HsaINT0116400 @ hg19
Intron Retention
Gene
ENSG00000142233 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:25208]
Coordinates
chr19:49173613-49176264:-
Coord C1 exon
chr19:49176189-49176264
Coord A exon
chr19:49174264-49176188
Coord C2 exon
chr19:49173613-49174263
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-NTN5:NM_145807:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]
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)