HsaINT1025429 @ hg38
Intron Retention
Gene
ENSG00000142233 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:HGNC:25208]
Coordinates
chr19:48670356-48673007:-
Coord C1 exon
chr19:48672932-48673007
Coord A exon
chr19:48671007-48672931
Coord C2 exon
chr19:48670356-48671006
Length
1925 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
GCCACCTCTCTTCCCTCCAGGTG
3' ss Score
12.5
Exon sequences
Seq C1 exon
GAGAGCCCACCGCGCCACAGCTTGGAGGAAGAGCCTGCGGGGAACTGGCTGCAGGACGCTCTCTTCTTGAGTGCAG
Seq A exon
GTTTGGCCAATGTCGGGGCCTCAGGGCTCGGGTTGGGGGGTGCATGCCAAGAGCCAGGGAAAGGAAGCCTGGGTCCCAGATGGACCCCAGGCCGCCCAGGCAGGCCTCCTATGAGTCTGCTGGGAGCATGGCTGGACTCTTTCTTAAAGAGGGGTATGGGCTCTCTGTGGGCCACGACTGGTTTCTGGATCCCCCAGGAACACTAGGGAACTCACAGCCTGGTTCCTCAAGGTGCTAAGGGCCAGAGGGTGCCACCCCCTGAACTATCCAGCAACTATCCAGAGAGAAAGGGGACATGGGGGACTGGCCCTTAACAGGATGCTGCTGAGGGCCAGGCAGGCGGCTGCCACCTGAGTGGGTGCAAAATGGCGCCAGGCTCCTTGGGAGGGCGGAGGGCGAGGCCTGTCATCTGGGCCAGGGGAGGCAGCGTCTGCATGTGGCCAACAGCAGTGGGGACATGGGCAGTGAGGCCAGGCTGGGGCAGGTGTGGCCCACCTCAACCGCCAGGGTGCCCCAGAGATGCCCAGCCCAGGGACATTCCTGGGCGCAGATTCAGAGCCAAGGGCCTGGAAAGGCTCCGAGGCCCCCAGTCCACAGTGAGCTCCTCACCAGAGGCTGCTGGCCCTGGAAGGGGAAAGTGGGGGCATTTCAGAGTCCAGTCCTTCCCAGCTCCTGCCATTCCTAGGGTCTGGGCTTCTGCCCCCACGGGCGCCCTGGCATCTGGCACCCCACCCTGTCCCAGCTCCTGCCTTCCTGCCTCTCTCCTCCTCATTACCCACCGCCCCCAACATCTGTTCCCCCATCTGCTCTGGGGAACTCTGGATGGGTGGAGAATGTGGGGACTCTGGTCTCCAGGCCCTGAGGCCCAGAATAGAGGGCAGGGTTGAGGTGAGCAGAAAGTCCCAGAACGCTAACTTCCGGTCCCCACACCCTGAGTTCTGAAGGGAACCCAGGTGTCTGCTTCCCCTGACCCCATGGGGATCCCACTGTCCCGCTCCCAAGCCCCAGAGCCACCCAGGTTCCAGCTCCCAGCATCCCTTTCCTCAGCTCAGCTCTCTGGGCTTTGCACTCGGGTGGGAAAGGGTTAAGGGTGGGGCGCTGGGGGTGGGTGGGCGGGTGGCAGGGAGGCTGGGTTGTTTGGTGATAATCCCCTTCCGTGCCCAGGGTGTGGAGAACAAGGTTAGGGCCCCATGTGGGAAAGGCAATGGCTCTGATCCCTGCAGGCCTGGGCCTCGGTCTCTCACTTCTGATCCCCCGCCAGACACCCCTAGCCTGTCCCCTTCCCTCCCCTCCCCAGGGCCTGCCAGGCTGGGTGTCTCTGAGCCCACCTGCCCACCTATCCCAGCCCCCAGGCAGTCCGAGCCTCAGTCTCCCAGCTCCCTGTGGCCTCTGGGTGCCTGGCCTCTGTCTCAGCCTCTCAGCCTCCTGTCTGTTCCTCTGTCTTTGCAGCAACTTCTCTGTGCCGAGCGCCTCCCCTAGGCTGACTGTCCTCTCTCTGCCTCTGTCCTGTCCTCTATTTCTTTGTGACTGAGTCTTCATCTGTCCCTAAGCCCCCTCTCCTGCCCAGCCCTGCTTGTCTCTGTGTCCCTCTCTAGGTTTCCACGTCTGCTGGCCTTGGCCAGCCCCTCTGCTCCAGCCGCTCACCGCTCCCCAGGGCCCCCTGCCCCTCGACACTGACGGATAACTCTGGGGTGTTAAGCTACGGATTAGTTCAGGCAAAATTCTCGATTTTGTCTGCGTTCTTTCCCCTTTGGGTTATGTAAACAGTAATTCTCCCCAGATGGAACTATTTTCCTCGCTTCCATGCAGCCGGGGAGGGGGCCTGGACGGGTTGGGGGTGGAATGCCCCAGTTCCACAGGACACCTCCAGGAGGGGTAGAGGCTGCGGCTGAGATCCCCAGCCCAGCCACCTCTCTTCCCTCCAG
Seq C2 exon
GTGCTGGCTCTGCTGTGACCATGCCCGTGACCTTTGCCCTCCTGCTCCTCCTGGGCCAGGCCACTGCGGACCCATGCTACGATCCACAGGGCCGCCCCCAATTCTGCCTCCCGCCAGTGACACAGCTGGCTGCCGTGGCGGCCTCCTGCCCTCAGGCCTGTGCCCTGTCCCCAGGAAACCACCTTGGCGCCAGGGAAACCTGCAATGGCAGCCTGACTTTGGCCCTGGGTGGCCCCTTCCTCCTGACATCTGTCAGCTTGCGCTTCTGTACCCCAGGACCCCCAGCCCTCATCCTGTCTGCTGCCTGGGCCTCAGGGGGTCCCTGGAGGCTGCTGTGGCACAGGCCCGCCTGGCCTGGGGCCTTAGGGGGCCCTGAAAGGGTGACCTTCCACTCCACACCAGGTCCTAAGGCCACTGTGGCGGCCAGCCACCTCCGTGTGGAGTTTGGGGGCCAGGCCGGGCTAGCGGCAGCTGGGCTGAGAGGCCGCTGCCAGTGTCATGGCCACGCTGCCCGCTGTGCCGCCCGTGCCCGGCCCCCCCGCTGCCACTGCCGCCACCATACCACTGGCCCGGGGTGCGAGAGCTGCCGCCCGTCCCATCGAGACTGGCCCTGGCGGCCTGCCACGCCCCGGCACCCCCACCCTTGCCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000142233:ENST00000270235:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.090
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=25.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAGCCTGCGGGGAACT
R:
CAGGCAGCAGACAGGATGAG
Band lengths:
356-2281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains