RnoINT0078142 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56770139-56770440:-
Coord C1 exon
chr4:56770350-56770440
Coord A exon
chr4:56770222-56770349
Coord C2 exon
chr4:56770139-56770221
Length
128 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGC
5' ss Score
3.29
3' ss Seq
AGGAAATGTGTCTCCCCTAGGCT
3' ss Score
7.42
Exon sequences
Seq C1 exon
GAAGGTTCTATGCGCTGTCACAAGAAACCATGTCCTCCGGCTCTCTGCACACACCCTTCTCCAGGCCCCTGTTTCTGCCCTGTGTGTCGCA
Seq A exon
GTGAGCATGGTTTGCCACTACCTTCTGTGTGCTGGGCACCTGTGCTCTTCCCCTGTCTCCTTCTGCCAGGTCTGAGGTGGGGCAGGGTGGTACAGACTCCCTTCTCACAGGAAATGTGTCTCCCCTAG
Seq C2 exon
GCTGCCTCTTTCAGGGCCAGGAGCACCAAGACGGGGAGGAGTTCGAGGGACCTGAGGGCAGCTGTGAGCGCTGCCGCTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:25
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(49.1=90.3)
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
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:
AGGTTCTATGCGCTGTCACAA
R:
GCTCACAGCTGCCCTCAG
Band lengths:
158-286
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]