RnoINT0043715 @ rn6
Intron Retention
Gene
ENSRNOG00000000481 | Cuta
Description
cutA divalent cation tolerance homolog [Source:RGD Symbol;Acc:1303306]
Coordinates
chr20:5532963-5533448:-
Coord C1 exon
chr20:5533387-5533448
Coord A exon
chr20:5533172-5533386
Coord C2 exon
chr20:5532963-5533171
Length
215 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GCCCCCCTCCCCTGCTCCAGGCC
3' ss Score
9.2
Exon sequences
Seq C1 exon
TCTCTACCAGCGCGGGCTGCATGAACTGGGGGCGGGCGCTCGGCGTCCTACTCGGCGGAGGG
Seq A exon
GTGAGTCTGGTCCCGCCCCTTCCGGTCTCGAAGTCTGGCCGAGCTTCATCCGCCGAACCGAGGAGCTGTCCCAAGTTTTAAGTTTCAGGGACATTTTTCTTCCTAGTGCAGAAAAGGCAGGGCAGAGGCCTGGTGTCTGCCCCAAAAGGCAGCCCGGGTGCGGTTTCCTGGTGCAGTTGTGGGGACACTGAATCCGCCCCCCTCCCCTGCTCCAG
Seq C2 exon
GCCACGCTGCTCCTGTCGTTTCTTTGCATGCCTGCCCTACTGCCGGTGGCTTCCCGCCTTCTATTGCTACCCCGAGCTCTGCTGTCCATGGCTTCTGGAAGCCCTCCGTCCCAGCCGTCGCCGGCCTCGGGCTCCGGCTACGTTCCAGGATCAGTCTCTGCAGCCTTTGTCACTTGTCCGAACGAAAAAGTCGCCAAGGAGATTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000481:ENSRNOT00000000568:1
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=0.177
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0309110=CutA1=PU(17.6=25.7),PF0079315=DAHP_synth_1=PU(11.8=12.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
CTGCATGAACTGGGGGCG
R:
GCAATCTCCTTGGCGACTTTT
Band lengths:
252-467
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]