GgaEX1016288 @ galGal3

Exon Skipping

Gene

ENSGALG00000005180 | COL11A1

Description

NA

Coordinates

chr8:11998455-12006043:+

Coord C1 exon

chr8:11998455-11998508

Coord A exon

chr8:11998612-11998665

Coord C2 exon

chr8:12005990-12006043

Length

54 bp

Sequences

Splice sites

3' ss Seq

AACATCTTGTATCATCGTAGGGT

3' ss Score

7.19

5' ss Seq

AAGGTGAGA

5' ss Score

8.68

Exon sequences

Seq C1 exon

GGTCCGCCTGGTCCTCCAGGTCCAAGAGGCCCCCAAGGTCCTAATGGAGCTGAT

Seq A exon

GGTCCTCAAGGCCCCCCAGGCTCAATCGGCTCTGTTGGAGGTGTTGGGGAAAAG

Seq C2 exon

GGTGAACCTGGAGAAGCTGGTAATCCTGGACCTCCTGGAGAATCTGGAACATCT

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005180-'52-53,'52-52,53-53=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:

NO

A:

NO

C2:

NO

Main Inclusion Isoform:

ENSGALP00000008307

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

ENSGALP00000008306

Other Skipping Isoforms:

NA

Associated events

Other assemblies

galGal4

Conservation

Human

(hg38)

No conservation detected

Human

(hg19)

chr1:103385867-103385920

HIGH PSI

HsaEX6032447

(COL11A1)

Mouse

(mm10)

chr3:114182613-114182666

HIGH PSI

MmuEX6073559

(Col11a1)

Mouse

(mm9)

chr3:113885531-113885584

HIGH PSI

MmuEX6073559

(Col11a1)

Rat

(rn6)

chr2:217020423-217020476

HIGH PSI

RnoEX6011197

(Col11a1)

Cow

(bosTau6)

chr3:40641052-40641105

HIGH PSI

BtaEX6016263

(COL11A1)

Zebrafish

(danRer10)

chr24:28717867-28717920

ALTERNATIVE

DreEX0022802

(col11a1a)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

GGTCCTCCAGGTCCAAGAGG

R:

CCAGATTCTCCAGGAGGTCCA

Band lengths:

92-146

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]