RnoALTA0032555-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000050183 | RT1-CE1
Description
RT1 class I, locus1 [Source:RGD Symbol;Acc:1595869]
Coordinates
chr20:4674979-4675328:-
Coord C1 exon
chr20:4675188-4675328
Coord A exon
chr20:4675012-4675026
Coord C2 exon
chr20:4674979-4675011
Length
15 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CCTTCCTTGAACTCTCACAGCTT
3' ss Score
6.5
Exon sequences
Seq C1 exon
AGTCTCCTCCATCCACTGACTCCAACATGGAAACCAATGTCATTTATGTTGTTGTTGGAGCCATCTCTGCTGTGGCCATCATTGCAGCTGTGATCATTGGAGCTCTGGTGTGTGTTGTGAGGAAGAGATGGATAAAAACAG
Seq A exon
CTTTTCTTCTCACAG
Seq C2 exon
GTGGAAAAGGAGGAGACTACGCCCCTGCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050183-26-28,26-27-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGTTGTTGGAGCCATCTCTGC
R:
GGGGCGTAGTCTCCTCCTTTT
Band lengths:
117-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]