HsaINT1025129 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32200831-32201500:-
Coord C1 exon
chr6:32201117-32201500
Coord A exon
chr6:32201007-32201116
Coord C2 exon
chr6:32200831-32201006
Length
110 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTGAGGTGCCTCCTCTACAGGTT
3' ss Score
7.59
Exon sequences
Seq C1 exon
TCCAGCCTATGACCAGTACTGCCATGATCACTTCCACAACGGGCACTGTGAGAAAGGCTGCAACACTGCAGAGTGTGGCTGGGATGGAGGTGACTGCAGGCCTGAAGATGGGGACCCAGAGTGGGGGCCCTCCCTGGCCCTGCTGGTGGTACTGAGCCCCCCAGCCCTAGACCAGCAGCTGTTTGCCCTGGCCCGGGTGCTGTCCCTGACTCTGAGGGTAGGACTCTGGGTAAGGAAGGATCGTGATGGCAGGGACATGGTGTACCCCTATCCTGGGGCCCGGGCTGAAGAAAAGCTAGGAGGAACTCGGGACCCCACCTATCAGGAGAGAGCAGCCCCTCAAACGCAGCCCCTGGGCAAGGAGACCGACTCCCTCAGTGCTGG
Seq A exon
GTAAGAAGCTAGGTGGAGGGAAGGGCCAGACACCAGTTTTTTTAAGAGGGCAGAGGGAGGAAAGGGAGCCAGGGACCAATACAGAGGTCTCTGAGGTGCCTCCTCTACAG
Seq C2 exon
GTTTGTGGTGGTCATGGGTGTGGATTTGTCCCGCTGTGGCCCTGACCACCCGGCATCCCGCTGTCCCTGGGACCCTGGGCTTCTACTCCGCTTCCTTGCTGCGATGGCTGCAGTGGGAGCCCTGGAGCCCCTGCTGCCTGGACCACTGCTGGCTGTCCACCCTCATGCAGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.248 A=NA C2=0.150
Domain overlap (PFAM):
C1:
PF0006612=Notch=PD(84.6=25.6),PF068168=NOD=WD(100=39.5),PF076847=NODP=PU(4.6=2.3)
A:
NA
C2:
PF076847=NODP=FE(90.8=100)
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:
CCCTAGACCAGCAGCTGTTTG
R:
CACACCCATGACCACCACAAA
Band lengths:
242-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains