DreINT0047612 @ danRer10
Intron Retention
Gene
ENSDARG00000062954 | clk2a
Description
CDC-like kinase 2a [Source:ZFIN;Acc:ZDB-GENE-030131-298]
Coordinates
chr19:9242828-9246161:+
Coord C1 exon
chr19:9242828-9242957
Coord A exon
chr19:9242958-9246078
Coord C2 exon
chr19:9246079-9246161
Length
3121 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
TTGTTTTTTGCTATTTGTAGAAC
3' ss Score
8.34
Exon sequences
Seq C1 exon
AAACGAGATGAGCGAACTGTGAAGAACACAGCAGTGAGAGTGGTTGATTTCGGCAGCGCTACCTTTGACCATGAGCACCACAGCACCATTGTTTCCACCAGACACTACAGAGCTCCTGAAGTTATTTTAG
Seq A exon
GTAAAAACAATCCTGCAATGTGTTTGACCCAACATTTGTTTTCTTTTTAAAGAAAAAACTGATTTGATCTACACTTCCTGACTAAAGTCTTGTTGTCTATCCAAGTTTTAGGAACAACAAATAATAATTTGAATTCCAATTAATCATTTGGTATCAGAAGTGGCTCATATGAAAGGCAAATGCCTCTAGAATATGCTTATTTTACCAAAACAAAATATGATCATGCCCTGATTTTATTATTATTTTTTTAAATAACTAATTAATTAGGAGAGTAAAATCTGACTCTGCTTAGACAAAAGTCATGTCACTTAACAGAAATATTGTACAGTATAGAAAGTAAAGTCATGGTGCAGTGAAAAAAGACTGAATATTGTGTAAGACTCCCGTGAGCTTGGGGGACTGCATTCATCCATCTCTGCAATCACTCAAATAACTTATTAATAAAGTCATCTGGAATGGCAAAGAAAGCATTCTTGCAGGACTCACAGAGTTCATCAAGATTCTTTGGATTCATCTTCAATGCATCCACCATCTTACCCCAGACATGCTCAATTATGTTCATGTCTGGAGACTAGGCTGGCCAATCCTTGAGCACCTTGACCTTCTTTGCTTTCAGGAACTTTGATGTGGAGGCTGAAGTATGAGGAGTGCTCTTCTGCTGAAGAATTTGTCCTCTCCTGTAGTTTGGAATGTAATGGGCAGCACAAATGTCCTGATACCTCAGGCTGTTGATGTTGCCATCCACTCTGCAGATCTCTCGCACACCCCATCACTGAATGTAACCCCAAACCATGATTTTTCCTTCACCAAACATTACTGATTTTTGTCAGAATCTTGGGTCCATGCTGGTTCCAGTAGGTCTTCTGCAGTATTTGTGAAGATTGGGATGCTGTTCAACAGATGATTGATTGGAAAAATGTACCTTCTGCCACTCTTTCAATTGATAAACTAGCAATCAAGTTATTATTTGTTGCTCTTAGAATTGGGATCGATAACAAGACTTTTGTCAGGTAGTGTGTAATATTTTATTTATAAATGTAAAGTGAGACATGTTAAAGCATGTGAGTGAGTTAGTCACTGCAGCAACACATCAGATTAGCTTCTTCCTTTCCACCACACGGAATTTAATTAGAGCCAGCTGGAGACTGCAGTGACTTCATTCAGCAGACTGCAGGGAATCCACCAACGTAAGGTTGGTTGCCATGAAAGTCGCTACCCACCTTTAATCTGTTAGGAAATCTGCTGACTGTTGCTTTGGCAAATAGAAATCAGCTAAATTAATGACTTCATTTGCTCTTTTTTTTTATTTTTTATTACTATTATTTTTTTTTTTATCTGTGTTGGTTTTCAGTCAAAGGTTTAGGGTCCATAGAATTTAAAACGGTATTTAAGCCATCTACTCTCAAAGCTGCATTTAATTTAGTAAAAGTCCCTTAACGACTGCTGAGTTTTCAGTATCATTACTCTACATTACAAAAAAATTCTAATATGCTGATTGTCTCAAACCTTTCATAATTCATCAAATTTATGGTATTTGTAAACTGAACAATCAAAAAATTCCATATTTCACTTGAAAATGCCAAAATTTTGAAACAAAAACTTTTGCAAAGTGTTTAACCAACATCCATCTATATCAAGGCCTTTTAGAACATCATCTGTATAGCTAGTTAGACCCCTATCATTAGAAAATCTTAACAACCATGGTTGGCATATGCCAAAAACACACAAAATCATTCTAAGCAAGTTAGAAAGGCACTAGTATGAATTTGAGTGTTTATTTTATTTTTGGCTTAGTCCCTTTATTAATCAAGGGTCACCACAGCGGAATGAACCACCAACTTATCCAGCATATTTTCTGTGCAGCAGATTCCCTTCTAGCTGTAACCCATCAACACACCCACACTCTCATTCTCTCACGCACACACACATATACAATACAGGCTATTTAACCTACCCAATTTACCTATAGCGCATGTATTTGGACTTTGGGGGAAACTGGAGCCCCTGGAAGAAACCCACGCTAACAAGTGGAGAACATGTAAATTCCACACAGAAATGCCTACTGACCCAGCCAAGGCTCAAACCAGTGACCTTATTGCTGTGTGAATATGAGTATTATGAATGTAATACGGATATACTATATTTGCTATATTGTCATAATCATATAACCGACCCGCTCACTCCCATTCATAAATTCTCTCATGTGGCCTTGTGGGATACTATAGTGGCTATTGGATTCACACTTAAGAATCTCACAAGTAGTAGCAGGTCATCTGGGTATTTTTTGTCTACCGTTTGCTAACATAGTGTATCCTAATACTGTGAATTAGGATACACTACTTAGCTTACATACTTTCTTCACATATGGGATTTCACTAAGGGTGTATGTGTGTACAGGGTGTACATGTATTCGTGATGGTTTGGTGCACATGCTACCATAAAGAATACAGTCAGTCGAGACAGAAAAGACCTCATCAGTACAAGAACTTAGCAGCCAAAAAACATAAGATGCATCGAAACGTGACTTCGGTTTATCGTTACATCCTTCGATTTTATGTATGAGATTTTTGGACCCAATGATCGAAACCCTCTACATTGCAGATTCACAGACCGCGATATCATGCTGAAAAGATATATTGTGCAGCCCTTAAAAGTGCCTTTACATTTTGTTATTTTAAAAGTTACCAGGCCCTGCTTCGTCACGCTTTCATTAAAGCTTGTCGTGAATGTTTACTTATCTAGTTATTTTCTAAGGTTATATCCCTGTTATATTTCATGGTTCTTTGGTAAATAGAAACCTTTATTTGAAATCTAGATAACGCTTTACAATGAGGCTGTATTAGTTAATGTTAATGTATGTGCAGGTAGTGTTTGCGTGTGTCTGAAATATAAATGTTTTTTAAATGTCAAATGTATTTGCAACATTTTTTCATAAAACTTTTACGTTTTAGAAAGTAATTCTTTTACTGATTTGAAAATTTCTGAAAATGTGTTTCCCTTGAGCTGTTTATACATTGTCTCATCAGAAATGTGTATATAGTTCTGAAAAGTTACAATGCAGTAACAAATCTTCACCACTAGATGATTCCAACTCACAGAGGTTGTTTTTTGCTATTTGTAG
Seq C2 exon
AACTGGGTTGGAGTCAGCCGTGTGACGTATGGAGTATTGGCTCCATCCTCTTCGAGTACTACCTCGGCTTCACCCTCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062954:ENSDART00000142910:8
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(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]