RnoINT0037407 @ rn6
Intron Retention
Gene
ENSRNOG00000003714 | Clk4
Description
CDC-like kinase 4 [Source:RGD Symbol;Acc:1310274]
Coordinates
chr10:36728737-36729104:+
Coord C1 exon
chr10:36728737-36728853
Coord A exon
chr10:36728854-36728937
Coord C2 exon
chr10:36728938-36729104
Length
84 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
ATTATTTTGATCTCTTTTAGCCG
3' ss Score
7.45
Exon sequences
Seq C1 exon
GGATGGCTTACATGTGGCAGTGAAAATTGTAAAAAATGTAGGCCGTTACCGGGAGGCAGCTCGCTCTGAAATCCAAGTGCTGGAGCACTTGAACAGCACTGACCCCAATAGTGTCTT
Seq A exon
GTAAGTACACACTGAACCACAAGCTATCATTCTGTGTGAGCTGCTCACTTCTGTGCACTCAACTATTATTTTGATCTCTTTTAG
Seq C2 exon
CCGATGTGTCCAGATGCTAGAATGGTTTGATCATCATGGTCATGTTTGTATTGTGTTTGAGCTGCTGGGCCTTAGTACCTATGATTTTATTAAAGAAAACAGCTTTCTGCCATTTCAAATTGATCACATCAGGCAAATGGCTTATCAGATCTGCCAATCTATAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003714:ENSRNOT00000005048:5
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:
PF0006920=Pkinase=PU(13.2=97.5)
A:
NA
C2:
PF0006920=Pkinase=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCACTTGAACAGCACTG
R:
AGCCATTTGCCTGATGTGATCA
Band lengths:
179-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]