DreINT0044430 @ danRer10
Intron Retention
Gene
ENSDARG00000044811 | cdk9
Description
cyclin-dependent kinase 9 (CDC2-related kinase) [Source:ZFIN;Acc:ZDB-GENE-030131-321]
Coordinates
chr21:6041989-6042691:+
Coord C1 exon
chr21:6041989-6042160
Coord A exon
chr21:6042161-6042542
Coord C2 exon
chr21:6042543-6042691
Length
382 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
TTTATTCTGTATTTTTGTAGGCG
3' ss Score
8.66
Exon sequences
Seq C1 exon
ATCCTCCACAGAGACATGAAAGCAGCCAATGTCCTGATCACCAGAGATGGTGTCCTGAAGCTGGCTGATTTCGGTCTGGCCCGAGCCTTCAGTTTGGCTAAAAACAGTCAGGGGAATCGCTACACAAATCGGGTGGTCACTCTGTGGTATAGACCGCCTGAACTACTGCTGG
Seq A exon
GTGGGTGAAACCACATCAAACACTTGTTACTTTTCATTTTCGCTTTGTGTTGATATTGTTACGACCGGCTCATTGGAGTCGCAACATGAAAGATCAAGCAACAAAATAGTGCAAATTATTTATTATAATCAAAACTAATACAAAAACAATGATATAAATAATGCAAAACAAACCCAAAATGTTAAGAGTCAACCAGATTCGACTTCTGATTAACCACACAGTGACCTGCCCTAGCTAGCACAACAACTCTTATATACACATTAAAGCAATTATAGATTAGTAATGCAGTCATCCAATCAGGATCTACTACATTCTTTAATGAGGTCTGGGGACTTGGGATCATCACAGTATGGATTTATTTATTTATTCTGTATTTTTGTAG
Seq C2 exon
GCGAGAGAGACTACGGGCCTCCCATAGACCTGTGGGGCGCGGGGTGCATCATGGCGGAGATGTGGACCAGAAGCCCCATCATGCAGGGCAACACAGAGCAGCACCAGCTCACACTCATCAGTCAGCTGTGCGGATCCATCACTCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044811:ENSDART00000065859:6
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(19.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(16.4=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:
CCTCCACAGAGACATGAAAGCA
R:
CTCAGGAGTGATGGATCCGCA
Band lengths:
319-701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]