RnoINT0037405 @ rn6
Intron Retention
Gene
ENSRNOG00000003714 | Clk4
Description
CDC-like kinase 4 [Source:RGD Symbol;Acc:1310274]
Coordinates
chr10:36725383-36727196:+
Coord C1 exon
chr10:36725383-36725605
Coord A exon
chr10:36725606-36727129
Coord C2 exon
chr10:36727130-36727196
Length
1524 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGA
5' ss Score
7.72
3' ss Seq
CTTTCTCTCCCTCACTTTAGATG
3' ss Score
11.65
Exon sequences
Seq C1 exon
TCACTATTTAGAAGCAAGATGCTTGAATGAGAGAGATTATCGGGATCGGAGATACATTGATGAATACAGAAATGACTACTGTGAAGGATATGTTCCAAGACATTACCATAGAGACATTGAAAGCACTTACCGGATCCATTGCAGTAAATCCTCAGTCAGAAGCAGGAGAAGCAGCCCTAAAAGAAAACGTAACAGACACTGTGCGAGTCATCAGTCACATTCG
Seq A exon
GTATGAGTGATTTGTTTTTATTTGAATGGATTGATCGTAAAGCTCTAAAAGAGTGATAAGTTTCTAAAAGTTGCTTAATGCAATTTGGATATGCTGTAATTATATTCATGTTACTTGAATCCTTAAAGGAAATGTACACGTTCTCATAATTGACCACCTGTGTATTATTTAGTCTTCATTTTGCCCACACACTCATTCTGCAAAACAGATCATGAGTTTGTTGGTTTTAATAGTAAGAACATCTTATTTTGTGGTTGTATAGTGTATTAAAAAATGAGGCACCCATTTTTTCTTCTATGAACGTAAAGTTTTTTTTTATTTTGAAAGAAACTGCTTTACTGGTAGTTGGAAACAACTCAGGCAAGTCACGCTGCTGGGGTGTTTAGCTGTTGCTGACTCCTGTGTAGTCTAGCTCCTAGCACAGTAAATCATTGTCTGCATTAATTTGCTGAAGCTGTGAGCCTGGGTGCTGAGCGGAAAATGTACTGAGAAAGTCTTTCATTTGTAAACTTTGAGATACCATTTCCCTCCCCCAAGTCTTCTCAATAGACCTAGCAGTTAGTAGATGGAAGATTGAAATTGGTCTTTACTTCCCCCTCTTACTATGATGTCCACTTTTAAATGTTGCTAAAAGAGAACAAATTCAGCTAATGTGGACATTTTCCTGACTGACTGAACAACTCAGCTCACAGCATATGGTTATAGCAGAATTAGTAACTCGTGACATTGCATTCTGTAGACTGCAGACTTCAATTAATCAGTATTTTAAAGAGACAATTGTGTTGTTTTTTTCTATTGCCACTTTAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTTCTGTAACATAAACTGTGCCCTGTGAATTTCTGGGGACTGAATTTGAAATTGCTCCTGCCAACTGTTCGTGGCCTGGTGCTTATCTGAATGCCTGAATATCTCCCCGCTGAATGAATTGCGTATTCTGCCCTGAATTCACTCTGATATATTGATTGGCTGGACGATCTTGGTGCTGCCCACTTGCCGTTCCAGAAGAGCCACCGAAGGAAAAGATCCAGGAGTATAGAGGATGATGAGGAGGGTCACCTGATCTGTCAAAGTGGAGACGTTCTAAGAGCAAGATGTATAGAATATTTTTCAACACTTTTTAAACTTTGCAGACAGAATAATCTTTTAAAGAATAGTTTGTCAGCGGGGGGCTAAAGACTCTTCATTGCTTTTTTGTTTTGTTTTTTGTGGGTTTGTTTGTTCTTTTGTATTTCTTCTTTTCTGTAGAATTTAAATATTTCTATTCTTAAAATTCCAAGATAATCAGTGGAGTTTGAGATTAGAGCAAGACAGATAGCTCTATCTAATTGCTTTGTAGCAACTGAAAATGCCATAACTTGAGCGATGAAACCTTAGTTATGCTTTGCTAAAGATCATTTGGAAATATGCCACACTTAAGCATTCATTGTATGAACAGCTGGGTACTTGTGCTAAAGTACTTAGATCTCTCTTTCTCTCCCTCACTTTAG
Seq C2 exon
ATGAAATCGTGGACACTTTAGGTGAAGGGGCCTTTGGCAAAGTTGTAGAGTGCATTGATCATGGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003714:ENSRNOT00000005048:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGATGCTTGAATGAGAGAGA
R:
TGCCATGATCAATGCACTCTACA
Band lengths:
276-1800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]