HsaINT0114896 @ hg19
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:7883]
Coordinates
chr19:15280897-15281364:-
Coord C1 exon
chr19:15281142-15281364
Coord A exon
chr19:15280982-15281141
Coord C2 exon
chr19:15280897-15280981
Length
160 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGA
5' ss Score
3.22
3' ss Seq
CTCTTCCCATTGTCCGCCAGGAA
3' ss Score
9.28
Exon sequences
Seq C1 exon
GGGAGCCGCTGGAGCCTCCAGAACCCAGCGTCCCGCTGCTGCCACTGCTAGTGGCGGGCGCTGTCTTGCTGCTGGTCATTCTCGTCCTGGGTGTCATGGTGGCCCGGCGCAAGCGCGAGCACAGCACCCTCTGGTTCCCTGAGGGCTTCTCACTGCACAAGGACGTGGCCTCTGGTCACAAGGGCCGGCGGGAACCCGTGGGCCAGGACGCGCTGGGCATGAA
Seq A exon
GTGAGAACCCTGCTCGCTCCCTGTCCCTGACTACGGGGACCTTGTGAACCCTGGACCCCGCCTTGACCTGACTCAGACCTCTGACCCCACCCCAAATCCTCCTTCCCAGCTGGACACCTCTAGTGTCCCCCTCACATCCCCTCTTCCCATTGTCCGCCAG
Seq C2 exon
GAACATGGCCAAGGGTGAGAGCCTGATGGGGGAGGTGGCCACAGACTGGATGGACACAGAGTGCCCAGAGGCCAAGCGGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181-NOTCH3:NM_000435:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.347 A=NA C2=0.552
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(13.8=12.0)
A:
NA
C2:
NO
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:
TGGAGCCTCCAGAACCCAG
R:
CCCATCAGGCTCTCACCCTT
Band lengths:
244-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)