RnoALTA0032578-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000029386 | RT1-N2
Description
RT1 class Ib, locus N2 [Source:RGD Symbol;Acc:1595850]
Coordinates
chr20:3150015-3150487:+
Coord C1 exon
chr20:3150015-3150112
Coord A exon
chr20:3150250-3150386
Coord C2 exon
chr20:3150387-3150487
Length
137 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCA
5' ss Score
6.43
3' ss Seq
CCTCCCCCACCGCCCTGTAGGAT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GAGATCGAGGGTCCCTCTTGGAATACTGAGAACTACAGAACTCATCTAGGATTCCGCTCTGGGACTTTAGGATTGCTTAGCTTGTCATTCTAAAAGAG
Seq A exon
GATCGCCTTCCTGCTGTGCCCCCTCCCCCACCGCCCTGTAGGATCCCCTGCCTGCTGTGCCCCCTCCCCCACCGCCCCTATGGGATCGCCTGCAACATCTACTGAAGAATGGAATCTTTCCTTTTATATCCCATCAG
Seq C2 exon
TTGGCCAATCTTCATTGTCAACTCGACTGGATTTAGAAGGACCTGGGAGACGCCCCTTTGGGTGGCTGTGAGGGTGTCTCTAGACAGGTTTAGCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029386-9-17,9-16,9-15-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTCTTGGAATACTGAGAACT
R:
TGTTGGCTAAACCTGTCTAGAGAC
Band lengths:
186-323
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]