RnoINT0122958 @ rn6
Intron Retention
Gene
ENSRNOG00000000777 | RT1-S3
Description
RT1 class Ib, locus S3 [Source:RGD Symbol;Acc:735037]
Coordinates
chr20:3178120-3178460:+
Coord C1 exon
chr20:3178120-3178254
Coord A exon
chr20:3178255-3178430
Coord C2 exon
chr20:3178431-3178460
Length
176 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CATGACTTTTCTTCTCACAGGTG
3' ss Score
10.99
Exon sequences
Seq C1 exon
AGCCTTCTCCATTCACCGACTCCAGCATGCCAGTGATTGTTGTCCTTGGAGCTGTGGCCATCATTGGAGCTGTGGCCATCATTGGAGCTGTGGCCATCATTGGAGCTGTTGTGAGGAGGAGGAAGAGAAACACAG
Seq A exon
GTAGGAAAGGGCAGGGTCTGAGTTTTCTCTCAGCCTCTTTGAAGTGTGCTGTGCTCATTAAGGGGAAACACAGCCACACCCTGCATTGCCTAGTCTCTAACCTGGATCTGCTGTCAGTTCTGGAAACTTCCTAGGGCTGGTGTTTCCCTGACTTCTCATGACTTTTCTTCTCACAG
Seq C2 exon
GTGAAAAAGGCAGCTATGCTCATGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000777:ENSRNOT00000001036:5
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]