HsaINT0114899 @ hg19
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:7883]
Coordinates
chr19:15302771-15303330:-
Coord C1 exon
chr19:15303188-15303330
Coord A exon
chr19:15303110-15303187
Coord C2 exon
chr19:15302771-15303109
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CCCTGTCCTGGTCCCTCCAGGCC
3' ss Score
10.67
Exon sequences
Seq C1 exon
GTGCCCGCCTGGCTGGGTGGGTGAGCGGTGTCAGCTGGAGGACCCCTGTCACTCAGGCCCCTGTGCTGGCCGTGGTGTCTGCCAGAGTTCAGTGGTGGCTGGCACCGCCCGATTCTCATGCCGGTGCCCCCGTGGCTTCCGAG
Seq A exon
GTGAGAGGGGAAGAGTCTGGAGGGGAGGTAGTCGGGGGTGTGGTCAGTCCTAAACTCACCCTGTCCTGGTCCCTCCAG
Seq C2 exon
GCCCTGACTGCTCCCTGCCAGATCCCTGCCTCAGCAGCCCTTGTGCCCACGGTGCCCGCTGCTCAGTGGGGCCCGATGGACGCTTCCTCTGCTCCTGCCCACCTGGCTACCAGGGCCGCAGCTGCCGAAGCGACGTGGATGAGTGCCGGGTGGGTGAGCCCTGCCGCCATGGTGGCACCTGCCTCAACACACCTGGCTCCTTCCGCTGCCAGTGTCCAGCTGGCTACACAGGGCCACTATGTGAGAACCCCGCGGTGCCCTGTGCACCCTCACCATGCCGTAACGGGGGCACCTGCAGGCAGAGTGGCGACCTCACTTACGACTGTGCCTGTCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181-NOTCH3:NM_000435:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(27.3=18.4),PF0000822=EGF=PU(91.4=65.3)
A:
NA
C2:
PF0000822=EGF=PD(5.7=1.8),PF0000822=EGF=WD(100=28.1),PF0764510=EGF_CA=WD(100=38.6),PF0000822=EGF=PU(81.2=22.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGCCAGAGTTCAGTGGTG
R:
TGGGCAGGAGCAGAGGAAG
Band lengths:
168-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)