RnoALTD0000396-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3856069-3857890:+
Coord C1 exon
chr18:3856069-3856167
Coord A exon
chr18:3856168-3856171
Coord C2 exon
chr18:3857807-3857890
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTATTA
5' ss Score
4.71
3' ss Seq
TCCCTGCTTCCCTTTATCAGGGG
3' ss Score
10.08
Exon sequences
Seq C1 exon
GTGTCCTCCTATGGCGGCTACCTCACCTACCAAGCCAAGTCCTTTGGCTTACCTGGAGACATGGTTCTTCTGGAAAAGCAGCCGGACGTGCAGCTCATT
Seq A exon
GTAG
Seq C2 exon
GGGCAACACATGTCCATCATCCATGCGGAGCCCAGCGACCCACGGCCAGACAGGCCACATCACGGAAGAGTGCAAGTGGTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300-49-44,50-44-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.964
Domain overlap (PFAM):
C1:
PF0005213=Laminin_B=FE(23.5=100)
A:
NA
C2:
PF0005213=Laminin_B=FE(19.9=100)
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:
ACCTCACCTACCAAGCCAAGT
R:
CCGCATGGATGATGGACATGT
Band lengths:
108-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]