BtaEX6011326 @ bosTau6

Exon Skipping

Gene

ENSBTAG00000008300 | FN1

Description

Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]

Coordinates

chr2:103939479-103945238:-

Coord C1 exon

chr2:103945101-103945238

Coord A exon

chr2:103941937-103942095

Coord C2 exon

chr2:103939479-103939670

Length

159 bp

Sequences

Splice sites

3' ss Seq

ACGCTCCCTTTCTGACACAGACA

3' ss Score

7.7

5' ss Seq

CAGGTGAGG

5' ss Score

10.07

Exon sequences

Seq C1 exon

CTGAGAAGTGTTTTGATCAAGCTGCTGGTACTTCCTACGTTGTCGGGGAGACCTGGGAAAAGCCTTATCAAGGCTGGATGATGGTGGACTGCACTTGCCTGGGAGAAGGCAGCGGACGTATCACTTGCACCTCCAGAA

Seq A exon

ACAGATGCAACGATCAGGACACTAGGACATCCTATAGAATTGGGGATACCTGGAGCAAGAAGGACAACCGGGGGAACCTGCTCCAGTGCATCTGCACGGGCAATGGCCGTGGCGAGTGGAAGTGTGAGAGGCATACATCCCTGCAGACCACATCTGCAG

Seq C2 exon

GATCTGGCTCCTTCACTGATGTCCGAACGGCCATCTACCAGCCCCAGCCTCATCCTCAGCCGCCTCCGTATGGTCACTGTGTCACAGACAGCGGTGTGGTTTACTCTGTGGGGATGCAGTGGCTGAAGACACAAGGGAATAAGCAAATGCTTTGCACTTGCCTGGGCAACGGAGTCAGCTGCCAAGAGACAG

VastDB Features

Vast-tools module Information

Secondary ID

ENSBTAG00000008300-'4-7,'4-5,5-7=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=0.074 C2=0.154

Domain overlap (PFAM):

C1:

PF0003913=fn1=WD(100=85.1)

A:

PF0003913=fn1=WD(100=74.1)

C2:

PF0003913=fn1=WD(100=53.8)

Main Inclusion Isoform:

ENSBTAP00000010925

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

ENSBTAP00000010922, ENSBTAP00000010926

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)

Rat

(rn6)

chr9:78960981-78961136

HIGH PSI

RnoEX6040248

(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:

AGCTGCTGGTACTTCCTACGT

R:

CTTGTGTCTTCAGCCACTGCA

Band lengths:

254-413

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

BtaEX6011326 @ bosTau6

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]