GgaEX0007143 @ galGal3

Exon Skipping

Gene

ENSGALG00000005180 | COL11A1

Description

NA

Coordinates

chr8:11973339-11977670:+

Coord C1 exon

chr8:11973339-11973392

Coord A exon

chr8:11976011-11976064

Coord C2 exon

chr8:11977626-11977670

Length

54 bp

Sequences

Splice sites

3' ss Seq

TTACATTGATTTTTATGTAGGGC

3' ss Score

5.98

5' ss Seq

AGGGTATGA

5' ss Score

6.84

Exon sequences

Seq C1 exon

GGTAAGCTTGGTGTACCTGGATTGCCAGGATATCCAGGAAGACAAGGTCCAAAG

Seq A exon

GGCTCAACTGGTTTCCCAGGATTTCCAGGTGCCAATGGAGAGAAAGGTGCAAGG

Seq C2 exon

GGATTACATGGCAAACCAGGCCCCAGAGGACAGCGAGGACCAACA

VastDB Features

Vast-tools module Information

Secondary ID

ENSGALG00000005180_MULTIEX2-4/24=3-5

Average complexity

S

Mappability confidence:

NA

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=PU(18.2=77.8)

A:

PF0139113=Collagen=FE(22.1=100)

C2:

PF0139113=Collagen=FE(18.2=100)

Main Inclusion Isoform:

ENSGALP00000008307

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Associated events

Other assemblies

galGal4

Conservation

Human

(hg38)

chr1:102979382-102979435

HIGH PSI

HsaEX6032431

(COL11A1)

Human

(hg19)

chr1:103444938-103444991

HIGH PSI

HsaEX6032431

(COL11A1)

Mouse

(mm10)

chr3:114138400-114138453

HIGH PSI

MmuEX6073576

(Col11a1)

Mouse

(mm9)

chr3:113841318-113841371

HIGH PSI

MmuEX6073576

(Col11a1)

Rat

(rn6)

chr2:216978768-216978821

HIGH PSI

RnoEX6011208

(Col11a1)

Cow

(bosTau6)

No conservation detected

Zebrafish

(danRer10)

chr24:28743154-28743207

HIGH PSI

DreEX0022783

(col11a1a)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

AGCTTGGTGTACCTGGATTGC

R:

TTGGTCCTCGCTGTCCTCTG

Band lengths:

93-147

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]