HsaINT0114809 @ hg38
Intron Retention
Gene
ENSG00000148400 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr9:136515290-136515716:-
Coord C1 exon
chr9:136515483-136515716
Coord A exon
chr9:136515401-136515482
Coord C2 exon
chr9:136515290-136515400
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGCC
5' ss Score
3.48
3' ss Seq
GACACGTGCCACCCCTTCAGGAC
3' ss Score
7.79
Exon sequences
Seq C1 exon
GGTACACGGGGACGCACTGCGAGGTGGACATCGATGAGTGCGACCCCGACCCCTGCCACTACGGCTCCTGCAAGGACGGCGTCGCCACCTTCACCTGCCTCTGCCGCCCAGGCTACACGGGCCACCACTGCGAGACCAACATCAACGAGTGCTCCAGCCAGCCCTGCCGCCACGGGGGCACCTGCCAGGACCGCGACAACGCCTACCTCTGCTTCTGCCTGAAGGGGACCACAG
Seq A exon
GTGGCCGGCCAGGCGGGTGGCCGGCGGGGGGCCAGTGGGCAGGGCGGGCCTGAGGACTGACCGACACGTGCCACCCCTTCAG
Seq C2 exon
GACCCAACTGCGAGATCAACCTGGATGACTGTGCCAGCAGCCCCTGCGACTCGGGCACCTGTCTGGACAAGATCGATGGCTACGAGTGTGCCTGTGAGCCGGGCTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148400:ENST00000277541:11
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(16.1=6.3),PF0000822=EGF=WD(100=38.0),PF0000822=EGF=PU(90.3=35.4)
A:
NA
C2:
PF0000822=EGF=PD(6.5=5.3),PF0000822=EGF=PU(93.1=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAGACCAACATCAACGAGT
R:
CGATCTTGTCCAGACAGGTGC
Band lengths:
180-262
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