RnoINT0043718 @ rn6
Intron Retention
Gene
ENSRNOG00000000481 | Cuta
Description
cutA divalent cation tolerance homolog [Source:RGD Symbol;Acc:1303306]
Coordinates
chr20:5532487-5532675:-
Coord C1 exon
chr20:5532630-5532675
Coord A exon
chr20:5532537-5532629
Coord C2 exon
chr20:5532487-5532536
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TGTCTGTCTTTGCCCTTTAGATG
3' ss Score
10.52
Exon sequences
Seq C1 exon
CTATGAATGGAAAGGAAAGATCGAGGAAGATAGTGAGGTGCTGATG
Seq A exon
GTGAGAAAACTCCCCTCCTGCCCGGCTCCTTTGACAACTCTGGCTCTCTTTCACCTGACACCAGGTTGAACTGTGTCTGTCTTTGCCCTTTAG
Seq C2 exon
ATGATTAAAACACAAAGCTCCCTGGTCCCTGCTCTGACAGAGTTTGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000481:ENSRNOT00000000568:4
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(14.7=100),PF0079315=DAHP_synth_1=FE(19.7=100)
A:
NA
C2:
PF0309110=CutA1=FE(15.7=100),PF0079315=DAHP_synth_1=FE(21.1=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:
TATGAATGGAAAGGAAAGATCGAGGA
R:
CTCTGTCAGAGCAGGGACCAG
Band lengths:
87-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]