RnoINT0078130 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56776360-56776802:-
Coord C1 exon
chr4:56776721-56776802
Coord A exon
chr4:56776513-56776720
Coord C2 exon
chr4:56776360-56776512
Length
208 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GACAGATCTCCTTGCTGCAGCCT
3' ss Score
4.65
Exon sequences
Seq C1 exon
GCTGGTGAAGTATCCTGTGAGGAACAGGACTGCCCGGTCACCCCCTGTGTCCACACTGCCTCCGGCCCCCAGCTCTGCTCAG
Seq A exon
GTGTGTGTGTCTATGATGGGGAGCAGCTGCTAAGGGTACTCATTTCCATGGGGTGGGGTTCGGGGGAGAGCTCAACTCCAGAAAGGATGGTCTATTAGGCATTTCGGAGTTTGAGTAGAGGCTATGAAGCGGGGCGCCGGTGGGCTGGGAAGGACAAGGATGGATGAAGGTATTTAGGTTGCCATGGTGACAGATCTCCTTGCTGCAG
Seq C2 exon
CCTGTGTGCTCAATGGTGAGGAGTTTGCTGAGGGGATCCAGTGGGAGCCAGATGACCAGCCCTGTACTACCTGTTCCTGCCAAGACGGAGTGCCTGTGTGCAGGGCTGCACTTTGCTCTCCAGTACCCTGCCAACATCCTACCCAGCCGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:14
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(47.3=92.9)
A:
NA
C2:
PF0009313=VWC=PU(87.7=96.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGTGAAGTATCCTGTGAGG
R:
GCTGGGTAGGATGTTGGCAG
Band lengths:
229-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]