HsaINT1025127 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32202076-32203882:-
Coord C1 exon
chr6:32203770-32203882
Coord A exon
chr6:32202600-32203769
Coord C2 exon
chr6:32202076-32202599
Length
1170 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
ATCTCCCCTCCCCTCCACAGGGT
3' ss Score
11.84
Exon sequences
Seq C1 exon
GCCAGTGGTGTGAGGTGGAGATAGACCCCTGCCACAGCCAACCCTGCTTTCATGGAGGGACCTGTGAGGCCACAGCAGGATCACCCCTGGGTTTCATCTGCCACTGCCCCAAG
Seq A exon
GCAAGTGACCACAAATCTGCCTTCTCTGTTGCCCCCTATGCTGACAAGGCAAGAATACCTCAGTTGGAATCCCAGAAGGGACTGTGGGTGAGCACTGATGTGGAAATTATTGGAAAAAGCCATGCCAAGCTCACAGTGGGAAGTGTCTCTCAGAAGCAGTCAAAGGCAAGGCAGGATCAGTTGATAGCATGAATGGAATTTTCAAAAATCACAGGCGTTGCCTAAGGGAAGGTCAGGAGCTCCCCAAGCTCAAGCTGCGTGGTGGGTGGCCTCAGATAGGTTATTTTAACTCTGTGTGTGTTTGTATATGTATTTATGGACCTCAGATGCATGGAATTAGACTAATCTTAAGCTTTGGTTCCTGATACACTGACATTGGTTTATGCCTGGTCTTCTTTTATTTTATTATTCTAACAATGTAACACCCATGAACCTAACCCAAGAATTTCAATATTAATAATAACTTACATCTACTTAAGTCCTCCTCCTGTATCCTGTTCCCTCTCCAGAGGAAGAGGAAGACATATGATCCTATTTCTAAGGAGTAAGATAATAATATAACAGCCGGCCGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACCTGAGGTCGGGCATTCGAGACCAGCCTGACAAACATGGAGAAACCCTGTCTCTACTAAAAATACAAATTAGCTGGGCGTGGTGGTGCATGGCTGTAATCCCAGCTATTGGGAAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGCAGAGGTTGCAATGAGCTGAGATTGCACCATTGCACTCCAGCCTGGACAACAAGAGCGAAACTCTGTCTCAAAAATAATAATAATAATAATATAATAGCATTCTATTAACTGTTTAGTCTTCTAGGACTTGCACTGTAATGCCACAGTCCATCAGGTTGTTGCACACAGCTGTGCTTCATCCATTTTCAACAGAATGTAATATGTCATTGTGTGAAATTACCACAGGACATGGTTTCAACATCCACAAAATGATTAACTTGATGCTCTCTGAGGCGCCTTTTAGATATGAGAATCTAGGACCCTCTGCACCGTCTTAACCCAAGAGTTTGCTTGATGGAGAGCGGGAAGAATAATGCAAGTTGCATCTCCAATATCTCCCCTCCCCTCCACAG
Seq C2 exon
GGTTTTGAAGGCCCCACCTGCAGCCACAGGGCCCCTTCCTGCGGCTTCCATCACTGCCACCACGGAGGCCTGTGTCTGCCCTCCCCTAAGCCAGGCTTCCCACCACGCTGTGCCTGCCTCAGTGGCTATGGGGGTCCTGACTGCCTGACCCCACCAGCTCCTAAAGGCTGTGGCCCTCCCTCCCCATGCCTATACAATGGCAGCTGCTCAGAGACCACGGGCTTGGGGGGCCCAGGCTTTCGATGCTCCTGCCCTCACAGCTCTCCAGGGCCCCGGTGTCAGAAACCCGGAGCCAAGGGGTGTGAGGGCAGAAGTGGAGATGGGGCCTGCGATGCTGGCTGCAGTGGCCCGGGAGGAAACTGGGATGGAGGGGACTGCTCTCTGGGAGTCCCAGACCCCTGGAAGGGCTGCCCCTCCCACTCTCGGTGCTGGCTTCTCTTCCGGGACGGGCAGTGCCACCCACAGTGTGACTCTGAAGAGTGTCTGTTTGATGGCTACGACTGTGAGACCCCTCCAGCCTGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:20
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(79.4=71.1)
A:
NA
C2:
PF0000822=EGF=PD(14.7=2.9),PF0006612=Notch=WD(100=22.9),PF0006612=Notch=WD(100=21.7),PF0006612=Notch=PU(12.8=2.9)
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:
CCTGGGTTTCATCTGCCACTG
R:
ATCTCCACTTCTGCCCTCACA
Band lengths:
349-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains