RnoINT0078145 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56768378-56768891:-
Coord C1 exon
chr4:56768718-56768891
Coord A exon
chr4:56768461-56768717
Coord C2 exon
chr4:56768378-56768460
Length
257 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTA
5' ss Score
3.1
3' ss Seq
TGTTCTTGTCTTACCTCAAGGCT
3' ss Score
6.64
Exon sequences
Seq C1 exon
GCTGCCGCGTTCGTGGGGAGGAGCATCCTGAAGGTAGTAGCTGGGTGCCGGCGGACAGCCCCTGTTCTTCCTGCATGTGTCACAAGGGCATTGTCACTTGTGCCCAAGTCCAGTGTGTCAGCGCCTGCATCTGGCCCCAGCAGGGGCCCAGTGACTGCTGCCCTTCATGCTCTG
Seq A exon
GTACTAGGAACCTGGGGTCTGGGAGGTGGGGTGGGGGGTGGTGGGTGAGGAGCCCTGGGTGGGGGATGAGCAGCCACACCTTCCTGCCTTTTTGCTGAGCTGGGTGGCAGGGGTGGATGTGAGGGGGCTCCAGGAGAAGTGGCCTTCAGCCTTGTACACTCCTCAGTCCCAGAGTAGGGAGCAGGAGCTGGAGGGGGGAGGAACCCCCCTCCCAGCATTGCTGAGGGCTCTTTGTTCTGTTCTTGTCTTACCTCAAG
Seq C2 exon
GCTGTGAGCATGAGGGCAGAAAGTACGAACCCGGGGAGAGCTTCCAACCTGGGGACGACCCATGTGAAGTGTGCATCTGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:28
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=WD(100=94.9)
A:
NA
C2:
PF0009313=VWC=PU(39.4=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:
CGCGTTCGTGGGGAGGAG
R:
CTCGCAGATGCACACTTCACA
Band lengths:
252-509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]