RnoALTA0032578-1/3 @ 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
NA
Coord C2 exon
chr20:3150387-3150487
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCA
5' ss Score
6.43
3' ss Seq
TTCCTTTTATATCCCATCAGTTG
3' ss Score
7.08
Exon sequences
Seq C1 exon
GAGATCGAGGGTCCCTCTTGGAATACTGAGAACTACAGAACTCATCTAGGATTCCGCTCTGGGACTTTAGGATTGCTTAGCTTGTCATTCTAAAAGAG
Seq A exon
NA
Seq C2 exon
TTGGCCAATCTTCATTGTCAACTCGACTGGATTTAGAAGGACCTGGGAGACGCCCCTTTGGGTGGCTGTGAGGGTGTCTCTAGACAGGTTTAGCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029386-9-17,9-16,9-15-1/3
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
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:
TCCCTCTTGGAATACTGAGAACT
R:
CTAGAGACACCCTCACAGCCA
Band lengths:
170-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]