RnoALTA0020304-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56780171-56781347:-
Coord C1 exon
chr4:56781254-56781347
Coord A exon
chr4:56780260-56780278
Coord C2 exon
chr4:56780171-56780259
Length
19 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCCAAGATAATCCCCGTTAGGCC
3' ss Score
-0.27
Exon sequences
Seq C1 exon
AGGAGCCTGGTTCGGTGTGTGCCTGTGAAGTGCCAGCCAAGCCCCTGCCCCAACCCAGTCCTGAGACCTGGACACTGCTGCCCAGTCTGCCAAG
Seq A exon
GCCTGCTCTCTATCCCTAG
Seq C2 exon
CCTCCGGCTGCACAGAAGGTCACTCTCACAGGGACCATGGCCAAGAGTGGACCACTCCTGGAGACCCCTGCCGCATCTGCCAGTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855-11-10,11-9-2/2
Average complexity
Alt3
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=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(50.9=90.6)
A:
NA
C2:
PF0009313=VWC=PU(45.6=86.7)
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:
GTTCGGTGTGTGCCTGTGAAG
R:
GAGAGTGACCTTCTGTGCAGC
Band lengths:
112-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]