RnoINT0103714 @ rn6
Intron Retention
Gene
ENSRNOG00000021016 | Ntn5
Description
netrin 5 [Source:RGD Symbol;Acc:1565197]
Coordinates
chr1:101669086-101671399:+
Coord C1 exon
chr1:101669086-101669170
Coord A exon
chr1:101669171-101670754
Coord C2 exon
chr1:101670755-101671399
Length
1584 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
TCTGCCACCTCTGTCTACAGGTA
3' ss Score
10.78
Exon sequences
Seq C1 exon
TCATTCCTCCTGATTGCCTACCAAGTGCTGCGGCTACAGAAGAGGGTGGGGATGGCAGACTACAGGACACTCTTCTCGCCTTCAG
Seq A exon
GCAGGTTTGACCAATGGCTGGGCCCTAACAGCCAGGTAGGAGGTGCATGCCGACTCGGGGCAGGCAGGGGAGTCCCTTATGCCCCCACTGGCCCAGCAAGGCTATGAGCTACCGACTTTGGCTGGGCCTGCTGCTGAGATGTAGGAAGGCTGTAGGCCCAAATGGGCAGGGGCCAGTTCCCGCCGGCCCCCCAAGGGCACAGAGAACTTACAGCCTGGTGCTTCACAGTGTTTAGAGCCGGAAGGTGGGACCTTGAAATTACCTAAGCAAGAAATGTGTTTACAGGAATGGCTGGGGCTGGGGCTGGGGCTGGAGGTGGGGGGTTCGTTAATGCTACGTTATGGGTGCATAATGGCTCCAGACTCCTGGGGGCAGGGACCGGGGTCCATGAATTGGGCGAGACAGGCACCCTGTATGGGAAATGTGAGTGGAGCACAGGGCTGTGAGATTCAGAGCTAAGGGCACATGCAGGGGGCTCAGGAGGTCCCAAAATCCCAGTGCTATGAAGGGGAAGTTGAGAACCTTAGTCCTGTGGCTTCTAACACTCCCTAGGCTCTGGATTTCTGGTTTCTAAGTGTTTTGGCATTGGGCACACACCTTATGTCACCTCCTGCTTTCTTTCTTTCCTCTCATATTATCTATACCCCAGCATCAGCTCCCCCATCTGCTCCGGGGGCCTATAGGGATTTGGATCTAGGTCTGAGATTTGGGGTGGCAAGTGGGGCCACCTCCCAGCAAGTCCCAGAAATGCAAGTGCAGGGTCCCAACACCCTGAGCGGGAAAGGCAGGCCAGGCTCTGCCTTCCCAGTACCTGAGGGGTCTGCTCTTCAACTCCAAGGCATTGTTCGTTTCCAGCTCCCTCACCACGACCTTCCCTCAGCTCTGTTTTCTGGCTATACGCCTGGAGGGGAAAGGGTTAAGGATGGAGGGTTGGGGTAGGTGGCAGAGAGTCCACACTTTTGGCAATAATCCCCCTCCGTGCCCCGGGTGTGGAGAACAGGGTTAGAGCCCCATGTGGGAAAGGTTTCCACTCTGACCCACGTGGGCAAAGGCTGTTGCTTCCTGTCTAGTCCTTGGGTGTCATGAGTGTCTCTGAGCCTACCTGCTCTTCCCTCCAAGCCCCTGAAGCTCCTAGCTTCATGCCATCCATCCCAGACATCCTCCACCCTCCCTAGCCCTCTGGCTCCCCCCCCCCCACCTCCGTTGGTCTCTGTTCCTCTTCTGTTTCTTCCCTCGGCCAGGCTCCTCGATCTCCTCCTTGACTTGCTCTCCTAGGCTTTCACATCTGTTGGCCCTGCTGGCTCCTCATCTACCCTCACCCTCTCCCTGGGGCCTCTACCCCTCGACACTGATGGATAACTTTGGGGTGTTAAGCTCTGGATTAGTTCAGGCAAAATTCTCGATTTTGCCTGCGTTCTTTCCCTGTGGGTTATGTAAACAGTAATTCTCCCCAGATGGAACTATTTTCCTCGCTTCAGGGCAGCTGGGGAGGGGGCTCAGGAAGGACTGGGAGGAATGCAGGGTCCACAAGGATCCTCAGCAGGGTGGAGACCGACTGATCCCATCTGCCACCTCTGTCTACAG
Seq C2 exon
GTACCGGCTCTGCTGTGACCGTGCTCGTTGCCCTCAGCCTCTTGCTCCTCCTTAGCCAGGCCACCTCAGACCCATGTTATGACCCAGGAGGGCGTCCTCGCTTTTGCCTCCCACCAGTGACCCAGTTGGTTGGCAAGGCAGCAGCCCCCTGCTCTCAGACCTGTGCTCTTCCTGCAGACAGCCCTGACCCTGTCTGCAATGGCACTCTGACCCTGGACCTGGACGGCTCCTTCCTCTTGACGTCTGTCACCCTGCGTTTCTGCACCGCAGGACCTCCAGCCCTGGTTCTTTCTGCTGCCTGGGCCATTGGAGGCCCCTGGAGGCCACTATGGCGCAGGCCTGCCTGGCCTGGGGTTTTGGGGGGTCCCAAGAAGGTAACCTTTCACTCCCCACCAGGCCCCAAGACCAGGATAGTGGCCAGCTACCTCCGTGTGGAGCTCGGGGGGAAAGCAGGGCTGGTGACCACTGGAGTAAGAGGCCGCTGCCAGTGCCATGGCCACGCTGCCCGCTGTGCCGCTCGGGCCCAGCCCCCACGCTGCCGCTGCCGCCACCACACCACTGGCCCAGGGTGTGAGAGCTGTCGCCCATCCCATCGAGACTGGCCCTGGAGACCTGCCACACCCCAGCACCCTCACCCGTGCTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021016:ENSRNOT00000028524:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.060
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=24.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACAGAAGAGGGTGGGGAT
R:
CAGCAGAAAGAACCAGGGCTG
Band lengths:
350-1934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]