HsaINT0114883 @ hg38
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr19:15184295-15185019:-
Coord C1 exon
chr19:15184906-15185019
Coord A exon
chr19:15184451-15184905
Coord C2 exon
chr19:15184295-15184450
Length
455 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
ACCTTGCTCCCTACCCCCAGGCC
3' ss Score
11.33
Exon sequences
Seq C1 exon
GACGTCAGTGTGAACTCCTCTCCCCCTGCACCCCGAACCCCTGTGAGCATGGGGGCCGCTGCGAGTCTGCCCCTGGCCAGCTGCCTGTCTGCTCCTGCCCCCAGGGCTGGCAAG
Seq A exon
GTATGCCACCTGCTTCTCTTCCCTCCTCCTCTCCATCTCCTCTGCCCCCTACCCTATCAGGGATGATGCTGGGGATCCAGAGAGGGACCCATCCCCAGCCCTGCCTTTGAGAGGGGCTTCCTTCTTGGAAGGACAGAGCTGGACACTGATATGCAGCCTGTGTGGGTCAGCCCTTGGAAGAGGAAGAGTTATGGGGCTAGAGATGCTGGGACTTAGGGCGGGGTTTAGGGTACAGCTTCCTGGAGGAGCAGACCTCATAGTAGGTATTTGCCACCTACTGAGACAGGGAGACGGCCATTCTGAAACTGCATATGCAAAATGCCCAGACACGAATGACAGCACGGCTTATTTTGCCTTCACCCATCTCGGCCTGCAGGTTCTTCCTGAGCCCCAGGTCCCTGAGACCCTGCTCTGTACCCTGTAACCCTAGGTGTAACCTTGCTCCCTACCCCCAG
Seq C2 exon
GCCCACGATGCCAGCAGGATGTGGACGAGTGTGCTGGCCCCGCACCCTGTGGCCCTCATGGTATCTGCACCAACCTGGCAGGGAGTTTCAGCTGCACCTGCCATGGAGGGTACACTGGCCCTTCCTGCGATCAGGACATCAATGACTGTGACCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181:ENST00000263388:15
Average complexity
IR
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(6.5=5.1),PF0000822=EGF=WD(100=76.9),PF0000822=EGF=PU(3.4=2.6)
A:
NA
C2:
PF0000822=EGF=PD(6.2=3.8),PF0764510=EGF_CA=WD(100=73.6),PF0000822=EGF=PU(9.7=5.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGTCAGTGTGAACTCCTCT
R:
TGGGGTCACAGTCATTGATGT
Band lengths:
270-725
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