HsaINT0114890 @ hg38
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr19:15179025-15179496:-
Coord C1 exon
chr19:15179364-15179496
Coord A exon
chr19:15179283-15179363
Coord C2 exon
chr19:15179025-15179282
Length
81 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGC
5' ss Score
6.57
3' ss Seq
CCCCTCGTTTCTTCCCCCAGGGG
3' ss Score
12.06
Exon sequences
Seq C1 exon
TGTCTTCCTGGCTACAATGGTGATAACTGTGAGGACGACGTGGACGAGTGTGCCTCCCAGCCCTGCCAGCACGGGGGTTCATGCATTGACCTCGTGGCCCGCTATCTCTGCTCCTGTCCCCCAGGAACGCTGG
Seq A exon
GTATGCCAGGGCCAGGGTTGGGGGGACAGGATGAGAGGCTGTCTTCATTCCCTCTTGACCACCCCTCGTTTCTTCCCCCAG
Seq C2 exon
GGGTGCTCTGCGAGATTAATGAGGATGACTGCGGCCCAGGCCCACCGCTGGACTCAGGGCCCCGGTGCCTACACAATGGCACCTGCGTGGACCTGGTGGGTGGTTTCCGCTGCACCTGTCCCCCAGGATACACTGGTTTGCGCTGCGAGGCAGACATCAATGAGTGTCGCTCAGGTGCCTGCCACGCGGCACACACCCGGGACTGCCTGCAGGACCCAGGCGGAGGTTTCCGTTGCCTTTGTCATGCTGGCTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181:ENST00000263388:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(80.0=62.2)
A:
NA
C2:
PF0000822=EGF=PD(17.1=6.9),PF0000822=EGF=WD(100=43.7),PF0764510=EGF_CA=PU(68.6=40.2)
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:
CTATCTCTGCTCCTGTCCCCC
R:
GCAAACCAGTGTATCCTGGGG
Band lengths:
173-254
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