RnoINT0000365 @ rn6
Intron Retention
Gene
ENSRNOG00000019280 | AABR07002093.1
Description
NA
Coordinates
chr1:66212117-66212418:-
Coord C1 exon
chr1:66212316-66212418
Coord A exon
chr1:66212213-66212315
Coord C2 exon
chr1:66212117-66212212
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
CTACAAGTTTTCTTTTCAAGGGA
3' ss Score
5.77
Exon sequences
Seq C1 exon
ATGCACAAGGTTTGGAGTTCTGTGTTTTTATTTTGGTTTTTATTGGAAGGCCTACTTCATGTCTGCTTCCCTTACACTGTTGAGAAAACAACAGACTCATCAG
Seq A exon
GTAGCTTCAGCAATGGCCTTATTTCAGGGGGGATAAAAGTCTTTTTTCCAGGGAAATAAAAAGAAGTTAATTACATTTCACTGCTACAAGTTTTCTTTTCAAG
Seq C2 exon
GGAGTAGACAGTTAGAAACATCTGAAACTTCTTCTATGGGACAATCCAGAGGCTTCCTTTCAATACTTCGACCAACACAAGTAAAAATCCCAGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019280:ENSRNOT00000026074:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.288
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
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:
TGCACAAGGTTTGGAGTTCTGT
R:
GCTGGGATTTTTACTTGTGTTGGT
Band lengths:
196-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]