078764-9078808

Coord A exon

chr12:9079065-9079127

Coord C2 exon

chr12:9081319-9081360

Length

63 bp

Sequences

Splice sites

3' ss Seq

TGCACCTCTCCCCACATCAGGGT

3' ss Score

6.92

5' ss Seq

CCAGTGAGT

5' ss Score

8.28

Exon sequences

Seq C1 exon

GGTGAGCCTGGTGCCGAGGGCGAGCGAGGACCCAAAGGAGATAAG

Seq A exon

GGTGAAGGCGGCTCACGGGGCGAGCGAGGAGAGCCTGGCGAGAAGGGCAGGGATGGCTCTCCA

Seq C2 exon

GGTGAGCCGGCGCTGCTGGAGGGCGTGCTGCTGGGTGAACCC

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005811_MULTIEX2-46/78=45-56

Average complexity

C2

Mappability confidence:

89%=90=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(22.2=100)

A:

PF0139113=Collagen=FE(31.7=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)

chr3:48574488-48574550

HIGH PSI

HsaEX0016657

(COL7A1)

Human

(hg19)

chr3:48611921-48611983

HIGH PSI

HsaEX0016657

(COL7A1)

Mouse

(mm10)

chr9:108973813-108973875

HIGH PSI

MmuEX0012345

(Col7a1)

Mouse

(mm9)

chr9:108875858-108875920

HIGH PSI

MmuEX0012345

(Col7a1)

Rat

(rn6)

chr8:117715535-117715597

HIGH PSI

RnoEX6037759

(Col7a1)

Cow

(bosTau6)

chr22:51879572-51879634

HIGH PSI

BtaEX6095658

(COL7A1)

Zebrafish

(danRer10)

chr6:40222708-40222779

HIGH PSI

DreEX6023292

(col7a1)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

GTGAGCCTGGTGCCGAGG

R:

GGTTCACCCAGCAGCACG

Band lengths:

85-148

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

GgaEX1016982 @ galGal4

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]