RnoINT0078132 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56776015-56776289:-
Coord C1 exon
chr4:56776183-56776289
Coord A exon
chr4:56776109-56776182
Coord C2 exon
chr4:56776015-56776108
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
AGCCTCTTCCCTGCTCCCAGGAT
3' ss Score
7.8
Exon sequences
Seq C1 exon
GTGCCTGCTGCCCCAGCTGTGAGAGCTGCACCTACCACGGCCTAGTGTATTCTAATGGGCAGAACTTCACAGATGTGGACAGCCCTTGTCAGACCTGCTACTGTGAG
Seq A exon
GTACGTTCCCAGGCTCACAGCTGCCCCGCAGAGCCCCTCCTGGGCCCTTCCCATAGCCTCTTCCCTGCTCCCAG
Seq C2 exon
GATGGGACTGTGAGGTGTTCGGTGATCAACTGTCCTTCCCTGACCTGTGCCAAGCCCCAGAATGGACCAGGCCAGTGCTGCCCCAAGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:16
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(10.5=16.7),PF0009313=VWC=PU(45.6=72.2)
A:
NA
C2:
PF0009313=VWC=PD(50.9=90.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGAGCTGCACCTACCA
R:
CACTGGCCTGGTCCATTCTG
Band lengths:
168-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]