MmuEX6025149 @ mm10

Exon Skipping

Gene

ENSMUSG00000026193 | Fn1

Description

fibronectin 1 [Source:MGI Symbol;Acc:MGI:95566]

Coordinates

chr1:71638457-71641328:-

Coord C1 exon

chr1:71641152-71641328

Coord A exon

chr1:71640292-71640444

Coord C2 exon

chr1:71638457-71638585

Length

153 bp

Sequences

Splice sites

3' ss Seq

TCTCCTCCATTTCCAACCAGCCC

3' ss Score

7.27

5' ss Seq

GAGGTATGC

5' ss Score

9.12

Exon sequences

Seq C1 exon

TTTTGGTTCAGACTCGAGGCGGAAATTCCAATGGTGCTCTGTGCCACTTCCCCTTCCTGTACAACAACCGGAATTACACCGACTGTACTTCTGAGGGTCGCAGGGACAACATGAAATGGTGCGGCACCACCCAGAACTACGATGCCGATCAGAAGTTTGGATTCTGCCCAATGGCTG

Seq A exon

CCCACGAGGAGATCTGCACAACCAATGAAGGGGTCATGTATCGCATTGGGGATCAGTGGGATAAGCAGCATGACCTGGGCCACATGATGAGGTGCACGTGTGTGGGGAACGGTCGTGGAGAATGGGCCTGCATCCCCTACTCCCAGCTCCGAG

Seq C2 exon

ACCAGTGCATCGTTGATGACATTACTTACAATGTGAACGACACGTTCCACAAGCGTCACGAGGAGGGACATATGCTGAACTGTACCTGCTTTGGTCAGGGCCGGGGCAGATGGAAGTGTGACCCCATTG

VastDB Features

Vast-tools module Information

Secondary ID

ENSMUSG00000026193-'23-18,'23-15,25-18

Average complexity

S

Mappability confidence:

100%=100=100%

Protein Impact

Alternative protein isoforms (Ref)

No structure available

Features

Disorder rate (Iupred):

C1=0.000 A=0.000 C2=0.000

Domain overlap (PFAM):

C1:

PF0004014=fn2=WD(100=70.0)

A:

PF0003913=fn1=WD(100=75.0)

C2:

PF0003913=fn1=WD(100=86.4)

Main Inclusion Isoform:

ENSMUSP00000054499

Main Skipping Isoform:

ENSMUSP00000140153

Other Inclusion Isoforms:

ENSMUSP00000139702, ENSMUSP00000140471, ENSMUSP00000140816, ENSMUSP00000140907, ENSMUSP00000140975, ENSMUSP00000141123

Other Skipping Isoforms:

NA

Associated events

Other assemblies

mm9

Conservation

Human

(hg38)

chr2:215422091-215422243

HIGH PSI

HsaEX6018355

(FN1)

Human

(hg19)

chr2:216286814-216286966

HIGH PSI

HsaEX6018355

(FN1)

Rat

(rn6)

chr9:78955972-78956124

HIGH PSI

RnoEX6040250

(Fn1)

Cow

(bosTau6)

chr2:103935924-103936076

HIGH PSI

BtaEX6011330

(FN1)

Chicken

(galGal4)

chr7:4372024-4372176

HIGH PSI

GgaEX1066055

(fn1)

Chicken

(galGal3)

chr7:4400429-4400581

HIGH PSI

GgaEX1066055

(FN1)

Zebrafish

(danRer10)

chr1:4835838-4835990

HIGH PSI

DreEX6029949

(fn1b)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

AATGGTGCTCTGTGCCACTTC

R:

CCCTGACCAAAGCAGGTACAG

Band lengths:

248-401

Functional annotations

(Submit an annotation)

There are 5 annotated functions for this event

PMID: 17591922

This event

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance, sequence based prediction. ELM ID: ELMI002211; ELM sequence: NGR; Overlap: FULL

PMID: 18480047

This event

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002211; ELM sequence: NGR; Overlap: FULL

PMID: 1532572

HsaEX6018355

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002208; ELM sequence: NGR; Overlap: FULL

PMID: 1694173

HsaEX6018355

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002208; ELM sequence: NGR; Overlap: FULL

PMID: 18480047

HsaEX6018355

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002208; ELM sequence: NGR; Overlap: FULL

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

SPECIAL DATASETS

Ribosome-engaged transcriptomes of neuronal types
Neural differentiation time course
Muscular differentiation time course
Spermatogenesis cell types
Reprogramming of fibroblasts to iPSCs
Hematopoietic precursors and cell types

Special

MmuEX6025149 @ mm10

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

SPECIAL DATASETS