DreINT0047607 @ danRer10
Intron Retention
Gene
ENSDARG00000062954 | clk2a
Description
CDC-like kinase 2a [Source:ZFIN;Acc:ZDB-GENE-030131-298]
Coordinates
chr19:9236583-9239747:+
Coord C1 exon
chr19:9236583-9236850
Coord A exon
chr19:9236851-9239680
Coord C2 exon
chr19:9239681-9239747
Length
2830 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TCTCTGTACTTGTCTATTAGATG
3' ss Score
7.16
Exon sequences
Seq C1 exon
CTACGACAACCGTTCTTCAGACCGCAGGCCATACGACAGACACTACGGCGAGAGCTACCGGCGCTTGGACCACAGCAGGGAACGGGACAGGGATCAAAACAGGGATCACCGGACGCCGAGCAACTACTACTCTCGCGACGCCTCGCCCAGCTACGACTTTCGCCGGGGACGCGACCGGGACCGCGAGGACTCATACCGGAGGAAAGGCAGCAGGCGTAAGCACAAACGAAGGCGGCGTAGAACCAGGTCCTATAGCGCATCCTCCTCG
Seq A exon
GTGAGTACTTCAATACCCAAGCCTGCTCTTTCCCTCCCCAAATCCCTTCTTCTCTCTCCACCTCTACACGCTCCTGTCTCTCTTTCCCCATAACGCTGTTCTTTTCCACAGCCCCAGGATTTGGTAAGTATGAACTCCTTTGTTTTATGTTCTTCTTTTTGTTGATGTTTTGTCTTTTTTTAAATAGTGATAGTCCATATGTTGGCTTTCAGTGTTTTATAATGGAATTGGCCTTGTGTTTAACAAATTAATGTAAGGCTCACATTAATCACTGTAGATTTTATTCTAAATATGAATAGTAATGCTTTTATTGCAAGAGCCTCTTTAATTATGTTATAAATCTCATCCATTCTCTATCTACACACTAGGAATGCTCCGATCGATCAGCCAAAGATCACTATCTGCCGATAATTACATTTCGTGACTTAATCTCAATTCATTAATTAAAAGAAACTATTCAAAAATACACAACAAATTTTTAAATATAAAAACTATTTAAAAATATGCTAATTTGATTCATAAATTCAAAACATGATTACAAATACACAAATTTTTAAATGTAAAAAATTTGTAAGTTCAAAACACAATTCGTAAATATGCAAATCCAATTTGTAAGTTCAAAACACAATCCATAAATATGCAAATACAATTCGTAAGTTCAAAACACGATTCATAAAAATACAAATCCAGTTCGTAAGTTCAGAACACGCTTCATAAATATGCAAATCCAATTCGTAAGTTCAAAACACGATTAATAAATTTGCAAGTCCAATTTGTAAGTTAAAAACACAATTCATAATTATGCAAATTTAATTCGTAAGTTCAAAACACTATTCAGAAATATCCAAATGCAATTCGTGAGTTTAAAGCAATTCATAAATATGCAAATCTAGTTCGTAATTTCAAAATATGATTAATAAATATGCAAATCCAATTCGTAACTTCAAAACATGATTAATAAATATGCAAATCCGATTTATAAGTTCAAAACACGATTCATAAATGCACAAATACAATTTGTGAGTTCAAAACACGATTCATAAATACACAAATACAATTTGTGAGTTCAAAACACGATTCATAAATGCACGAATCCAATTCATTTAGTGAAAATCTATATGATTTTTACTTGTGAATCTGCAAACTGTTTACAGATGTACAAATTGGATTTTGTGAATTGTGCTGTGCATGTATGAATTATTATTATTATTATTATTTATTTTTTATTTTTTTGAGACTGATCTGGCTCCATATTCATACAGTCTAAAGCTGCTTCTGGCCATGACATGTTCACACCTAAATAGTTATAAAAGATATTTTAGGTAAGGTGAGCTCTACTCTTAAGGTTCATATTCGGAGGGAAAACATGCTTAATGCATTATAAAGCTTGAAGCATTAGAGTCAATACTCTGTATCGTCGATCACCATGACAAGGAATCAGTACTCGTTATCGGCTGCAAAAATCCTGATCGGAGCATTCCTAACACTCTTATAGAAGTCTTTCACACAGTTTATATATAAAATAAAAAAAGTTGCTCAATTTTGGCTGTTTAATTTGATTTTCAGTCTCCCACACTCGAGCAACCTGTTTCTGTTTTATGGATTGATGGTTGTGAATTAGCTATGCCTTTACTCATGTGCTCTTGAGTAAATGTTGATGCAGGTTGCTTTTTTTGTGACTTCTTGTCAGGGTTGCTAGGCTGAGGGATGAGTGGGGAGAATGTAAGCAAGCAAGAAGGGAGGGGTAAAATGTTATCTTTGACTTGATCCCTTGCACTATATCCCTATCGTTATATATATCTCCTCACGTGGTGTCATACGAATCGCCCCATGACCACCAAACCTACCTACAACATCAACTACAACACTGCTCGTCTTCGTCACCGTGGCTGCCCCCCTGCACTCTCCCGCTCCCCCTCCTCCTGACCTCTGACCTGTGGCCCAAGCAGCGGAGTGACAGCGGGACGAGGGCACTGTGTGTGAGGGACGACGAGGAGGGTCACCTGATCTGTCGGAGTGGCGACGTCCTGCAAGAGAGATGTACACACTGCCACTACTACTACTCCTCTACTCCTATATCGTAACCTTTCTCCCTATCAGTACCAGCACACAGCAGACACACAGGGGAGGGCAGGAGGTCATGATGATGATGATGGTGGTGATGATGATGATGATTGTTCTCCCCTTTTGCCGGCACAGGCGATGGGGGAAGGCATGTCTAACATGTCTTTAGCCGCTCCTTTATTTATTCTTTTCAGTGGGGATGGGCTGATTGTGTTGCTGTGTAGAATTATGATCCCTTTATTTTTTTTATCTTGACATTACCGAGTCTCCATAAAAAGTGCCATTTTTATTATGGTCTTGTTGGAGCATTTGGCTACATCAAGATTGACATCGCCCCAACATCGTATGCTGTCAGTCATGTAGATTGTAGGATCTGTTTGCTGTGTGACGTTTAGAATATACACATTTTTAATAGCTAGAGGCTTTATTTACTTTAAGTCCTGTAGTCTTAAATCCATTTTTTAATCAAACAAACTCTCCTTATTTTTGTTCGTCAGACAGATTTATTTTACTTTTATTTTTTTTTAAACTGCAGGCTATTTTTAATAATGGAAAAAAACATCTTAAATCTTCGACTGTGTGCTTATTGACACTCGCCTGATTTTCTTTTTAGGTTAACTCGAATAGATAGTCGCATTTACAGTTAAAATTGTCATTTTTAGGAAATCTTTAGAATTGTTTTCCCTTTAAATGCATTGTCTAATTGCTGTCTTTAAATTTCCCCCTCCCCTTTCTCTACTTCTTTCTCTCTGTACTTGTCTATTAG
Seq C2 exon
ATGAGATTGTCAGCACTTTGGGTGAGGGCACCTTCGGGAGGGTGATGCAATGTATTGATCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062954:ENSDART00000142910:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.992 A=NA C2=0.108
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=95.7)
Main Inclusion Isoform:
NA
Other Skipping 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]