RnoINT0102192 @ rn6
Intron Retention
Gene
ENSRNOG00000006611 | Nostrin
Description
nitric oxide synthase trafficking [Source:RGD Symbol;Acc:727920]
Coordinates
chr3:55428619-55430384:+
Coord C1 exon
chr3:55428619-55428733
Coord A exon
chr3:55428734-55430294
Coord C2 exon
chr3:55430295-55430384
Length
1561 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
AATTTATTCCAAAACTCTAGGCT
3' ss Score
5.03
Exon sequences
Seq C1 exon
GAGCACTCTCATTCTTACGTGAAAATATCCCGGCCTCTTTTGACGAAGAGATTAGAGAAAGCTGAGAGCAAGGCCCCCGCGGGTGAGCAGAACAACCCGAGCTCTTCACGTCCAG
Seq A exon
GTAACCCAGTGCCCCAAATAATTATGAACTACATCCTATGGTTAAATCACATCTCTATATTTAAATATGATTTCCAAACTACATTTACCTGTAGTTGTAAAAAAAAATTTTACCTCATGGTTGAGAGTAATGAATTTGTTAAGCATCTGAATTTTTATTTCCAAATGTAGAAAAATAAAAGTAGGAAGGAATCACAGAGTGCAGGCTGGGAAACTCATTTGATAACATGAGAAGTTATGAATGCAAAGGTACACATATATACATGCGTACATACATACATACATACATACATACATACATACATACATACATACATATGTTGTTGAACCCACATAACTCTATTCAAATTGTCCCAGCAATGGTGGCGGTGCTCCTCATTACCCACCCCAATGTTCTGGGATCTCCAGGGAAAGACACATACTCGCAGCCTTATATTTTAATAAGTGTTAAACAGCTCAATGGCTGGGCCGCTTCCAAACCTCCATGTGGCTAACACTCTCCCCTCGGATAGTCCTGAATTATTACTAAGACCTATATTCTATCTGGGCTGCCCCAGACCCAGACCTGAAGCTCCCTCCAGCTGAGTTCCCCAGCACCTGCAAGACAGCTATGTCCTCTGTCCGGCACCTCTCAGGCGTGGCCTCTATTCCTTTCCTGGCATGTCAGCTATCTCCCTTCCTGCTCCTTCCTCAGTCCCTTGCCTGGGAATCCTAAACCCCCACCTCTCTCCCCCTGTCCAGTCACTGGCCACCAGCAACCTTATTTACCAATCAAAACCAACTGGCTGTAGGGTCCCTCGGTGTCTTACGTGCGGATGTGCAGTTTCTTCATATAATTTTGGGCACCAAATTAACATAATACTTGCAGCATTAGATCAAATCCACAACATACATACATACATACATACATACATACATACATACATACATACATACATACATACACACACACACACACACAGGTCATTGTCCCTCAACTATATACCTTTATCTCATATCTCCTGGGTTGTTATTGTTTTTTTTTTTATTTTTTTATAAGAAATGAACCAGAAAGATTTGTAGTAAAACCTAAGGCACTGAGGTCCACATAATCTATTCAAAAGAGACTGGTGAATTTTTTGAGAAACAGTTCCCTAAGCAACAAGGGATGCTGATAGCATACACTCCAAATACCCCCTAGCTCTACCTGAATGGCAAATCTGGTGTGTTTTAAAAAGAAAAATGTGTCTACTAGACATATTACCTAATGATATAGACTGTGTTCGTGTAGAGAGCAAACAATTTTAAACTACCATAGTTGTTATCAGTACAAGAGGAAGTTTTTCTCCAGAATTTTATTTTCCGTTTTACAATCTGGGTTTGGGGTATATAATATGCATAATTTATATCCATGTTGGGTATATTATAGGAATTTATTGAATCAATGAATAGATATTATATAAAATTATAAAGTTCTTGGGAAAATTTAAACTAGGCACCATACTGTTAAGCGAAGAATCCCGACTGTGTTCATTTTGCCCACGAAGTCACCATGGTGACTATAATTTATTCCAAAACTCTAG
Seq C2 exon
GCTCTAGTGTGTCCCAAGGCAACAACCAACTTTGCAAAGCCTTATACACCTTCCAAGCCAGGCAAGATGATGAGTTAAACTTGGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006611:ENSRNOT00000067161:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.564 A=NA C2=0.258
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146041=SH3_9=PU(34.7=54.8)
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:
GAGCACTCTCATTCTTACGTGA
R:
TCCAAGTTTAACTCATCATCTTGCCT
Band lengths:
200-1761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]