RnoEX6040248 @ rn6

Exon Skipping

Gene

ENSRNOG00000014288 | Fn1

Description

fibronectin 1 [Source:RGD Symbol;Acc:2624]

Coordinates

chr9:78958612-78963839:-

Coord C1 exon

chr9:78963702-78963839

Coord A exon

chr9:78960981-78961136

Coord C2 exon

chr9:78958612-78958803

Length

156 bp

Sequences

Splice sites

3' ss Seq

ATGCTTCTTTCCCCACACAGACA

3' ss Score

9.16

5' ss Seq

CTGGTGAGC

5' ss Score

8.05

Exon sequences

Seq C1 exon

CTGAGAAATGTTTTGATCACGCTGCTGGGACTTCCTACGTCGTGGGGGAGACCTGGGAAAAGCCCTACCAAGGCTGGATGATGGTGGACTGTACTTGTCTGGGCGAAGGCAATGGGCGTATCACCTGCACCTCCCGGA

Seq A exon

ACAGATGCAATGATCAGGACACCAGGACGTCCTACAGAATTGGAGACACATGGAGCAAGAAGGACAACAGAGGGAACCTGCTCCAGTGTGTCTGCACAGGCAACGGCAGAGGGGAGTGGAAGTGTGAGCGACATGTTCTACAGAGTGCTTCAGCTG

Seq C2 exon

GATCTGGCTCCTTCACAGATGTCCGAACAGCTATTTACCAACCCCAGACCCACCCCCAGCCCGCACCGTACGGCCACTGTGTCACAGACAGCGGTGTGGTCTACTCTGTGGGAATGCAGTGGCTGAAGTCTCAAGGAGACAAGCAGATGCTGTGCACTTGCCTGGGCAATGGCGTCAGCTGCCAGGAGACAG

VastDB Features

Vast-tools module Information

Secondary ID

ENSRNOG00000014288-'6-11,'6-8,7-11=AN

Average complexity

A_S

Mappability confidence:

89%=75=100%

Protein Impact

Alternative protein isoforms (Ref)

No structure available

Features

Disorder rate (Iupred):

C1=0.000 A=0.057 C2=0.062

Domain overlap (PFAM):

C1:

PF0003913=fn1=WD(100=85.1)

A:

PF0003913=fn1=WD(100=75.5)

C2:

PF0003913=fn1=WD(100=53.8)

Main Inclusion Isoform:

ENSRNOP00000019772

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

ENSRNOP00000054395

Other Skipping Isoforms:

NA

Associated events

Conservation

Human

(hg38)

chr2:215428180-215428338

HIGH PSI

HsaEX6018351

(FN1)

Human

(hg19)

chr2:216292903-216293061

HIGH PSI

HsaEX6018351

(FN1)

Mouse

(mm10)

chr1:71645547-71645702

HIGH PSI

MmuEX6025145

(Fn1)

Mouse

(mm9)

chr1:71692121-71692276

HIGH PSI

MmuEX6025145

(Fn1)

Cow

(bosTau6)

chr2:103941937-103942095

HIGH PSI

BtaEX6011326

(FN1)

Chicken

(galGal4)

chr7:4376687-4376845

HIGH PSI

GgaEX1066072

(fn1)

Chicken

(galGal3)

chr7:4405092-4405250

HIGH PSI

GgaEX1066072

(FN1)

Zebrafish

(danRer10)

chr1:4839593-4839754

HIGH PSI

DreEX0033159

(fn1b)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

GTTTTGATCACGCTGCTGGGA

R:

TCCCACAGAGTAGACCACACC

Band lengths:

242-398

Functional annotations

(Submit an annotation)

There are 6 annotated functions for this event

PMID: 1532572

HsaEX6018351

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002206; ELM sequence: NGR; Overlap: FULL

PMID: 1694173

HsaEX6018351

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002206; ELM sequence: NGR; Overlap: FULL

PMID: 17015452

HsaEX6018351

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, nuclear magnetic resonance, peptide binding to perpetrator, polyclonal antibody, western blot. ELM ID: ELMI002206; ELM sequence: NGR; Overlap: FULL

PMID: 18480047

HsaEX6018351

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002206; ELM sequence: NGR; Overlap: FULL

PMID: 17591922

MmuEX6025145

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance, sequence based prediction. ELM ID: ELMI002210; ELM sequence: NGR; Overlap: FULL

PMID: 18480047

MmuEX6025145

Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002210; ELM sequence: NGR; Overlap: FULL

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

RnoEX6040248 @ rn6

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]