RnoINT0128816 @ rn6
Intron Retention
Gene
ENSRNOG00000014272 | Rpl35
Description
ribosomal protein L35 [Source:RGD Symbol;Acc:1303007]
Coordinates
chr3:23297352-23297774:-
Coord C1 exon
chr3:23297733-23297774
Coord A exon
chr3:23297489-23297732
Coord C2 exon
chr3:23297352-23297488
Length
244 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CAGAGACGCTTCTCATGCAGGCC
3' ss Score
3.89
Exon sequences
Seq C1 exon
CTCTCGAACCGGGCGGCCTCATCCGCGAACAGCGCAGCAATG
Seq A exon
GTGAGGCAAAGGGAATCCGGTGCCATCGGGCGCCGGGAACACGTGGGGACAGCGGCACGGGGTGCGGGGCGGGCGTGGGGGACTCAGGGAGCCGCAGGGCCTGCGAATCTGTATGATTGTGCCTGGTTCGGGCCGGCTCTGACCGCCTACCCTTGCTTGCGCCGCGGCCACGGTCCCTCCTTGGTCGGCCGCGAAGGAAGCGAGAGCTCCCGCTCAGTGACCCACAGAGACGCTTCTCATGCAG
Seq C2 exon
GCCAAGATTAAGGCTCGGGACCTGCGCGGCAAGAAGAAGGAGGAGCTGTTGAAACAACTGGATGATCTGAAGGTGGAACTGTCCCAGCTTCGCGTGGCCAAAGTGACAGGCGGCGCCGCGTCCAAGCTCTCCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014272:ENSRNOT00000019162:1
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=0.087
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0083118=Ribosomal_L29=PU(69.5=89.1)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTCATCCGCGAACAG
R:
ATCTTGGAGAGCTTGGACGCG
Band lengths:
165-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]