RnoINT0037385 @ rn6
Intron Retention
Gene
ENSRNOG00000020500 | Clk2
Description
CDC-like kinase 2 [Source:RGD Symbol;Acc:1359711]
Coordinates
chr2:188482644-188485499:+
Coord C1 exon
chr2:188482644-188482760
Coord A exon
chr2:188482761-188485332
Coord C2 exon
chr2:188485333-188485499
Length
2572 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
CTCCCCCTATCTCTCCCCAGCCT
3' ss Score
9.84
Exon sequences
Seq C1 exon
GGGCGGAGCACGAGTTGCCCTGAAGATCATTAAGAATGTGGAGAAGTACAAGGAGGCCGCTCGACTAGAAATCAACGTGCTGGAGAAAATCAATGAGAAAGATCCTGACAACAAGAA
Seq A exon
GTAAGCCGAGGGGCTCTCTCCACAAGGAAGGCTTTACTGGGGCTATGCGGGCGGGCGGCGAGTACATCCAGTCTTGTCTGTCTGTCTTATTCTTAGGCATGCTTTTCTCTGTGTAGCCCTTGCTGGCCTAGAAACTGCTTGTAGAGCAGGCTGTCCTCGAACTCACAGAGATCCTCGTGCCACTGCCTCCTGAGAGCTGAGAGGAAAGGCATGTGCCACATCCAGCCCGTTAAACTTTGGATCATGAGAGTAGCAAAGCATTAAGATAGTCCTATGACAGTCTATCTACTCCTGTTTGTATTACGACGATATCAGCAATCTGAGAATGACCCTGGCATTGGTGGGCATCACTCTAGATGGTGCATGCCTGTCATTCCAGCCATTCAGAAGAAGAGGAAAGGCAGATTGGAAGGATTACAGCCTGGACAATGTAAATTTCCGTAAGACATTTTCTGACCACTGGAAATGGTTCTAGAGATTGTGACCCATGGATGGAGCACCAACCAACTCTCACAGGGTCCTAAGTTCAAACCCCAGTCAAATACACAGAGCCACAGTTCGTTCAGGAATGAAGCAGGAGAATCAGAAATTTGAGATGAGGGGAGAGATTGCTCAGCAGTTAGGAATGATAGGATAAGACCTGAGTTTAGTTCCCAGCATCCACATAGAAGTTCAAAATAGCTCTAGGAAAGCCTGGCACTGCTTGTGCTTGCCTTTAATCTCAGCACTCAAAGGCAGGGGTAGGCAGATCTCTGACTTTGAAGACAACCTGGTCTGCAGAGTAAGTTCCAGGACAGCCAGAGCTTTGCAGAGAAACCCTGTCTAGAAGTGGAAGAAAAAGAAAGAAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAACATCAGAAGGGGGAGGGGGGGAGTCTGGAGAGATGGCTCAGCAGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCCACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACACACACACACTAGTTTAAAGATTTATATATAAATAAATAAATCTTTAAAAAGCAAAACAAAAAAATAGCTCCAGAAGATCCAGCACCTCTGTCCTCTTCAGAAATGTGCAGTCACGTGCAATAACTAACTCACATAATTAAAAATAAAGTCTTTGAAAGAAATCATGGAATTGGTAGTAGTAGAACACTGGCCTGGAATGCACCAGAACTTGGTTCTAAGTGAAGAGGAGTACCAGGCTCTAGAACTGTGGGTGTTTCTACAGTTACAGTTTTGATCTCATGCTATTCATCTGCTAAAATTGTAAGATTGTGACGGCGAAGGTTGTTTGTTGGTTTTGAGGCAGTACCTCATTTAGCTAAGGCTAGCTTCTGCTCATTCTTGTAGCCAAAGGCAAGGATAACCTTGAACTCTTGCCTCCACCTACAATTATAGAAATTTACCTAGTTTTATGTGGTACCAGGTATTAAACTTTAGACAAATACTTTACCAACTGAGCCACATCCCTAGCCCAAATAAGATTTAACAAAACAGTGAAGTATAAACTTCGCCACAGTGGCTGATACTAAAGTTCAGGAGATGGGGCCGGAATGTAATGGCTCATGAATTTGAGACCAGGATGTGGCCAGGACATAGGAAGTTCCAGGTCAGACTGTGCTTGAGTGAAACCCAGACAACAAAAATAACTTTGGTAACTGAGAATCCATATTGTTTAGAATTTCATGCTATAACTCTTGAGCAAATAGTTGTTTTGGGATTTTTTTTTTTTTAATTTATTTGAGACAGGAACATATTACATAACCTAAACTGACTTCAAATTCATGGTGAACCTCCTGCTTCTAGTTTCCTGCGTGCCCTGATTGCAGATACCACCCTCCTCTGTCTGACAAGTGGAGTTTGTTTTCCTTGTTTTGAGGGCTGAGATAAGAACATGGCCTCTTACATGCCAGGGAGGTGCTGTATTCCTGAGTTACAACCCCTGTTATAGGGAGTAGGTTTGAACGATTCAGGATGTTACAAAAATATGTTGGGGAGAGTTTGGCAGGTTCATTGGTTCTTCCTTTTTGTCATTCTCTAGATTACCTGAATTTTGTTGACAATCTTAATTGTTTTTTGGGGGGTATTTTGTTTTTTTAAGTGCCAGGGTATCATGTAACCCAGGCTAACTTCTTCAGACTTACTGTGTAGTTGAAGATAATCTTAAACTTAGGATTCTTCTGCCTCCACCTCCCAAATGCTGAGATTAAGGTTCATGCCATCATAGTTGTTATGAGGAAAGCTGCAGATTGAACTTGGGCCTTCTGCATGCTAAGTAGGCACTCTACCAACTGAACTACATTCCTAACCTTAATTAGTCATATTAGCTAGCATGCTTTTATACAACTGTTGAATCAACAGCCGTTCTGTCTTTCCTTTTGGTGGGGTGACGGGATTTGGGAACTTATTAGACATCCAACTCCCCCTATCTCTCCCCAG
Seq C2 exon
CCTCTGTGTCCAGATGTTTGACTGGTTTGACTACCATGGCCACATGTGTATCTCCTTTGAGCTTCTGGGCCTTAGCACCTTCGATTTCCTCAAAGACAACAACTACCTGCCCTACCCCATCCACCAAGTGCGCCACATGGCCTTCCAGCTCTGCCAGGCCGTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020500:ENSRNOT00000027793:6
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=FE(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]