HsaINT1025131 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32198649-32199145:-
Coord C1 exon
chr6:32198926-32199145
Coord A exon
chr6:32198731-32198925
Coord C2 exon
chr6:32198649-32198730
Length
195 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
ACCCACCCATTCCTTTCCAGGGC
3' ss Score
10.12
Exon sequences
Seq C1 exon
CACCCCCTGCCAACCAGCTTCCCTGGCCTGTGCTGTGCTCCCCAGTGGCCGGGGTGATTCTCCTGGCCCTAGGGGCTCTTCTCGTCCTCCAGCTCATCCGGCGTCGACGCCGAGAGCATGGAGCTCTCTGGCTGCCCCCTGGTTTCACTCGACGGCCTCGGACTCAGTCAGCTCCCCACCGACGCCGGCCCCCACTAGGCGAGGACAGCATTGGTCTCAA
Seq A exon
GTGAGAATGAGGAGAAACCCAGGCTCAGGAAGGGGAGTCTCTCCTATGGCGATATTTACAATCAGAAAAGATAAGAAATACTATTGCAGAAGTCAAAGATAGGGGAAGGAGAGAGGGGTGGGAAGCCTGCTGGAAATTTTGGAGACCCTGATGGTCATAATTCCGTGTAACCTCTACCCACCCATTCCTTTCCAG
Seq C2 exon
GGCACTGAAGCCAAAGGCAGAAGTTGATGAGGATGGAGTTGTGATGTGCTCAGGCCCTGAGGAGGGAGAGGAGGTGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.821
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(3.1=2.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGATTCTCCTGGCCCTAGGG
R:
ACCTCCTCTCCCTCCTCAGG
Band lengths:
242-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains