HsaINT0036461 @ hg19
Intron Retention
Gene
ENSG00000113240 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:13659]
Coordinates
chr5:178045557-178050417:-
Coord C1 exon
chr5:178050257-178050417
Coord A exon
chr5:178045780-178050256
Coord C2 exon
chr5:178045557-178045779
Length
4477 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAT
5' ss Score
4.94
3' ss Seq
ATCTTTTAATGTGTTTGCAGTCA
3' ss Score
6.59
Exon sequences
Seq C1 exon
ATGCGGCATTCCAAAAGAACTCACTGTCCTGATTGGGATAGCAGAGAAAGCTGGGGACATGAAAGCTATCGTGGAAGTCACAAGCGGAAGAGGAGATCTCATAGTAGCACACAAGAGAACAGGCATTGTAAACCACATCACCAGTTTAAAGAATCTGATTG
Seq A exon
GTAAATTAACTCTTGAACTACTAGCATTTTAGCTCTAATAGTTTTAAATGATTTGTCATTTGCTTATATAGCTTTCATCTGTCAAATTGTTTTATAATTCAGTCAACAAATATTCGTTTAGAAAATATTTGAGTACTTATTTTAGATAGGCGCTGAGGCTACAGCTGTAAATAAAACAAAGTTCTTATCCTTATGTATGTCTGTCTGCCTGGGAGTGGTAGGAGACAGTTGATCAGTAAGTGAATGTGAAATGTATTAAATAACATGGTGAGTCCCAACTGCCAGTAACGTGATTAGGGAGATGACACACAAAAAGTTAAGTAATAGTGATAGAATGCCCAATGAGTACCTTTAACTTGTATGTAGGAGGGAGATGGGTATGTTGTAGTGCTCATTGTTTCAGAAATAAGGTAGGGTTTTATAGGGGAGGAGTTATTCCAACAGAGAAAAGCAGCATGTATTATTAGTCACTTATACCATGTCGTACAGGTTATATTTGTAGATGAGGCCAAGGGATATGTTTGGGATTTTTAGAAGCTGGCTTTATTTAAGAACTATTCTTTTGCATAGGTAGTAGCTAGTAATTTGGGAAATGGCCTCAATAAAAACTTGCAACAGCATGTGTGCTGTTTTATTGTATTCTTACCAGTGTACAATTTGGAGGTAATATATTTATATAGAATTAAAGGAATCTTAAAGTTCTAAATGATTAAAGAAAGGCTAGGTAAGTTTTCACTCTTTCATTAATTTCCCTTTTTCGTTTGTTTTGTTGGTTCTGTTTTCTCGTTTTGTGCAGATGTTCCATTGGGACTGTTTACCAGATTGCTTTCTAAATTAGCCAGCTGGGGTTACTTTAAAAAACAGTATGTAATTTCTTTCCTTCTCCACGTTAACAGACTTGTTCTGCCAAACAGCTTATTTGTAGTCAGTGCAGACAAATCATGCTTCATACGCATTGTTATATAAGGGGAAGGGGGAAGGTTTATGACAGGATTTCAGAGACCAGAGATAATTAATAATTAATGTACAGTACACTAAAAAAAACCATCTGTACCCCACTATTAATAAATACAAAAAACCCTAAGGCTTAACGTCATAGTACTGGTTATTCATAGGATAATTATACGTTGTATATATAGAAAGGAAGTGATATGAGTGATGAACAGTTCATTTGTGCTCATAGTTAACTACGTAAACATGATACTGAGTCCAGTTAACCACCAGGCCAGTGCCTGCTTTGATATTTGTACCAGATGTGTTTGGTGGTCAGCGTTTACCATGATCCAGAATATTCTAATTTTTGAAGGTCAAAAACTTTGAGTGTTTTTATAAAATAACAAAAAACTGAAAAATGCAGAAAAGTATAAAGATGGTAATCTCTGTAGGAAATTAGTCCCCATTATTTAGCTGTAAAATTATAATTAAAAAAAAAATCTTTGTTTCTAAATCTTTGCCACTGATTATTTCCTGAAAATACACTCCAGGAAGAAGCATTTTTAAGTTAAAGCATGTGAACTCTTATTTCTTGCTACAGGTTCATATTTCTTTTTCTAGAGAGTTTGCCAAATTATACAACGTGCTCCTTCATGCTCTCACCAATCTTGGCTGTTTTGAAAGGCCAAGCATAATGTTTTGATTAAACTGAATTTTTAAATTTCTAACGAATTTGTCCGCTGTCATATATTTATTGATCATTTGAACATCTTTTTATTCTTAGCCTATTTATTAAAGTATTTTTATTGATTTAGAAGAGCTTTTTATTACAATATTTTAACCATTTGTCATATATATATTGCATAGTGTCTTTTCTTTATGATTTGTCTTTTGGAGGTAGCCTGTGAATTGGTCTCCCTTTCTACAGGCTTAGTTAATCCATTCTGCATTAGAAAGACTGATGTGGCTGTAAACCCTACCTTTATATATTGTGGTCAGAAGCCTGTAACATAAAGTATCAAGTCTTAAACCAGTGATTCTCCAACTTTAGTGTGAATAAGAATCACCTTGGAGGTATGCTGACCAGATTTACAGTCAGTGAGTATGACCTAAGGCCCAGGGTTACCATTTTTAATAAGAACTCCATATTTGATACTGTTGATAAATAGACCGTCCTTTGAGAAATAATACTCTTTAGCCTAGCACGCAGGGTTTTTAATGATGCTATTCTCAGCTTACTTATTTGTCTACATTCCCCTATGTGAAAATTGCTCTTGCTGGGATTGTCTTTTTCCTGAGTAATGCATAGACAATTCCATCTCTAAGCCATTGTGGCTAAAAGTGCCATATGAATTTAAGATGGTAATATGCCATTCTTCTCCCCCGGAATTTCTTCTGTATTCTACTTTTTCCAAATCCTGGCTTCCCTTTAAGATGCAACTCTATTTCCATCTTTTTTGTAATTATTCTCTGACCATTTTAAACAGATTTTTTCCCCCATCTCTGACTCTAAGCACTCATGTGTTGTAACCTTTTAGAATTTCCTACATTGTTGGATTTTGTTTCATTTTTATGTGAGTAATCTCAAATTGTTCATTATTTGTTGGCAGGGACTTTGCCTTATATAATTTTTTTTTTATCTCCCACAGGACCTGTGTGGATATAAAAACGAATGCCCTTACCCTCATCCGTCTTGGCTATTTGAAAGGCTATAGTGAAATATTCACTGGGCATTCAGTGGATATTTTAAAAAATTAAATCAGTCTGTTCATCCTGTCTACCCTGTCCATAGCCTGTGTAATTCTGTAGACTTTGTTTATATAATCTCTCAGCCTTGGTCATTGGCCATTATCTATTGAAGAGACTCTCATCCTTTTAGTTTGTCCTCATGGTGTTCACTCCATGTTTTGTTACTCTATACGTTGTTTATGGCTTAGCAGCTCTAATTCCATGCAGTATTCCAGCTAAAGATTGTTAGTGCTAGTTTTTTCTAATAGAAGGATTTTGGACTTTTATGGGAAGGATGCCCTTAAGAGTATGGTCACGTCTAGCTTATTGTATTGGTGATCTCTCCCTGACAGTTCCAAGCCAACTGATCAGATATCTGACCTAGACTACCCACAGTCTTACCCAAATATCCTGAGTTGTTTCTCCAATAAATACAACTTAAAGCTGATGCTAGGGAAAGAGAACCGGGTTTCTGTATCTCCCCAGCCTGGATTTGATGCTAGCCCTATTGGGTAGTAGTTGTAAAGATGCTTCTATTTCTGCCTAAACCAGCCCCCTGGGAAAAAGAATGACAGCATATTCTGGGGAAAGGAAAGGGGTTGGTGAGGGCAATCTAGTCAACATCCGTCACTCCATTGCTTGTTAGGCTTATTTTAGCCGATGTGTCTGACTGGGCAGGTGTCCCCTCTCTCCCTCAGTGCTCCATGTGCATCCCTCTTGAAGCTTCGCACTCTGTTGAAGAGGACACTCATCCCAGGTAGAGAGGGGGACGGGAAACTGGGCCAATTGAATCTATGTCCTTTTCTTTCCATCAGATCAAGGCCACTTAACTGGGATCCATTGACATCCTGAGGCCCATGACCTTTGAAATTCCTTGCCAAGTTTTGTTTATGTGTTTCTTAGGAAAGAGAGTCCATGGCTTTCAGCAGATTTTCAAAGGGATCTCTAGATTAAAGCACGATGGCACTAGATGATGGTGTTTTCTGTTGTTTCTTAGGTATTTCTCAAACAGGAATGACAGGAAATTAGAAATGCAAAGGGAAGTAGGGTGGTGGAACTATTGTAATGCTAAACTACAGGATCCCTTTCTTATTTTAGGGGGATATATTTTAGATGCCTTTGGCACATGAGGCAGTCCTCAAAAGCTATGTTTTCTATTTCTCAAACAGGAATAACAAGGCTAGAAATGCAAAGAGTAGAGGAGACATGATAGATGCTGTGTGTAATAAAATTGGCCTGTATAATAGTGGTTTGAAAATATTTTAGTTTTTGTCACTAATGTTGTTATACAACCTTGGTAAATCATTTTTCTTCTAGGGATCTTAATGTAGTCGTCGGTAAAATGAAAGGGCTGGAATACATTTAAGGCTCCTTATAGCTCTAATATACCTTTCATGAAGGAATTCTCTCTGTGCCAGGGATATCTAAAATGCTCTTACATTACAAGAGAAAGGAATCCTTTTTGCCTGCCTCTGATTGTACCTCTGTGAGAGACTAAGACAGCTTAGATACAGGTGCAGAAGGTAAAGGAACACTTAATCAAGTAAACACTAGACATGAATTAATGATTTGACTCAAGCTTTATTCCTTGGTGTGAAGTGCTTGACAGCAAACTCTATAATGGGCCCATTTGCTTGTTTGTTAAAGTAAAATTATTTCTTAAGCTTTATGAGATAAATATAAATGCTAATTCATCTGTTTGAATTTTTTTCTTATATTGAGTTAGCTGTTTAAGAATTTCTGAGAAAATGTTTTGTTTGAACCACATTATTGCAGAATGAAGAGAATAATTTGAAATCTTTTAATGTGTTTGCAG
Seq C2 exon
TCATTATTTAGAAGCAAGGTCCTTGAATGAGCGAGATTATCGGGACCGGAGATACGTTGACGAATACAGGAATGACTACTGTGAAGGATATGTTCCTAGACATTATCACAGAGACATTGAAAGCGGGTATCGAATCCACTGCAGTAAATCTTCAGTCCGCAGCAGGAGAAGCAGTCCTAAAAGGAAGCGCAATAGACACTGTTCAAGTCATCAGTCACGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113240-CLK4:NM_020666:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.459 A=NA C2=0.329
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)