HsaINT0115142 @ hg38
Intron Retention
Gene
ENSG00000107281 | NPDC1
Description
neural proliferation, differentiation and control 1 [Source:HGNC Symbol;Acc:HGNC:7899]
Coordinates
chr9:137039971-137040436:-
Coord C1 exon
chr9:137040357-137040436
Coord A exon
chr9:137040068-137040356
Coord C2 exon
chr9:137039971-137040067
Length
289 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
AGCGATCCCCCCCCACCCAGGCA
3' ss Score
5.62
Exon sequences
Seq C1 exon
CCTGGGGACCAGCGGCTGGCACAGAGCGCGGAGATGTACCACTACCAGCACCAACGGCAACAGATGCTGTGCCTGGAGCG
Seq A exon
GTGAGTGGCCGCCCCGGCACTGCCACCCCCACCCACCCACCCCCCATCCCCACCTCCACCTCCATTTCCACCTCCCCTGGCCAACTTTACCCCAGGCCCTGCCACCCTCACCTGCACGCTAACCTTCACCTCCCCCGCCGCCCTGCACCCTCACCTCCCCTGGCCAACTTCACCCTGGGCTGTGCTCCCCTGCCACCCCAGGGCTGAGGTGGGCTGAGTGCCCACTTCCAGACTGGGCCACTGGCACCTCGAGGGCATGGGGAGGACCCAGCGATCCCCCCCCACCCAG
Seq C2 exon
GCATAAAGAGCCACCCAAGGAGCTGGACACGGCCTCCTCGGATGAGGAGAATGAGGACGGAGACTTCACGGTGTACGAGTGCCCGGGCCTGGCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107281:ENST00000371601:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.706 A=NA C2=0.836
Domain overlap (PFAM):
C1:
PF068096=NPDC1=FE(8.4=100)
A:
NA
C2:
PF068096=NPDC1=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGAGCGCGGAGATGTAC
R:
CCCGGGCACTCGTACACC
Band lengths:
148-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development