HsaINT0116404 @ hg19
Intron Retention
Gene
ENSG00000142233 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:25208]
Coordinates
chr19:49166720-49167071:-
Coord C1 exon
chr19:49167018-49167071
Coord A exon
chr19:49166801-49167017
Coord C2 exon
chr19:49166720-49166800
Length
217 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GACAGCCTGACCCTCCCCAGACC
3' ss Score
5.7
Exon sequences
Seq C1 exon
GAATTCCAGAGGCAACAACCACCCTTGCCACTACTCCTGGTGCTTATAGCTCTG
Seq A exon
GTAAGACAGTCTGGCACGGAGGTCCCTGAGTGGCAAGTGGGAATGAGGATGGGCTGACTGGGTCCCCAGATGGGGATACATGGGTCACCCATTGAGCCCAGTCCCAAAGGTTTGGGTACCCCAGCTGGCCATCAAGATGGAACGGAGGGATGGGCAGGGGCAGAAGGCTGTGGTCTAGGCCCCAGGAGCCCACTGCAGACAGCCTGACCCTCCCCAG
Seq C2 exon
ACCCTCAGTGTCAAAACTACTGCAATATGTCGGACACCAGGGTACACATGAGCCTTCGGAGGTACTGCCAGCAGGACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000142233-NTN5:NM_145807:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0175916=NTR=PU(23.5=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCAGAGGCAACAACCACC
R:
CATGGTCCTGCTGGCAGTAC
Band lengths:
133-350
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)