RnoINT0043717 @ rn6
Intron Retention
Gene
ENSRNOG00000000481 | Cuta
Description
cutA divalent cation tolerance homolog [Source:RGD Symbol;Acc:1303306]
Coordinates
chr20:5532630-5532843:-
Coord C1 exon
chr20:5532784-5532843
Coord A exon
chr20:5532676-5532783
Coord C2 exon
chr20:5532630-5532675
Length
108 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TCTTTCTCTGACCTCCTCAGCTA
3' ss Score
7.62
Exon sequences
Seq C1 exon
GGCAGTGGTAGAGAAGCGCCTGGCAGCCTGCGTCAACCTCATCCCGCAGATCACATCCAT
Seq A exon
GTGAGTTGTCAGTTAGAAACTTAATCTAACTTGAGGGGGCTAAGAGCTTTTTCTGGGAGAAATTTTCCTTTTCCAAGACTTGTTTCCTTCTTTCTCTGACCTCCTCAG
Seq C2 exon
CTATGAATGGAAAGGAAAGATCGAGGAAGATAGTGAGGTGCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000481:ENSRNOT00000000568:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309110=CutA1=FE(19.6=100),PF0079315=DAHP_synth_1=FE(26.3=100)
A:
NA
C2:
PF0309110=CutA1=FE(14.7=100),PF0079315=DAHP_synth_1=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGTGGTAGAGAAGCGC
R:
CATCAGCACCTCACTATCTTCCT
Band lengths:
106-214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]