HsaINT0116386 @ hg38
Intron Retention
Gene
ENSG00000162068 | NTN3
Description
netrin 3 [Source:HGNC Symbol;Acc:HGNC:8030]
Coordinates
chr16:2471499-2472889:+
Coord C1 exon
chr16:2471499-2472629
Coord A exon
chr16:2472630-2472700
Coord C2 exon
chr16:2472701-2472889
Length
71 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
TGACCCATCCCTCCCTGCAGCTT
3' ss Score
10.19
Exon sequences
Seq C1 exon
GAGGACGCGCCAACATCCCCGCTGCTGTGCTGGGCCCGGGGCGTGCCCGCCGCTGCTCCCACCTCTGGGCCGGGCTGGGGCCGCCCGGGGGCCCTGTTCCTCGGCATTGCGGGCCTGGTGGGCAGAGCCGCGGAGAGGGCTTCTTTTCCCCAAGGGCAGCGTCTTGGGGCCCGGCCACTGGCTGACCCGCAGCGGCTCCGGCCATGCCTGGCTGGCCCTGGGGGCTGCTGCTGACGGCAGGCACGCTCTTCGCCGCCCTGAGTCCTGGGCCGCCGGCGCCCGCCGACCCCTGCCACGATGAGGGGGGTGCGCCCCGCGGCTGCGTGCCAGGACTGGTGAACGCCGCCCTGGGCCGCGAGGTGCTGGCTTCCAGCACGTGCGGGCGGCCGGCCACTCGGGCCTGCGACGCCTCCGACCCGCGACGGGCACACTCCCCCGCCCTCCTTACTTCCCCAGGGGGCACGGCCAGCCCTCTGTGCTGGCGCTCGGAGTCCCTGCCTCGGGCGCCCCTCAACGTGACTCTCACGGTGCCCCTGGGCAAGGCTTTTGAGCTGGTCTTCGTGAGCCTGCGCTTCTGCTCAGCTCCCCCAGCCTCCGTGGCCCTGCTCAAGTCTCAGGACCATGGCCGCAGCTGGGCCCCGCTGGGCTTCTTCTCCTCCCACTGTGACCTGGACTATGGCCGTCTGCCTGCCCCTGCCAATGGCCCAGCTGGCCCAGGGCCTGAGGCCCTGTGCTTCCCCGCACCCCTGGCCCAGCCTGATGGCAGCGGCCTTCTGGCCTTCAGCATGCAGGACAGCAGCCCCCCAGGCCTGGACCTGGACAGCAGCCCAGTGCTCCAAGACTGGGTGACCGCCACCGACGTCCGTGTAGTGCTCACAAGGCCTAGCACGGCAGGTGACCCCAGGGACATGGAGGCCGTCGTCCCTTACTCCTACGCAGCCACCGACCTCCAGGTGGGCGGGCGCTGCAAGTGCAATGGACATGCCTCACGGTGCCTGCTGGACACACAGGGCCACCTGATCTGCGACTGTCGGCATGGCACCGAGGGCCCTGACTGCGGCCGCTGCAAGCCCTTCTACTGCGACAGGCCATGGCAGCGGGCCACTGCCCGGGAATCCCACGCCTGCCTCG
Seq A exon
GTGAGGCCTTGGAGGGTGGCCTGGGGACCTTGGACACAACCAGCCTGCCCCTGACCCATCCCTCCCTGCAG
Seq C2 exon
CTTGCTCCTGCAACGGCCATGCCCGCCGCTGCCGCTTCAACATGGAGCTGTACCGACTGTCCGGCCGCCGCAGCGGGGGTGTCTGTCTCAACTGCCGGCACAACACCGCCGGCCGCCACTGCCACTACTGCCGGGAGGGCTTCTATCGAGACCCTGGCCGTGCCCTGAGTGACCGTCGGGCTTGCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162068:ENST00000293973:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005512=Laminin_N=WD(100=69.0),PF0005319=Laminin_EGF=WD(100=17.4)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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:
CACCTGATCTGCGACTGTCG
R:
ACAGTCGGTACAGCTCCATGT
Band lengths:
178-249
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