RnoINT0102189 @ rn6
Intron Retention
Gene
ENSRNOG00000006611 | Nostrin
Description
nitric oxide synthase trafficking [Source:RGD Symbol;Acc:727920]
Coordinates
chr3:55422968-55424471:+
Coord C1 exon
chr3:55422968-55423076
Coord A exon
chr3:55423077-55424382
Coord C2 exon
chr3:55424383-55424471
Length
1306 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GAATATGCTTTCATTTTCAGGCC
3' ss Score
9.76
Exon sequences
Seq C1 exon
GAAGAAGATCCAAAGAACCCAATGGACAAAGAGCGACGGAAGTCTTTAATAAAACCCAAACTGTGGAGACTGCAGAAAGACATTGAAAAGGCCTCAAGAGACAAAGAAG
Seq A exon
GTGGGTGATTTTCATGCCACAGAACCATGGCTGGCCATGCAGTGTGAGCAGAGCAGGCTGGCCTCACACGTGTGACCATCCTCCCGTCTTGCCTGTGCGGTGTCCGGCTTGTGTTAACATCCTTGGATGCTGGATGAAGGAAAGGATTAAGTCACACTCAGAAGCTTTACTTGGAGTTAGCATTTGTCTGCTTTTGTGGGTGGAGTTAGACAGGGATCCTCCAGAGAACTGCATTTTAAATCTAAGTTGTGTTCAATTAAAGGAAAATAAGTTAAAGTCATATGCAGGCAGGTGGGCTGGCTCAGTGAGTAAGGGCATTTGCCCTGAAAACCAGATAATGTAAAGCAGAACCCTGGAACCCAGGTAAAGGTGAAGTGGGGGTTAGGTGCTGGGGGGCACACCACCAAGGCATCCTGTGACCTCCACATATGCTCCGTGGCACATGTATTACACACACACACACACACACACACACACACACACACACACACACACCATTAATAAAATAAACCTTAAAGAGTCGTGTGTGGCGTCTGCCGTGAGTTGGAATGCAGACTGGGCTACATGGTGATTTGAAGCCTGGGTGAGACCCTATTTCAAAAAAATCAAAATCAAGAAAACAAAAAACGTATAAAAGGACATTTGTTGTCATTTTCGAGAACTATAGAAGTAGTTCACTGCTGTGCTTTAGAAATGCACAGTTTTATTGTTTCTCAAAGTGGCTGGGATGAGAGGCAATTTGGTGATCCTAACATGGTTTGGGGCTTTCATTTCTGTCCTTTTACTAAGTTTTGAAATGATTCGACATTTATTCATGTCAAATCGCATCCCGGGGATTCAGATGAGTTAGCATGTGAAATGATTCCAAAAGCAGGACAGACCACAAGACAGCCACACACCTGTGGTCCAGCGCTGTCCAGCATCTGAGTGTGGACCGCGGGATTTCATGTTGATGGAACTCGGATGGGAGAGGTAAAGAAAACGAGAAGAAGCTAGCACAATCGTGTAAATGTAAGGAACATTGAAACAGGCCAAAGGAAACTCAAAATCTTATCCAGAAAAGTCCAGCCAGATCCTGTAAGCACCAGCATTTCTCAAATTTCATCAGCTGAGGGTAACTGAACTGTATGTTATCCATTGGGTAAGGCCCTGTGACTCCTACATAGAGAGAATCCCCCTGACATTAAGGAAGTCCTATGGGGGTGTGTCACTTCAAGCCTTTGGGCTCTCTTGGATGGGGACTGTCCCCTGCTCTGACCTACTAGGACTGGGTGAAAGGTGACCTAGAATATGCTTTCATTTTCAG
Seq C2 exon
GCCTGGAACAGAAGCTTAAAGCACTTGCCAGCAGTGCCTCCTTTTCTGATGCTAAGAGCCAGAAAGATGCAGAGACGCTAATGGACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006611:ENSRNOT00000067161:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.300
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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:
GAAGAAGATCCAAAGAACCCAATGG
R:
CTCGTCCATTAGCGTCTCTGC
Band lengths:
198-1504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]