RnoINT0078159 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56781539-56781825:-
Coord C1 exon
chr4:56781729-56781825
Coord A exon
chr4:56781622-56781728
Coord C2 exon
chr4:56781539-56781621
Length
107 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
ACCCCCTGTCATCCTTCCAGGCT
3' ss Score
9.94
Exon sequences
Seq C1 exon
GCAGGAGCTGTGCAGTGCCAGGGGCCTTCCTGCTCTGAGCTCAACTGTCTGGAGAGCTTCACCCCGCCTGGAGAATGCTGCCCCATCTGCCGGCCAG
Seq A exon
GTGACCTCCTGTTCTTTCCCCCTTATCTCCTCAGCCTCAGTGGGGCCACATCTACCTGAGGGGATGCATTCCCTGTGCTCTCTCGTGACCCCCTGTCATCCTTCCAG
Seq C2 exon
GCTGTGAGTACGAGGGGCAGCTTCACCAGGAAGGGACCAGCTTCCTGTCCACTTCCAACCCATGCCTCCAGTGTTCTTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(52.7=87.9)
A:
NA
C2:
PF0009313=VWC=PU(45.6=92.9)
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:
CAGGAGCTGTGCAGTGCC
R:
AGGCAAGAACACTGGAGGCAT
Band lengths:
178-285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]