MmuEX0032043 @ mm10

Exon Skipping

Gene

ENSMUSG00000026923 | Notch1

Description

notch 1 [Source:MGI Symbol;Acc:MGI:97363]

Coordinates

chr2:26478607-26480056:-

Coord C1 exon

chr2:26479871-26480056

Coord A exon

chr2:26479447-26479560

Coord C2 exon

chr2:26478607-26478720

Length

114 bp

Sequences

Splice sites

3' ss Seq

TCACCATCTCCCGTCCACAGGTT

3' ss Score

12.08

5' ss Seq

AAGGTGAGG

5' ss Score

9.16

Exon sequences

Seq C1 exon

GTGCCAACCCTTGTGAGCACGCAGGCAAATGCCTCAACACACTGGGTTCTTTTGAGTGCCAGTGTCTACAGGGCTACACGGGACCCCGCTGTGAGATTGATGTTAATGAGTGCATCTCCAACCCATGTCAGAATGATGCCACTTGCCTGGACCAGATTGGGGAGTTCCAATGCATATGTATGCCAG

Seq A exon

GTTATGAAGGTGTATACTGTGAAATCAACACGGATGAGTGCGCCAGCAGCCCCTGTCTGCACAATGGCCACTGCATGGACAAGATCAATGAGTTCCAATGTCAGTGCCCCAAAG

Seq C2 exon

GCTTCAACGGGCACCTGTGCCAGTATGATGTGGATGAGTGTGCCAGCACACCATGCAAGAACGGTGCCAAGTGCCTGGATGGGCCCAACACCTATACCTGCGTGTGTACAGAAG

VastDB Features

Vast-tools module Information

Secondary ID

ENSMUSG00000026923-'16-15,'16-14,17-15

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:

PF0764510=EGF_CA=PD(79.5=49.2),PF0764510=EGF_CA=PU(72.5=46.0)

A:

PF0764510=EGF_CA=PD(25.0=25.6),PF0000822=EGF=PU(80.6=64.1)

C2:

PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)

Main Inclusion Isoform:

ENSMUSP00000028288

Main Skipping Isoform:

NA

Other Inclusion Isoforms:

NA

Other Skipping Isoforms:

NA

Associated events

MmuEX0032029

Other assemblies

mm9

Conservation

Human

(hg38)

chr9:136517272-136517385

HIGH PSI

HsaEX0043390

(NOTCH1)

Human

(hg19)

chr9:139411724-139411837

HIGH PSI

HsaEX0043390

(NOTCH1)

Rat

(rn6)

chr3:3926888-3927001

HIGH PSI

RnoEX6015998

(Notch1)

Cow

(bosTau6)

chr11:104006718-104006831

HIGH PSI

BtaEX6047232

(NOTCH1)

Chicken

(galGal4)

chr17:7826554-7826667

HIGH PSI

GgaEX7009838

(NOTCH1)

Chicken

(galGal3)

No conservation detected

Zebrafish

(danRer10)

chr5:65054067-65054180

HIGH PSI

DreEX0051121

(notch1b)

Fruitfly

(dm6)

No conservation detected

Primers PCR

Suggestions for RT-PCR validation

F:

ATGCCTCAACACACTGGGTTC

R:

AGGTATAGGTGTTGGGCCCAT

Band lengths:

257-371

Functional annotations

(Submit an annotation)

There are 0 annotated functions for this event

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

SPECIAL DATASETS

Pre-implantation embryo development
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

MmuEX0032043 @ mm10

GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]

SPECIAL DATASETS