RnoALTA0032555-1/2 @ 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
NA
Coord C2 exon
chr20:4674979-4675011
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CACAGCTTTTCTTCTCACAGGTG
3' ss Score
9.69
Exon sequences
Seq C1 exon
AGTCTCCTCCATCCACTGACTCCAACATGGAAACCAATGTCATTTATGTTGTTGTTGGAGCCATCTCTGCTGTGGCCATCATTGCAGCTGTGATCATTGGAGCTCTGGTGTGTGTTGTGAGGAAGAGATGGATAAAAACAG
Seq A exon
NA
Seq C2 exon
GTGGAAAAGGAGGAGACTACGCCCCTGCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050183-26-28,26-27-1/2
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 Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]