MmuINT0037434 @ mm9
Intron Retention
Gene
ENSMUSG00000020385 | Clk4
Description
CDC like kinase 4 [Source:MGI Symbol;Acc:MGI:1098551]
Coordinates
chr11:51076673-51080833:+
Coord C1 exon
chr11:51076673-51076771
Coord A exon
chr11:51076772-51080672
Coord C2 exon
chr11:51080673-51080833
Length
3901 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCCCTCTTCTCGTTAACAGATG
3' ss Score
10.92
Exon sequences
Seq C1 exon
CGCGGACGCCATTTTGTCGGTGTCTGTCGCAGCGGCTGGAGAGGAACGACGGCGGTTTGGCGACATTTCTCGGCCAAAAGGCCGCTTGCTTTTGCGGAG
Seq A exon
GTGAGGTGGGCAGTGTCGCGCGGAGCCAGGTGTCTGAGGAGAGAGTGGGCTTTGGGCGTCAGCACCGGGAGGATGCGTCCGCGGGGCTGGCGGGGTGCCTCTCGGCCGGCGGCGACAACACCCGAGCTGCCGCGGTTTCGCCGCTCGAGTCAAGGCCCGCAGGCCCCGGGTTCGCCCGACGGTGCGGTCCGGCAGCTTGGGCCTCGCTCACCTCTTGTCAAGGCCTCGGCCGTCCATCGCAGGAACCAGCGGGGAGACCCTTGGCGGGACGCATCCCCGGTACTAGTGCCGTCCAGAGTCGAAGTCACCCCGACCCCCTACTCACCCCTGTCTGTGGCCTCGGCCGTTTGCATAACCGGAGCCTTTTCCAAAGTCCGCTATTCGCTCTGTTGTTCAGCTCTAAGGGCCCTGGCCAGCTGCCCGGAAGAGGTAGGGCAGGCGCTGCGGCGAGCCAGGCAGCGGCTGGAGTTCACCTCCAGCTTCGAGGATCACACTTGGGAAGGAAGGTTCGTCCTTCATGCCAGGCGGTCACCCCACCCCAAGCCCCCCCTAGATCTGGGTCGCCCCGATTGCCCAGGCATTATGTAGGCCAGGCAGGACTCGAACTCAGGAGATTCTCCTGCCTCTGCCTCCTGAGTGATGGGATTAGAGAGCTGAGTGATGGAATTAGAGAGCGAACATTGCATTTACATTGTGACAGCTCTGTTGCTCAAGTAGCCAACCCTCTAAACCAGTGGACCGATTGTCACCTGGTCTAATGTTAAAGCTGCAGATATTTGGCCTAATTTTGAACACGCACCCGAGGGCCTCTTGTACCCCCACTTAAATGGGAGACTGAAACTTCTAAAACGTGGTGGAGAATAATATTTCTAGTATGAGCGTATACATATGGGTTCCATTGTATCTTTTATTGAAAGGATACAGAGGATTGTAGCATGATTTTTAAGTGTTAGAGATAGTGTAATATTTTGAGGTAGCTTTTCTTTCCTGTGTATGAAAGCTCTCATGAGCTCAGAAATCTTTTACTTTGCCTCCTAAGTAAATATTTCTTTGTTGGTTGTTTGAAACAAGGTCTCGCTGTGCAGACCAGGCTGTCCTTGAAGTCTCTCAGAACTCCACCTGCCTCTGCCTCTAGGGTGGCACGTGTCACCACACCTGCCTAAAAACAAAGTATTTCCGAACTCGGCCAGAGATCAGAGGAGGGATGGGGAATGTTAGTCGGGGCCTATTGGGACAAGGACCCACTGATAGGTGGGTTTGCATATTAGTCACTTGAGAAGTTGAGATTTGTCCTGTGAGAGGTAAACTGGCTGTAGCGATGTGAAGTGGAGGGGGAGGGGGTAACTTGAAGCAAGCAACCAAGACTTGTGAAACCCTAATGGCCAGTCACAAGGATGAGTCATCAGAAGCTGTACACTGGGCTGCTGTGTTTTGAGAGTGCTTAGCCTGTAGCCCGGTGGCTTGGGATTCAGAATTTAATTCCCTCCCCTCACCCCCTCTAAAGAGAAAAAAAAAAAGCCTTAATCAAACTAAAACCTTAAATACAATTTTGATAATAGGAGGAATATGTCAGCAGAACTCCAGTGGAAATAGGAAGATGAGTGTTTCTCTAAAGCTTGAGTTTGGGCTTTTGTCTCCAGCAAGTTTGCAGTGTTGTCTGTTTTACTTCACCATATTAAAATGACTATATCGAAAGGAATGCTTGGCTTACTAACTTTTTTTTTAACCAAGGTACCTATCAAGAATTTAGGATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTTTAATCCATGCTTTCTCATTTTTGACTGAGCAAGAGAAGCCACATTATCAGGAAGATGCCTGGCAGGCACAGAATTAGAAGAACGAATATGGTTTACTGAATATTTGGACAGGGGGTATGTAGGTCGGTGGTAGAGTCTCGCCTAGCAATTAGAAACCTCCTCTCCCCTCATTACGTCCTCAGTAATCAGGAAATAATAATAGTATCACACCCTGATGTTGTGATGCACACCCTTTCTGAGGAACACTTTGGAAGAGAACTGAAACTGCTTTCTTTGCAAGCCCGGTGTTTAATAGATTTGTTGGCTTATTTTTCAGCCATTTAGGCAAGCTCAAGGTGATCAACTAAATTGGTTTTGTTCCATTTGGGCCTTATTCAGCTTCTTTTTTCTTTTTTCCCTCCCAAACCATTAAACTCTGCTTAGCAGAGTTCAAAATTAAAGATTTAGCTATGGAACTGGAGACACTGCTCTTGTAATGGACCTTTAGGCTTTAGGGCATCCTATGCCCTCTTGTGGTATCCAGGGGCAACTGCACTCGTGTAGATCTTCCCCACCCTGCCCCACCCTACCCCATTCCCATTAAAAATAAATTTAATCTTTTTTTAAAAATTGACGTAGGGGAACAAAGTGGTTAAATGGGTAATGCTGCACACCTTTGATCTCTGAGACCCACATGATGAAAGGAGAGAATTAACACTGGTGTCCAACAGTCACAGATCTGTAAAAGGATAAATGTTAGATACTGAGCCTGGGAGAGATCCACAGGAGCTTGGAGATGAAGTTTGGGAATTGTTACCATTATCTGATGTCACTGGCCATGTCTCAGTTTAAGGATCGGACTAATTCTGGCATTTAGAGAAAGGAACTCTACAGAGTTTGAGGGGGGGGGAAATCTCATTAATGAAAGGCTCTTTACCTTTAAATCAATTACTTGCTTGCTTCTCTCACTTATGATTATTTGTATTAAACTTTGCCAGACTGAAGGATGTTTATGACACTGTTGGGATAGGCTATCGCTAACTATAGTTGTAGATGTTATTCTTATATTCAGATCTGGCCAGGAGATGGTGGTGCACACCTTTGATTTCCATCACTCTAGAGGCAGAGGAAGGTGGATCTTTGAGTTTGAGGCCAGCCTAGTTTACAGAGCTAGTGCCAGACCTATACCAAGAAACTTCCTGTCTCAAAGGAAAAAAAAAATCTGTGTGCATTCATGTCAGTCTTGATTTTTAACCAAATTGAGAGACCAGGAATGTAGCTCAGTTGGTAGAATTATTAACATTATAAGTGACCTAATTTTTAAAATCAGCATAAATAGAAGGAAACAAAAAATATTTTGTGTTAGGAGTGTACATATACATTCTGTCCCATGTGCAGGCCAGAGGTCAAAATGGGATATCTCCATGGGTCTCCACATTTTTCAGACAAGGACTTTCATTGAACCTGGAGCTTGCCAATTAAGCTAGACTGGGCTGGCCAGTGAATTTTAGGGATCCATATGCCCCGCCCCAGCCCTAGGTCTGGAGTTACAGGTCTGTGCTATGATGCCTGCCTTTTTATGTGGGTGTGAGTGATCTGAACTCAGGTCCTCATTGCTTGCATAGCAAGCACATTACTGAGTAATCTGTCCAGCCCTTGAGCAATTTTAATTGGCCCTTTTTAAAAAAATGTAAAAAATAGCCAGGTACATTGACAAATGCCCATTAATACCAGCACTTGGGTGGTAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTTGTTTACAGAGTTGGTTCCAAGACAGTCAGGTCTAACTGAAAATCCTTTTCTCAAAAAACAAAAAATGAGTGTTTCTGAAGGCAAGCACTAAGTTGAGAATTTGTCCTTGTACTATGTAGCGAAAGAAAACCTATTAAAGTCTCCATGCTGTCAGTCATCTAGTACTAGAGTCAGTTCCATTCAGCATCATCTCACATAGGAGTGGTATTGTGTTCTAAGCTTTGGGAAGTGCTAAGAGCCTACGTGACCCTGTGTGTGAGGTATTCCTATTTAAGCAATGGTAATATATAGTTATACGACCATCTTTAGCTTCCCACTTACCCTCACTCCCCCCTCTTCTCGTTAACAG
Seq C2 exon
ATGCGGCATTCCAAACGAACTCACTGTCCTGATTGGGATAGTAGAGAAAGCTGGGGCCATGAAAGCTACAGTGGAAGTCACAAACGCAAGAGAAGGTCTCACAGCAGTACTCAGGAGAACAGGCACTGTAAACCACATCATCAGTTTAAAGACTCGGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020385-Clk4:NM_007714:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.119
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF078926=DUF1667=PU(64.0=91.4),PF053316=DUF742=PU(44.6=94.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: