RnoINT0078127 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56777232-56777481:-
Coord C1 exon
chr4:56777402-56777481
Coord A exon
chr4:56777326-56777401
Coord C2 exon
chr4:56777232-56777325
Length
76 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TGACTGGGCCCTGTTGGCAGAAT
3' ss Score
5.12
Exon sequences
Seq C1 exon
GCTGTTTCCTAAATGGGCGGGAGCACAGCAGTGGGGAGCCCGTGGGCTCCCAGGACCCCTGCTCCAGCTGCCACTGTGCT
Seq A exon
GTGAGTATGGCTGTCTGGCAGGGAGGGCCTGGCTTCAGGACCTGCCTGCTTCCTGCTGACTGGGCCCTGTTGGCAG
Seq C2 exon
AATGGGAGTGTCCAGTGTGAGCCTCTGCCCTGCCCGCCTGCACCCTGCAGATATCCGGGCAGGATCCCCGGGCAATGCTGCCCTGTCTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:11
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(44.6=92.6)
A:
NA
C2:
PF0009313=VWC=PD(51.8=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:
TGTTTCCTAAATGGGCGGGAG
R:
ATCACAGACAGGGCAGCATTG
Band lengths:
171-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]