HsaINT1025134 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32196925-32197594:-
Coord C1 exon
chr6:32197299-32197594
Coord A exon
chr6:32197073-32197298
Coord C2 exon
chr6:32196925-32197072
Length
226 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
CTGGCCCTCTGTCTCCCCAGCTT
3' ss Score
9.49
Exon sequences
Seq C1 exon
ATGGGGTGACACCCCTGATGTCAGCAGTTTGCTGTGGGGAAGTACAGTCCGGGACCTTCCAAGGGGCATGGTTGGGATGTCCTGAGCCCTGGGAACCTCTGCTGGATGGAGGGGCCTGTCCCCAGGCTCACACCGTGGGCACTGGGGAGACCCCCCTGCACCTGGCTGCCCGATTCTCCCGGCCAACCGCTGCCCGCCGCCTCCTTGAGGCTGGAGCCAACCCCAACCAGCCAGACCGGGCAGGGCGCACACCCCTTCATGCTGCTGTGGCTGCTGATGCTCGGGAGGTCTGCCAG
Seq A exon
GTTAGCACACACTGAGGTCCCTACAGGGAATGGGGCGAGCTTACAAGTAAAGCTGGACAGAAGCATCCCCTAGAGTTTGACAAGGAGGAAATTGGTGTGATTGGGAACCTGACAGGGAAACTGCGGAGGATGGCTGAATATGGATTGCGAGTGGGGTTAATAGTGTAAGGAACTCGAGTTGGCAGTCCAAGGTACCCCAGGGGTCACTGGCCCTCTGTCTCCCCAG
Seq C2 exon
CTTCTGCTCCGTAGCAGACAAACTGCAGTGGACGCTCGCACAGAGGACGGGACCACACCCTTGATGCTGGCTGCCAGGCTGGCGGTGGAAGACCTGGTTGAAGAACTGATTGCAGCCCAAGCAGACGTGGGGGCCAGAGATAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.525 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(83.9=78.8)
A:
NA
C2:
PF127962=Ank_2=PD(14.0=26.0),PF127962=Ank_2=PU(58.7=88.0)
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:
CATGGTTGGGATGTCCTGAGC
R:
CAGCATCAAGGGTGTGGTCC
Band lengths:
299-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains