HsaINT0116388 @ hg38
Intron Retention
Gene
ENSG00000162068 | NTN3
Description
netrin 3 [Source:HGNC Symbol;Acc:HGNC:8030]
Coordinates
chr16:2472985-2473318:+
Coord C1 exon
chr16:2472985-2473134
Coord A exon
chr16:2473135-2473267
Coord C2 exon
chr16:2473268-2473318
Length
133 bp
Sequences
Splice sites
5' ss Seq
TTAGTGAGT
5' ss Score
5.79
3' ss Seq
TTCTCCCTCCCTCTCTGCAGAGA
3' ss Score
11.75
Exon sequences
Seq C1 exon
CCTGCGACTGTCACCCGGTTGGTGCTGCTGGCAAGACCTGCAACCAGACCACAGGCCAGTGTCCCTGCAAGGATGGCGTCACTGGCCTCACCTGCAACCGCTGCGCGCCTGGCTTCCAGCAAAGCCGCTCCCCAGTGGCGCCCTGTGTTA
Seq A exon
GTGAGTGACCCTGCCCCGCCTCAGCCACCAAGCCAAGGCCACCCCAGCTCCCTGCTGTTGTCCCGTCTATTCCCCGAGCCCTGCAGATCTCTCTGCCCCTCCATCGCAGGCCATTCTCCCTCCCTCTCTGCAG
Seq C2 exon
AGACCCCTATCCCTGGACCCACTGAGGACAGCAGCCCTGTGCAGCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162068:ENST00000293973:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.611
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=94.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCGACTGTCACCCGG
R:
CTGCACAGGGCTGCTGTC
Band lengths:
194-327
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