RnoINT0037370 @ rn6
Intron Retention
Gene
ENSRNOG00000025768 | Clk1
Description
CDC-like kinase 1 [Source:RGD Symbol;Acc:1311469]
Coordinates
chr9:65304294-65305479:-
Coord C1 exon
chr9:65305254-65305479
Coord A exon
chr9:65304385-65305253
Coord C2 exon
chr9:65304294-65304384
Length
869 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGA
5' ss Score
5.41
3' ss Seq
CGCCCACTTGACGTTTCCAGAAG
3' ss Score
6.57
Exon sequences
Seq C1 exon
CTATTATCTGGAAAGTAGATCCATACATGAGAAAGCCTATCACAGCCGACGCTATGTTGATGAATACAGGAATGACTACATGACCTACGAGCCAGGGTATCCCTATGGAGAACCTGGAAGCAGATACCAGAATCATAGTAGCAAGTCCTCTGGTAGGAGTGGAAGAAGCAGTTACAAAAGCAAACATAGGAGTCACCACCACACGTCACATCGTCGTTCACATGGG
Seq A exon
GTATGAGCACCTTTTAAACATTGAAGTTTTCATTTCCCATGGAGAACAGGAAGCAGTTTTGTGTGTGTTTGAGATAAAAGTCATCACAACTCTACCCTGCAGGAGTATTGTTCTTTTAGTATTTGTGCATTGCATAAGAAATTCATGAAAACTGCATATTTAGTTCTGAAATGATAGGAAAGATTTTCTCAATGTTATTTCAAGATAATGTTATTTTGATAAGTTGTCAGTTTATTCCAAAGAATTAGGTATTTTTTGTTAGTCTTAGTTATTTATGACTTATTAACATGTTGAGTAAGTCTTTTCTCATTAAGATACAGATTTGAAATTAGTGTCATGTATTAATTTGGAAACCTATCAGATAACATTTTAAATGCTATAGTGTTATATACAAAATTTTTTTTCCTTCCCAAATTAGGACTATTGTTTTATCTACTGTTTTAATATTTATTTTCTTGATTAGTTAGGCCAAATCTTAATTTGGCCACAAGGTAGTAAGGTAAATACTGCATCCTACAGTTTTGTAGTATTAATTTAGGACACTGTGTTTGAGTGATTGCCACAGATGAGCTTTTTGTTTTTTAAGAAGAAAAGCAAATGTGTTTATGTTTTGTTGCCTTACCACTTGAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTCCTGTTAACATAAACTATGTGCCCTGTGAATTTCTGGGGACTGAATTTGAAATTGCTCCTGCCAACCGTTTGTGGCCTGGCGTGTATCTGAATGCCTGAATATCTCCCCGCTGAATGAATTTCGTATTCTGCCCTGAATTCACTCGGGTATATTGATTGGCTGGATCTTGGTGCTGGTGCCGCCCACTTGACGTTTCCAG
Seq C2 exon
AAGAGTCACCGAAGGAAAAGATCGAGGAGTGTAGAGGATGATGAGGAGGGTCACCTGATCTGTCAGAGTGGAGACGTACTAAGTGCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025768:ENSRNOT00000030934:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.711 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF105774=UPF0560=FE(42.9=100)
A:
NA
C2:
PF105774=UPF0560=FE(17.1=100),PF0006920=Pkinase=PU(0.1=0.0)
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:
TCTGGAAAGTAGATCCATACATGAGA
R:
TCTTGCACTTAGTACGTCTCCAC
Band lengths:
310-1179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]