RnoINT0103701 @ rn6
Intron Retention
Gene
ENSRNOG00000006970 | Ntn3
Description
netrin 3 [Source:RGD Symbol;Acc:619811]
Coordinates
chr10:13578484-13578725:-
Coord C1 exon
chr10:13578675-13578725
Coord A exon
chr10:13578559-13578674
Coord C2 exon
chr10:13578484-13578558
Length
116 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TCTCCACTCTTTCCCCCTAGACT
3' ss Score
11.77
Exon sequences
Seq C1 exon
AGACTCCTGTCCCTGGACCCACTGAAGAAAGCAGTCCTGTGGAGCCACAGG
Seq A exon
GTGAGTGGACAGCAGAACCCAGACTGGTATGACCTTGGAGGAGAGGGCTATAGCTAAAGCAGACCAGTGTGGGCGAGAGGCATGGAAATCTGCTAGTCTCCACTCTTTCCCCCTAG
Seq C2 exon
ACTGTGAGTCACATTGCAGACCTGCGCGTGGCAGTTACCGAATCAGCCTGAAGAAGTTCTGCCGAAAGGACTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006970:ENSRNOT00000009735:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0175916=NTR=PU(7.0=30.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCCTGTCCCTGGACCC
R:
AGTCCTTTCGGCAGAACTTCT
Band lengths:
122-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]