HsaINT1025133 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32197299-32198559:-
Coord C1 exon
chr6:32198421-32198559
Coord A exon
chr6:32197595-32198420
Coord C2 exon
chr6:32197299-32197594
Length
826 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TTACTCTGTCTTACCAACAGATG
3' ss Score
11.24
Exon sequences
Seq C1 exon
GCTGAAGAAACAGGCCCACCCTCCACGTGCCAGCTCTGGTCTCTGAGTGGTGGCTGTGGGGCGCTCCCTCAGGCAGCCATGCTAACTCCTCCCCAGGAATCTGAGATGGAAGCCCCTGACCTGGACACCCGTGGACCTG
Seq A exon
GTATGTGAGTCAACCCAGACCAAGAAAAAAAAAAAAAGTCCTTTGACCCTATTAGAATCAGAGAGTCCTTTAATATCAGAACTAGAGGAAATAATTTTAGACTGAGTGCCTTAGAACAATGATTCTCAAAGTGTGGTCCTCAGACAGCAAAATCAGCATCACCTGGGAATTTGTCAGAAATGCAAATTATTGGGCTCCACTACAGAGCTACTGACTCAGGAATTTAAAATGTTAGGCAATCTGTTTTAACAAGCCCTTCAGGTGAATCTGATCCAGACTCGTTTGAGAAAACCACTGCTAGGCCGGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGGATCACAAGGTCAGGAGATCGAGACCATCCTGGCTAACACAGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGAGCCTGTAGTCCCAGCTGCTCTGGAGGCTAAGGCAGGAGAATGGCGTGAACCTGGGAGGAGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGGGCGAGACTCCGTCTCAGAAAAAAAAAAAAAAAAAAGAGAAAACCACTGCCCTGGAATGTCAGAGAATTAAGCTGCAGGTTCCTTTTACAGAGGAAGAAACTGAAGTCAGAGAAAAGCAGAAAAGTCACTTGGCTAAAGCCACACAGAGCCAGAACTTAGCTTCCCAACACCTCAGGTTTTGATTCTCTCTGAGCTTACATGTTGTCCCTTCCCCCTTGTTGTGTCCTTTAGATTGACCCATTACTCTGTCTTACCAACAG
Seq C2 exon
ATGGGGTGACACCCCTGATGTCAGCAGTTTGCTGTGGGGAAGTACAGTCCGGGACCTTCCAAGGGGCATGGTTGGGATGTCCTGAGCCCTGGGAACCTCTGCTGGATGGAGGGGCCTGTCCCCAGGCTCACACCGTGGGCACTGGGGAGACCCCCCTGCACCTGGCTGCCCGATTCTCCCGGCCAACCGCTGCCCGCCGCCTCCTTGAGGCTGGAGCCAACCCCAACCAGCCAGACCGGGCAGGGCGCACACCCCTTCATGCTGCTGTGGCTGCTGATGCTCGGGAGGTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.745 A=NA C2=0.525
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127962=Ank_2=PU(83.9=78.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCTGGTCTCTGAGTGGTG
R:
GTCTGGCTGGTTGGGGTTG
Band lengths:
344-1170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains