RnoINT0103698 @ rn6
Intron Retention
Gene
ENSRNOG00000006970 | Ntn3
Description
netrin 3 [Source:RGD Symbol;Acc:619811]
Coordinates
chr10:13579092-13580821:-
Coord C1 exon
chr10:13579352-13580821
Coord A exon
chr10:13579281-13579351
Coord C2 exon
chr10:13579092-13579280
Length
71 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TGACTGTTCCTTCCCTGCAGCTT
3' ss Score
12.18
Exon sequences
Seq C1 exon
TGTCTGAATCTGCTTCTGATTCTGGCTGTCGGGACAAGGCCCCCTCCCCTCCTTCCTTCCCGGCCCGAGCAGCTCCGCCCCTGGCTAGGACCAGGCTTGCTCCTGCTGAGCCCCCCACCCCCTTCTGGCACAGCTCCTCTGCTCTTGCTGCAGCCAGAAGAAGGCGGCAGCCCCGGCGCCCCAGGCCCCGCCCGCCCAGGGCCCTTCCCGGGAGGCCGGGAGACCTGCTCCTCCTGGCCCTCCGTGGGTGAGTGCTGGCGGCCGGCGGCGGGTGGGGCCTCCGCGGGCGGAGGCACCGGGAGCGGGGGCGACTCCTGTCAACGCTCCAGGCCTAGCAGGAGGACTCGCCAACATCCCTGCTCCTGTGCTCGGCCCCAGGCGTGCGGGTGGCTGCTCCCACTTCTGGCCTGTGCTGGGGCGGTCCTGGGGCTCTGCTATCTTGGCACTGAAGACCCGGCACGCAGAGTATCGGACTAGGCTCTCTCCTCGAGGGCAGAATCGTTGGGCGGAAGCTGGCTGGTTGACTCACAGCGGCCACGGCCATGCCCACCTGGCCCTGGGGGCTGCTGCTGACCGCGGGCACGCTCTCCGCTGCACTGAGCCCAGGGCTGCCGGCCTCTGCCGACCCCTGCTATGATGAGGCGAGGGAGCCTCGCTGTTGTACTCCTGGCCTAGTGAACGCTGCTCTGGGCCGAGAGGTGCTGGCGTCCAGCACGTGCGGGAGGCCGGCCAATCACGTCTGCGATCCCTCGGACCCGCAGCGGGCACATTCTGCAGACCTCCTGACCTCAGCTCCGGGCACTGCAAGTCCTCTCTGTTGGCGCTCCGATGTGCTGCAACGGGCACCTTTCAACGTAACCCTCACGGTGCCCCTGGGGAAGGCTTTTGAGCTAGTCTTCGTGAGCCTGCGCTTTTGCTCAGCTCCCCCAACCTCCGTGGCCCTGCTTAAGTCTCAGGACCATGGCCGCAGCTGGGTCCCCCTGGGTTTCTTCTCTTCCAGCTGTAGCCTGGACTATGGCCGTCTGCCTGCTCCTGCTGATGGCCCTGCTGGTCCAGGGCCAGAAGCCCTCTGTTTCCCAGCCCCCCAGGCTCAGCCTGATGGTGGAGGCCTTCTGGCCTTCAGTGTGCAGGATGGCAGCCCACAGGGCCTGGACCTGGACAACAGCCCCGTGCTCCAAGACTGGGTGACTGCCACAGATATTCGCATAGTACTCACAAGGCCTGCCATTCAGGGAGACACCAGGGACGGTGGGGTCACAGTCCCCTACTCCTACTCAGCCACTGAGCTTCAGGTGGGAGGTCGATGCAAGTGCAATGGGCATTCCTCACGGTGTCTGATGGACACCCATGGCCACCTGGTCTGCGACTGCCAGCATGGTACAGAGGGCCCTGATTGCAGCCGCTGCAAGCCCTTCTACTGCGACAGGCCATGGCAGCGGGCTACAGGGCAGGAAGCCCACGCTTGCCTTG
Seq A exon
GTGAGGCCTTGGAGGGTAGCCTGGGGACTTCCGGCCAGGCAGGGCTGCCCCTGACTGTTCCTTCCCTGCAG
Seq C2 exon
CTTGCTCCTGCAATGGCCACGCCCGAAGATGCCGCTTCAACATGGAGCTGTACCGACTGTCCGGCCGCCGCAGTGGTGGGGTGTGCCTCAATTGCCGGCACAATACTGCTGGTCGTCACTGCCACTACTGTCGGGAGGGCTTCTATCGTGACCCAGGCCGTGTCCTGAGTGACCGTCGTGCTTGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006970:ENSRNOT00000009735:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.106 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
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCCCTTCTACTGCGACAG
R:
TGACGACCAGCAGTATTGTGC
Band lengths:
183-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]