HsaINT1025125 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32203770-32204389:-
Coord C1 exon
chr6:32204137-32204389
Coord A exon
chr6:32203883-32204136
Coord C2 exon
chr6:32203770-32203882
Length
254 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AATCTCCCCCATAATTACAGGCC
3' ss Score
5.63
Exon sequences
Seq C1 exon
TGTGCCCCAGGCTACGATGGACAGAACTGCTCAAAGGAACTCGATGCTTGTCAGTCCCAACCCTGTCACAACCATGGAACCTGTACTCCCAAACCTGGAGGATTCCACTGTGCCTGCCCTCCAGGCTTTGTGGGGCTACGCTGTGAGGGAGACGTGGACGAGTGTCTGGACCAGCCCTGCCACCCCACAGGCACTGCAGCCTGCCACTCTCTGGCCAATGCCTTCTACTGCCAGTGTCTGCCTGGACACACAG
Seq A exon
GTGAGGCCCCAAGACAAGGGGCACAAGTGTGTCTGGAGCACAGCCAAGCAGACCATGGAGAGCCAGATAGTCTCCACCCATGCGGCAGCCGTCACCTGGTCCATCCCCTGCCTCCACGCCCACCCCCGCCCAGAAAAGATGCCCCAGGATCCCTTCACCTGCACATCTAGCACTGGGCCAACATCCAGGAATGAGCTAGGATGGAGGCAGTGACTGATGCAGTGTGTGACATCTAATCTCCCCCATAATTACAG
Seq C2 exon
GCCAGTGGTGTGAGGTGGAGATAGACCCCTGCCACAGCCAACCCTGCTTTCATGGAGGGACCTGTGAGGCCACAGCAGGATCACCCCTGGGTTTCATCTGCCACTGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:19
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(22.9=9.4),PF0000822=EGF=WD(100=36.5)
A:
NA
C2:
PF0000822=EGF=PU(79.4=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTACGATGGACAGAACTGC
R:
CCTCCATGAAAGCAGGGTTGG
Band lengths:
302-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains