RnoEX0046681 @ rn6
Exon Skipping
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10018012-10019218:+
Coord C1 exon
chr9:10018012-10018083
Coord A exon
chr9:10018803-10018860
Coord C2 exon
chr9:10019044-10019218
Length
58 bp
Sequences
Splice sites
3' ss Seq
GCCCCTCTTCTTCTCTGCAGATA
3' ss Score
12.18
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
TCATTGGCAGAGGTGGTGAGCAGATAAACAAAATCCAGCAGGACTCAGGCTGCAAAGTTCAGATCTCACCAG
Seq A exon
ATAGTGGCGGCCTCCCTGAGCGCAGTGTGTCCCTGACTGGAGCACCAGAGTCTGTCCA
Seq C2 exon
AAAGGCAAAGATGATGCTGGATGACATTGTGTCTCGGGGCCGTGGAGGCCCCCCAGGACAGTTCCATGACAACGCCAACGGGGGTCAGAATGGCACAGTGCAGGAGATCATGATCCCTGCTGGCAAGGCTGGCCTGGTCATTGGCAAGGGTGGAGAGACCATCAAGCAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628-'6-7,'6-5,7-7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.800 A=0.950 C2=0.593
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(38.1=100)
A:
PF0001324=KH_1=FE(30.2=100)
C2:
PF0001324=KH_1=PD(9.5=10.2),PF0001324=KH_1=PU(38.5=42.4)
Main Skipping Isoform:
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:
CAGGACTCAGGCTGCAAAGTT
R:
ATCTCCTGCACTGTGCCATTC
Band lengths:
142-200
Functional annotations
There are 1 annotated functions for this event
PMID: 19770516
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, mutation analysis. ELM ID: ELMI002009; ELM sequence: VQISPD; Overlap: PARTIAL_LEFT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]