HsaINT1025119 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32213688-32214255:-
Coord C1 exon
chr6:32214110-32214255
Coord A exon
chr6:32213841-32214109
Coord C2 exon
chr6:32213688-32213840
Length
269 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCCCCACCTGTTTCCTTCAGGAC
3' ss Score
10.83
Exon sequences
Seq C1 exon
ATCCTCATGTGTGTGTGACGTGGGTTGGACGGGGCCAGAGTGTGAGGCAGAGCTAGGGGGCTGCATCTCTGCACCCTGTGCCCATGGGGGGACCTGCTACCCCCAGCCCTCTGGCTACAACTGCACCTGCCCTACAGGCTACACAG
Seq A exon
GTGAGACCCTCCCTAAACCATATACACCCTGTGCTGGTCACCCCCTATGTCAAGGGTAAGGCAGGCGACCACGGGCCCTGAGTCTCAGTCACCACTAAGGAGAACTGGACTGCAGGGGACACGGGTGATGTGTGGGAGGTGGTGAGAACGGAGGTTGATGGGAAAGAATAATAGGGTTGGGGATGAGGAAGGGAAGGAAGAGGAAAGAGAAGGAGAGCGGAGGGAGGGAAGGAGGACACCCTTTCTCAGCCCCCACCTGTTTCCTTCAG
Seq C2 exon
GACCCACCTGTAGTGAGGAGATGACAGCTTGTCACTCAGGGCCATGTCTCAATGGCGGCTCCTGCAACCCTAGCCCTGGAGGCTACTACTGCACCTGCCCTCCAAGCCACACAGGGCCCCAGTGCCAAACCAGCACTGACTACTGTGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:13
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=PU(91.2=62.0)
A:
NA
C2:
PF0000822=EGF=PD(5.9=3.8),PF0000822=EGF=WD(100=59.6),PF0000822=EGF=PU(9.7=5.8)
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:
CATGTGTGTGTGACGTGGGTT
R:
GACACACAGTAGTCAGTGCTGG
Band lengths:
292-561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains