RnoINT0078131 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56776183-56776512:-
Coord C1 exon
chr4:56776360-56776512
Coord A exon
chr4:56776290-56776359
Coord C2 exon
chr4:56776183-56776289
Length
70 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GACCAGCCTGCCCCACCTAGGTG
3' ss Score
5.1
Exon sequences
Seq C1 exon
CCTGTGTGCTCAATGGTGAGGAGTTTGCTGAGGGGATCCAGTGGGAGCCAGATGACCAGCCCTGTACTACCTGTTCCTGCCAAGACGGAGTGCCTGTGTGCAGGGCTGCACTTTGCTCTCCAGTACCCTGCCAACATCCTACCCAGCCGCCCG
Seq A exon
GTGAGCGCCCAGCCAGATCCTGTCTTCTCTGGCTTTGACCAGCCCACCCTGACCAGCCTGCCCCACCTAG
Seq C2 exon
GTGCCTGCTGCCCCAGCTGTGAGAGCTGCACCTACCACGGCCTAGTGTATTCTAATGGGCAGAACTTCACAGATGTGGACAGCCCTTGTCAGACCTGCTACTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:15
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=PU(87.7=96.2)
A:
NA
C2:
PF0009313=VWC=PD(10.5=16.7),PF0009313=VWC=PU(45.6=72.2)
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:
GTTTGCTGAGGGGATCCAGTG
R:
TACACTAGGCCGTGGTAGGTG
Band lengths:
180-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]