RnoEX6040250 @ rn6

Exon Skipping

Gene

ENSRNOG00000014288 | Fn1

Description

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

Coordinates

chr9:78954377-78957261:-

Coord C1 exon

chr9:78957085-78957261

Coord A exon

chr9:78955972-78956124

Coord C2 exon

chr9:78954377-78954505

Length

153 bp

Sequences

Splice sites

3' ss Seq

TCTCCTCCATTTCCAAACAGCCC

3' ss Score

9.21

5' ss Seq

GAGGTACGG

5' ss Score

9.4

Exon sequences

Seq C1 exon

TTTTGGTTCAGACTCGAGGTGGGAATTCCAATGGTGCCTTGTGCCACTTCCCCTTCCTGTACAACAACCGGAATTACACCGACTGTACTTCTGAGGGTAGGCGGGACAACATGAAATGGTGCGGCACCACCCAGAACTACGATGCCGATCAGAAGTTTGGATTCTGCCCAATGGCTG

Seq A exon

CCCATGAGGAGATCTGCACGACCAACGAAGGGGTCATGTATCGCATTGGGGACCAGTGGGATAAGCAGCATGACCTGGGCCACATGATGAGGTGCACGTGTGTTGGGAACGGCCGTGGAGAATGGGCCTGCATCCCCTACTCCCAGCTCCGAG

Seq C2 exon

ATCAGTGCATCGTTGATGACATTACTTACAACGTCAACGACACGTTCCACAAGCGTCACGAGGAGGGACATATGCTGAACTGTACCTGCTTCGGTCAGGGCCGGGGCAGATGGAAATGTGACCCCATCG

VastDB Features

Vast-tools module Information

Secondary ID

ENSRNOG00000014288-'11-19,'11-16,13-19=AN

Average complexity

A_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:

ENSRNOP00000019772

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

ENSRNOP00000054395

Other Skipping Isoforms:

NA

Associated events

Conservation

Human

(hg38)

chr2:215422091-215422243

HIGH PSI

HsaEX6018355

(FN1)

Human

(hg19)

chr2:216286814-216286966

HIGH PSI

HsaEX6018355

(FN1)

Mouse

(mm10)

chr1:71640292-71640444

HIGH PSI

MmuEX6025149

(Fn1)

Mouse

(mm9)

chr1:71686866-71687018

HIGH PSI

MmuEX6025149

(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:

CCCTTCCTGTACAACAACCGG

R:

GGTCACATTTCCATCTGCCCC

Band lengths:

250-403

Functional annotations

(Submit an annotation)

There are 5 annotated functions for this event

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

PMID: 17591922

MmuEX6025149

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

MmuEX6025149

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

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

Special

RnoEX6040250 @ rn6

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]