HsaINT0116403 @ hg19
Intron Retention
Gene
ENSG00000142233 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:25208]
Coordinates
chr19:49167018-49167549:-
Coord C1 exon
chr19:49167400-49167549
Coord A exon
chr19:49167072-49167399
Coord C2 exon
chr19:49167018-49167071
Length
328 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
TTTCTCCTTTGGTCTCACAGGAA
3' ss Score
11.17
Exon sequences
Seq C1 exon
CCTGCCAGTGCCACCCTATTGGGGCAACAGGAGGAACCTGCAACCAGACCAGTGGGCAGTGCACCTGCAAGTTAGGGGTCACAGGCCTGACCTGCAACCGCTGTGGCCCTGGCTACCAGCAGAGCCGCTCCCCCAGGATGCCCTGCCAGC
Seq A exon
GTAAGTCTTGAGGGGCCAGGCCACAAGCCTGAGTAGAGCGGGAAGGAGACATCCCAGGTCTCCAGTGCACAGCTGCAGTGAGGGCTGGGGCCTTGGGAATTGGGAGCCCAAGGCTGGAGGCTGGACTCTGGGCCCTCGGATAAGCAGGGACTGAAATTCTGGACTCTTGAGGAAAAGGAGGCTTGGGGCCTGAAGGCAAGGGATGCTTGCACTCTTGAGTCCTAAAGGAATAAACACTTAAGAGTTTGGGTGCCTGGATTCCCGGGGCAGGGGCGAGGGGATCCTGGGGGAAATGACTAAGAGGTTAATTTCTCCTTTGGTCTCACAG
Seq C2 exon
GAATTCCAGAGGCAACAACCACCCTTGCCACTACTCCTGGTGCTTATAGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000142233-NTN5:NM_145807:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=96.1)
A:
NA
C2:
NO
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:
CTGCCAGTGCCACCCTATTG
R:
CTATAAGCACCAGGAGTAGTGGC
Band lengths:
198-526
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)