HsaINT0114902 @ hg19
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:7883]
Coordinates
chr19:15270444-15273373:-
Coord C1 exon
chr19:15273276-15273373
Coord A exon
chr19:15272526-15273275
Coord C2 exon
chr19:15270444-15272525
Length
750 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTGGGTTCTGGCCCCCCAGGAG
3' ss Score
7.83
Exon sequences
Seq C1 exon
GGAAATCAGCCTTACACTGGGCTGCGGCTGTGAACAACGTGGAAGCCACTTTGGCCCTGCTCAAAAATGGAGCCAATAAGGACATGCAGGATAGCAAG
Seq A exon
GTGAGCCCCAGCCCTTGGTCCACTGGGTGTCAGCAGTGGCACAGTGCCATTGCAATCCAGCCTGGGCAACAGAGTGAGACTCTCTCAAAAAACAAAACAAAATAAAACCCCAAACATTGGATTAAAATATAATTTACTTTGGTGACTAAAGTTTTTGGGGGCCCCTTAAATTTTGTGCCTAATGGCTGGGTGTGGTGGTTCATGCCTATAATCCCAGCACTTTGGGAGGTCGAGATGGGTGGATTACTTGAGTTCAGGAGTTTGAGACCAGCCTGGCCAACGTAGTAAAACCCTGTCTCTATTAAAAATACAAAAATTAGCTGGGCGTAGTGGTGCACACCTGTAGTCCCAGCTGCTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGAAGGCTGAGGTTGCAGTGAACTGAAATGGCGCCACTGCACTCCAGCCTGGGCGACACAGTGAGACTCTGTCAAAAAAAAAAAAAAAAAAAGACAAGAAAAAAAAAGTTATGCCTAAGGTGAGTACCTCGCTTAACTCACCCTAGTCCTGGCCTTGACCTCTGGCACTTAGTAGGTGATGGATGAATGTGGTTTAGAGGAAAGAACTTGTCCAGGCTCCCCCAGCACAGCCGGGATTTAACCCAGGTCTGTCAAGCTCCAGTGTACAAACTCATAGCTCTCGGGCTCCCCCAAGAGGCTGGAAGACTTTGCTACTGTTAGCTGGGGTTTCGCTGACCTCTGTGGGTTCTGGCCCCCCAG
Seq C2 exon
GAGGAGACCCCCCTATTCCTGGCCGCCCGCGAGGGCAGCTATGAGGCTGCCAAGCTGCTGTTGGACCACTTTGCCAACCGTGAGATCACCGACCACCTGGACAGGCTGCCGCGGGACGTAGCCCAGGAGAGACTGCACCAGGACATCGTGCGCTTGCTGGATCAACCCAGTGGGCCCCGCAGCCCCCCCGGTCCCCACGGCCTGGGGCCTCTGCTCTGTCCTCCAGGGGCCTTCCTCCCTGGCCTCAAAGCGGCACAGTCGGGGTCCAAGAAGAGCAGGAGGCCCCCCGGGAAGGCGGGGCTGGGGCCGCAGGGGCCCCGGGGGCGGGGCAAGAAGCTGACGCTGGCCTGCCCGGGCCCCCTGGCTGACAGCTCGGTCACGCTGTCGCCCGTGGACTCGCTGGACTCCCCGCGGCCTTTCGGTGGGCCCCCTGCTTCCCCTGGTGGCTTCCCCCTTGAGGGGCCCTATGCAGCTGCCACTGCCACTGCAGTGTCTCTGGCACAGCTTGGTGGCCCAGGCCGGGCGGGTCTAGGGCGCCAGCCCCCTGGAGGATGTGTACTCAGCCTGGGCCTGCTGAACCCTGTGGCTGTGCCCCTCGATTGGGCCCGGCTGCCCCCACCTGCCCCTCCAGGCCCCTCGTTCCTGCTGCCACTGGCGCCGGGACCCCAGCTGCTCAACCCAGGGACCCCCGTCTCCCCGCAGGAGCGGCCCCCGCCTTACCTGGCAGTCCCAGGACATGGCGAGGAGTACCCGGCGGCTGGGGCACACAGCAGCCCCCCAAAGGCCCGCTTCCTGCGGGTTCCCAGTGAGCACCCTTACCTGACCCCATCCCCCGAATCCCCTGAGCACTGGGCCAGCCCCTCACCTCCCTCCCTCTCAGACTGGTCCGAATCCACGCCTAGCCCAGCCACTGCCACTGGGGCCATGGCCACCACCACTGGGGCACTGCCTGCCCAGCCACTTCCCTTGTCTGTTCCCAGCTCCCTTGCTCAGGCCCAGACCCAGCTGGGGCCCCAGCCGGAAGTTACCCCCAAGAGGCAAGTGTTGGCCTGAGACGCTCGTCAGTTCTTAGATCTTGGGGGCCTAAAGAGACCCCCGTCCTGCCTCCTTTCTTTCTCTGTCTCTTCCTTCCTTTTAGTCTTTTTCATCCTCTTCTCTTTCCACCAACCCTCCTGCATCCTTGCCTTGCAGCGTGACCGAGATAGGTCATCAGCCCAGGGCTTCAGTCTTCCTTTATTTATAATGGGTGGGGGCTACCACCCACCCTCTCAGTCTTGTGAAGAGTCTGGGACCTCCTTCTTCCCCACTTCTCTCTTCCCTCATTCCTTTCTCTCTCCTTCTGGCCTCTCATTTCCTTACACTCTGACATGAATGAATTATTATTATTTTTATTTTTCTTTTTTTTTTTACATTTTGTATAGAAACAAATTCATTTAAACAAACTTATTATTATTATTTTTTACAAAATATATATATGGAGATGCTCCCTCCCCCTGTGAACCCCCCAGTGCCCCCGTGGGGCTGAGTCTGTGGGCCCATTCGGCCAAGCTGGATTCTGTGTACCTAGTACACAGGCATGACTGGGATCCCGTGTACCGAGTACACGACCCAGGTATGTACCAAGTAGGCACCCTTGGGCGCACCCACTGGGGCCAGGGGTCGGGGGAGTGTTGGGAGCCTCCTCCCCACCCCACCTCCCTCACTTCACTGCATTCCAGATGGGACATGTTCCATAGCCTTGCTGGGGAAGGGCCCACTGCCAACTCCCTCTGCCCCAGCCCCACCCTTGGCCATCTCCCTTTGGGAACTAGGGGGCTGCTGGTGGGAAATGGGAGCCAGGGCAGATGTATGCATTCCTTTGTGTCCCTGTAAATGTGGGACTACAAGAAGAGGAGCTGCCTGAGTGGTACTTTCTCTTCCTGGTAATCCTCTGGCCCAGCCTCATGGCAGAATAGAGGTATTTTTAGGCTATTTTTGTAATATGGCTTCTGGTCAAAATCCCTGTGTAGCTGAATTCCCAAGCCCTGCATTGTACAGCCCCCCACTCCCCTCACCACCTAATAAAGGAATAGTTAACACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181-NOTCH3:NM_000435:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.831
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.4=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.3=8.5),PF119363=DUF3454=WD(100=19.1)
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:
CTGTGAACAACGTGGAAGCCA
R:
CTCTTCTTGGACCCCGACTGT
Band lengths:
346-1096
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)