RnoINT0037380 @ rn6
Intron Retention
Gene
ENSRNOG00000020500 | Clk2
Description
CDC-like kinase 2 [Source:RGD Symbol;Acc:1359711]
Coordinates
chr2:188487574-188488808:+
Coord C1 exon
chr2:188487574-188487664
Coord A exon
chr2:188487665-188488282
Coord C2 exon
chr2:188488283-188488808
Length
618 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TTCTTCCTGCCCTCCACCAGCGG
3' ss Score
7.43
Exon sequences
Seq C1 exon
AAAACAGAAATATTTTTATCGGGGTCGCCTGGATTGGGATGAGAACACCTCAGCTGGGCGCTACGTCCGTGAGAACTGCAAACCACTACGG
Seq A exon
GTGAGCCTGGCCAGGGAGAAATACTGTCCACGATCTAAAGGTTGTTCTTTCTTAGGGTGGTTTGCCCCTGGAATGCATTTTGTAAGTGGAGGTTAGGGCAGGAGGGGGAGAAACATTGAAAGAAGACAGTTTGATCAACAGCGGACAGCAGAGAGGATTCACAGAGCCGAGGTTAGGTAGTGTCACATAGAGACAGCCAGATGAAGCAATGGCCTGGTTTCTTAAGGACAGAAAAAAATAAACTACCTTTGAAAAGCTTAAATTTTAATGTGGAGCTAAGGAAGATTCATGAGGTTGAAAAGTCTATACAAGTAAAATTTAGAAAAAGAAGGAATAATTGTGGAAAGGTAGGTTGAGCTGTAATATCAGAAATGGCCATAATGTTGCGATAAAGTAGCTTTCAAATTGCATGCAAACGGAGCTTTAAAGGAAGCTGAGACTTGTATGGTGGCACAGGCCTGAAATCCCAGCACTTGGGAATCTGAGGTGGGTGTTCCAAGTCAGCTGCAGTGCATAGTTCCAGAACAGCTGGGCTGCACAGCGAGACCCTGTCTTGAGAAGGAAATAAAGATAACTTTGTAAGGCGTCCTGCCTTACCTTCTTCCTGCCCTCCACCAG
Seq C2 exon
CGGTATCTGACCTCAGAGGCAGAGGACCACCACCAGCTCTTCGATCTGATTGAAAACATGCTTGAGTATGAACCTGCTAAGCGGCTGACCTTAGGTGAAGCCCTTCAGCACCCTTTCTTCGCCTGCCTTCGGACTGAGCCACCCAACACCAAGTTGTGGGACTCCAGTCGGGATATCAGTCGGTGACAATCAGGCTTTGGGCCCCCTGCTCCCTGTGTAGCAGTGGGTGTCCAGTCCAGGACACTGGTGCTTTTTTATATAAGAGAACAGAGCCAGAACTCGCCCCCTCTCCAGCCCCTGGCTCCTTTATACCTGTGAATATGTGAAATAGTGTAAATATGACAGAACTTGTACCTATCGATTCAACCCCTGCCATGTATATACTACTACTTACACTCTTCAACCTCATCTGCCCCTCATGTGGAGTCGGATGGGGGGCAGAATGACGTAACCAGGTGGTGTCTACCCCATGTTTTATAAGGGATTTTGTACAGTCTTTGTGAAATAAAATGACATGCTTCATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020500:ENSRNOT00000027793:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.3=100)
A:
NA
C2:
PF0006920=Pkinase=PD(12.3=62.9)
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:
CGCCTGGATTGGGATGAGAAC
R:
GCGAGTTCTGGCTCTGTTCTC
Band lengths:
349-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]