GgaEX1016543 @ galGal3

Exon Skipping

Gene

ENSGALG00000016195 | COL22A1

Description

NA

Coordinates

chr2:150215922-150224677:-

Coord C1 exon

chr2:150224642-150224677

Coord A exon

chr2:150223657-150223710

Coord C2 exon

chr2:150215922-150215966

Length

54 bp

Sequences

Splice sites

3' ss Seq

GTTTGTTCTCTCCCTGCCAGGGT

3' ss Score

9.69

5' ss Seq

GATGTAAGT

5' ss Score

9.11

Exon sequences

Seq C1 exon

GGCCCTGTTGGACCCCCAGGAGACAAAGGATCATTG

Seq A exon

GGTCCTCGTGGTGTACCTGGTATCCCTGGACCACAGGGGCCTCCTGGCCAGGAT

Seq C2 exon

GGTCTACCTGGAAATCCAGGGGAAAGAGGACCTCCTGGAAAACCA

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000016195-'41-44,'41-43,42-44=AN

Average complexity

A_S

Mappability confidence:

100%=100=100%

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(19.3=100)

A:

PF0139113=Collagen=FE(29.8=100)

C2:

PF0139113=Collagen=FE(24.6=100)

Main Inclusion Isoform:

ENSGALP00000026061

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Associated events

Other assemblies

galGal4

Conservation

Human

(hg38)

chr8:138662030-138662083

HIGH PSI

HsaEX6082554

(COL22A1)

Human

(hg19)

chr8:139674273-139674326

HIGH PSI

HsaEX6082554

(COL22A1)

Mouse

(mm10)

chr15:71870111-71870164

HIGH PSI

MmuEX0012226

(Col22a1)

Mouse

(mm9)

chr15:71700541-71700594

ALTERNATIVE

MmuEX0012226

(Col22a1)

Rat

(rn6)

chr7:113083618-113083671

HIGH PSI

RnoEX6032554

(Col22a1)

Cow

(bosTau6)

chr14:5296789-5296842

HIGH PSI

BtaEX6061706

(COL22A1)

Zebrafish

(danRer10)

No conservation detected

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

CTGTTGGACCCCCAGGAGAC

R:

TGGTTTTCCAGGAGGTCCTCT

Band lengths:

77-131

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]