HsaINT0116402 @ hg19
Intron Retention
Gene
ENSG00000142233 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:25208]
Coordinates
chr19:49167400-49168024:-
Coord C1 exon
chr19:49167836-49168024
Coord A exon
chr19:49167550-49167835
Coord C2 exon
chr19:49167400-49167549
Length
286 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CAGCTCCTCTGCTCATGTAGCCT
3' ss Score
4.31
Exon sequences
Seq C1 exon
CCTGCTCCTGCAACCAGCACGCCCGACGCTGCCGGTTCAACTCTGAGCTGTTCAGACTGTCGGGCGGCCGGAGTGGGGGTGTTTGTGAGCGGTGCCGCCACCACACAGCTGGGCGGCACTGCCACTACTGCCAACCTGGGTTCTGGAGGGACCCTAGCCAGCCTATCTTCAGCCGCAGGGCCTGCAGAG
Seq A exon
GTGAGTGTGGCCTGCAGACAGGCCTGGGGGGAGCAGAGGTAGGGCTGGACTCCTGGGGCTGAGGGAGGAGGGGCTGGGGGCCTGGATTCCTGGATCTGAGGGAGGAGGGGCTGGGGGCCTGGACTCTGGGCCTGAGGGAGGAGGGGCTGGGGGCCTGGACTCCTGGGTCTGAGGGAAGAGGGGCTGGGGGCCTGGACTCCCCAGGCTGAGGGAGGAGGCACTGTGGAATTGGGAGGGGCATCTGGGGCCCTGATACCCCATGCCCCCAGCTCCTCTGCTCATGTAG
Seq C2 exon
CCTGCCAGTGCCACCCTATTGGGGCAACAGGAGGAACCTGCAACCAGACCAGTGGGCAGTGCACCTGCAAGTTAGGGGTCACAGGCCTGACCTGCAACCGCTGTGGCCCTGGCTACCAGCAGAGCCGCTCCCCCAGGATGCCCTGCCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000142233-NTN5:NM_145807:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.088
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=96.1)
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:
CTGCCGGTTCAACTCTGAGC
R:
GGAGCGGCTCTGCTGGTAG
Band lengths:
292-578
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
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)