HsaINT0036430 @ hg19
Intron Retention
Gene
ENSG00000013441 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:2068]
Coordinates
chr2:201726425-201729467:-
Coord C1 exon
chr2:201729287-201729467
Coord A exon
chr2:201726586-201729286
Coord C2 exon
chr2:201726425-201726585
Length
2701 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
AAAACTTGCCTTTTATGTAGATG
3' ss Score
5.38
Exon sequences
Seq C1 exon
GTGCATGACCCGCCCCGCGGCGGAGACGCGCTCGCTGCGTCATCAGTGTTTTCGAGACGAGTCTCGACGCAGCAGCTGTCAGCTCCATTTTGTTGTTGGTGCGCGACGCAGTCAGCTGCGTGATTCCCGTGATTGCGTTACAAGCTTTGTCTCCTTCGACTTGGAGTCTTTGTCCAGGACG
Seq A exon
GTAAGACGCAGGAGGGAGCGGACTAGGTGACAGGGCCGTTCCTGTGAGCCTCGCGGGCGCCTGGCGATGCCCCCTTTTCCTGCTTGTTTGCTGCCCGCCGTCCCCGGCGCGACGACTGCCTGCTCCCTTCACTCCCAGGCTGCACAGTGGCGGCGCGCCCCTCTTTCCTGCGCGGCCGAGCCTGTCGCCGCCGGATCCGGCCTGCGGGGGTAGTTACGGTGTTTGCTAGGCCGGCCGCCCTCTTGGAGCTTCTGCCCTCCGCTGAGGAAGCGGCGCCGCCTGACGCGGGACGGTCGGGCGGGCGCCATGTTGTGAACCGCCTCGGCGGAGCTGTAAGATGGCGGCTGGGCGGAGGCCGGCTTCGGCCCTGTGGCCGGAAAGGCGAGGCTCCCCGTTGAGGGGGGATTTGCTGGGGTTCCAGAATGTGCGTGAGCCAAGCAGCTGTGGGGAAACGTTGTCTGGAGTAAGTGGAGAAAGAGACGGAACCCGTAGGGGTTACAGTTAATGTCTAATGATGAAAGTGTCGGCGTAAACATCGCGAGTGGCTTTGTCCTCAGTGGTGTTAACAAAAACCAGATTTAGGAACCCAAGGAAAGAGAAATGCTGGGGTGTATTTGAAGGAGCGTTGTGACAGAAGTCAGGTGACCGAGAATTTTATGCGATGGCGTTTCAGCCACTCCTCTTGGGTTAGCAGTTGGAGCTTTTTTCTTTTCTTGGAGTCTCGCTCTGTCGCCCAGGCTAGAGTGTAGTGGCGCGATCTCGAGTCACTGCAGCCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCGGGATAGCTGGGATTACAGGCGCCCGCCACGACGCCGGGCTAATGTTTGTATTTTTAGTAGAGACAGAGTTTCACCATATTAAGCTGGCCTCAAACTGTTGACCTCAGGTGATCCATCCGCTTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCGCCCAGCCTCCTTTTTTTCTTTTTTGAGACAAGGTCTCGCCCCTGTCGCCCCGGCCGGAGTGCAAGTGGCGCAATGACGGCTCACTGCAGCTTCGACATCTGGGCTCAGGTGATCTTCCCACCTCAGCCTCCTGAGTAGTTGGGACTACAGGCGCGCGCCACCACTCCTGGTTAATTTTTTATTTTTTATAGAGGCGGGGTCTCTCTATATTACCCTGGCTGGTCTCGAATTCCTGGGCTCAAGCAGCCCTCCTGCTTCGGCCTCCCAAAGTGCTGGGGTTACAGGCATAAGCCACGGCCCCCGACCCAATTGGAGGGCTTTAAAAATTATACTCAGGCTGGTCCAATGGTAGTGGGTTATCAGAACTTAATAGTTATTAGTGTCACGAAAATTAGTATACAACCCCTACCGCTAAATTTGACTGGCGTTAAAAAAAAAAGAATTGTAGCGGAAGACACAGAGGGGTCCCGCCGGTAAGAAAGAACGGCAGTTGATGAAGTAATTTCTGTATAATGTCTTTTTCAAGTTGTTAGGTTAGAGATTTTCGATTTTGCTCGAAGCATTTCTGAAAAGAAGGTGGCTCCTACCATTCCCAAAAAGATTGTGTTAACATTGCGTTTAGGATAAATTATGTTGTATGTGCTTGGGAGTGGTACTGGAAAGATGGTGTTTTGTTGTTTTTATATTCTGATGCCACCGTTGCCTTCGTGTGTGATTAAAGTCCTTGGTAGTTTCATTTGTCCGTTTACGGAAATGCTCTGTAATGATGATTCTGTCAGCAACTCAGATATAACTCTGATTACGTTTGCAGTAATCAGTAATGCGGTGTTGGTGAGGAACATTTATGATTGCATTTGAGTTGGAGACTAGTTTCTGGTACACGTTTAAACGGGGAGAATGACGTGTGTTTCACGTGTCTGTGAAGAGACCACTAAAGGCAGGCTTTGTGTGAGCAACATGGCTGTTTATTTCACCTGGGTGCAGGCGGGCTGAGTCAGAAAAAGGAGTCGGCAAAGGGTGGTGGGATTATCATTAGTTCTTATAGGTTTTGGGATAGGCGGTGGAGTTAAGAGCAATGTTTTGGGAGCAGGGGGCGGATCTCACAAAGTACATTCTCAAGGGCGGGGAGAATTACAAAGAACCTTCTTAAGGGTGGGGGAGATTATAAAGAACCTTCCTAAGGGTGGGGGAGATTACAAAGTATATTGATCAGTTAGGTTGGGGCAGAAATAAATCACAATGGTGGAATGTCATCAGTTAAGGCTATTTTTACTTTTTTTGTGGATCTTCAGTTGCTTCAGGCCATCTGGATGTATACGTGCAGGTCACTGGGGATATGATGGCTTAGCTTGGGCTCAGAGGCCTGACAGCGTGGACTTCTATAGTGCTATATTTGTACTACTGGGAGGGCAGGGGTAAAATGTACCAAAATTAGTAAATTGTGATTCCTCCCTCTACTTTTTTCACTTTTTTTTTTTTTTGCATTCTTCCAATAAATCTGGGCATGATATGGCTAATGCAGAGTGCCTGTGAATGAAGTTCAAACTGCAGAATATGGGACAACACAGTAATTGGATTTATCAGTGATTTCAGATTGGGTGATAATGATTCTTGAATTTTGGTCTTAAAACGAGGTCACGAGGGGACCTTTGTAATTACGAATTTTAAACAGCTCAGTGTGGGGTACAATTTAACTAGGAAAAACTTGCCTTTTATGTAG
Seq C2 exon
ATGAGACACTCAAAGAGAACTTACTGTCCTGATTGGGATGACAAGGATTGGGATTATGGAAAATGGAGGAGCAGCAGCAGTCATAAAAGAAGGAAGAGATCACATAGCAGTGCCCAGGAGAACAAGCGCTGCAAATACAATCACTCTAAAATGTGTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013441-CLK1:NM_004071:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.441
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF105774=UPF0560=PU(25.1=83.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)