HsaINT0111727 @ hg19
Intron Retention
Gene
ENSG00000188566 | NDOR1
Description
NADPH dependent diflavin oxidoreductase 1 [Source:HGNC Symbol;Acc:29838]
Coordinates
chr9:140100119-140100761:+
Coord C1 exon
chr9:140100119-140100364
Coord A exon
chr9:140100365-140100683
Coord C2 exon
chr9:140100684-140100761
Length
319 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
GTGTGTGTCTTTTTGTTGAGGTG
3' ss Score
3.48
Exon sequences
Seq C1 exon
GTCACTTCCGGTCGACGGCGGAAGGCGGAAGGCGGAGCGGTCCCTGCAACCCGGCCGGCGGGAACTGCCTTCTAGTTTTTAGTCTCAGACCAGACCACCGGGCGCACCCCGATGCCGAGCCCGCAGCTTCTGGTGCTCTTCGGCAGCCAGACAGGCACGGCTCAGGATGTGTCGGAGAGACTGGGTCGCGAGGCCCGGCGCCGGCGGCTTGGCTGCCGGGTGCAGGCCCTGGACTCCTACCCGGTG
Seq A exon
GTGAGGGCTCGCTAGGGCCTCGGCGTGGGGGACGAGCAGGCCTGGCGTGCCCGCCTCGCGGGGTCATCGACCCAAAAGGCGTCGCATTTTCTCTGAGAGCGGGTCTTTCCCTTATGGCGGATTTAGGGAAGGAGGTTTGGGAAGGGGAGTTCAGTTTAGCACCTGGAGGAGGTTGGAACCTGAAAGAGAAGACGGTCTGGCTGCTCACATAAATCCCTCTGCCCTGTCAGCCTGAGTAAAGGAGAAGGGGGTCAAGTTTTGGGAAGGACGCCCGGTCCTTACAGCCGGAGGTCTTACGTGTGTGTGTCTTTTTGTTGAG
Seq C2 exon
GTGAATCTGATTAACGAGCCCCTGGTGATATTTGTTTGTGCAACTACAGGCCAAGGAGACCCCCCTGACAACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188566-NDOR1:NM_014434:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0025820=Flavodoxin_1=PU(26.8=82.2)
A:
NA
C2:
PF0025820=Flavodoxin_1=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAACTGCCTTCTAGTTTT
R:
GTCTCCTTGGCCTGTAGTTGC
Band lengths:
248-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)