GgaEX1016287 @ galGal3

Exon Skipping

Gene

ENSGALG00000005180 | COL11A1

Description

NA

Coordinates

chr8:11977626-11978120:+

Coord C1 exon

chr8:11977626-11977670

Coord A exon

chr8:11977927-11977980

Coord C2 exon

chr8:11978076-11978120

Length

54 bp

Sequences

Splice sites

3' ss Seq

TTTTAAATTTTATTTGACAGGGT

3' ss Score

7.83

5' ss Seq

AAGGTAATT

5' ss Score

8.83

Exon sequences

Seq C1 exon

GGATTACATGGCAAACCAGGCCCCAGAGGACAGCGAGGACCAACA

Seq A exon

GGTCCAAGAGGCTCAAGAGGCCCAAGAGGTCCCACAGGCAAACCAGGTCCAAAG

Seq C2 exon

GGTACTTCAGGCAATGATGGTCCGCCTGGCCCACCAGGTGAAAGG

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005180-'36-37,'36-36,37-37=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(18.2=100)

A:

PF0139113=Collagen=FE(22.1=100)

C2:

PF0139113=Collagen=PD(13.0=66.7)

Main Inclusion Isoform:

ENSGALP00000008307

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Associated events

Other assemblies

galGal4

Conservation

Human

(hg38)

chr1:102978860-102978913

HIGH PSI

HsaEX6032433

(COL11A1)

Human

(hg19)

chr1:103444416-103444469

HIGH PSI

HsaEX6032433

(COL11A1)

Mouse

(mm10)

chr3:114138744-114138797

HIGH PSI

MmuEX6073574

(Col11a1)

Mouse

(mm9)

chr3:113841662-113841715

HIGH PSI

MmuEX6073574

(Col11a1)

Rat

(rn6)

chr2:216979098-216979151

HIGH PSI

RnoEX6011207

(Col11a1)

Cow

(bosTau6)

No conservation detected

Zebrafish

(danRer10)

chr24:28739300-28739353

ALTERNATIVE

DreEX0022785

(col11a1a)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

CAAACCAGGCCCCAGAGGA

R:

CCTTTCACCTGGTGGGCCA

Band lengths:

79-133

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]