BtaINT0039410 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019414 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr7:41113087-41114487:-
Coord C1 exon
chr7:41114265-41114487
Coord A exon
chr7:41113178-41114264
Coord C2 exon
chr7:41113087-41113177
Length
1087 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGA
5' ss Score
7.72
3' ss Seq
CTGCCCACTTGCCGTTCCAGAAG
3' ss Score
7.46
Exon sequences
Seq C1 exon
TCATTATTTAGAAGCAAGGTCCTTGAATGAGAGAGATTATCGGGACCGGAGATACATTGATGAATACAGAAATGACTACTGCGAAAGATATGTTCCTAGACATTATCACAGAGACGTTGAAAGCAGTTTTCGAATCCACTGCAGTAAATCTTCAGTCCGAAGCAGGAGAAGCAGTCCTAAAAGGAAGCGTAATAGACACTGTTCAAGTCATCAGTCACATTCG
Seq A exon
GTATGATTCATTTTGTTTTTATTTTGGGTGGATACTTACTTGTGTGTAAAAGCTCTTATTGGGCCAATAAGTTTGGAAAAGTTTATAATACTGTATGAATGTAATTGTCTTTAAATTACTTGAATCCTTAAAGGAAGTATCAAAATTCTTACAACTAATCTGTATTTGTTGATATTAGTTAGCCCTCATTTACCTACATTTACTCATTTTCTGTAGACCAGATCATGAGTTTCATCATTTTAATATTAAAAATATTTTTATGCTTTATAACAATCTTATGAAAAGTAAAGGCACCCATCTTTTCTTTCATCTCAAACTTTTTTTCTAAAAGAAACCTATTTCCCAATACTTGGAAACAAATATAGAACGTTGCACTGGTGGATATTTAATCCTGAATATAACACAGTCCCATAACACAGTGCATCATTGTTCCAATTAGTTAGGTTGGAGTTCTGAAAGTGGGTGCCGAATGGGAAGTTAAATGTCCAAAAAGCCTGTTCTTTTTTTTAATTCACATATCTTCACTTGTTTGATAAGTAAACTGAGTTAATTATTTTCCTTCCCAAGTTTTCTTCAATAGAACTAGCATTGAACATTGAAATTAACTAGCCTTTATTGTCCCCTTATATTTTAATCGTGTATGTTTAAAAATATTGCTAAATAATAAATTTGTTGAACTAATATTGACATTTCAAAACATTTTTCTGACAAACTAGACATCCCAACTCACAGCATATGCTATTTTATAACAAGAGATTATAGATCATGACATTTGCATTCTTTAAATTTCAGACTTCAATTAAGTCAATATTTTAAAGAGACAATTGTGTTGTTTTTTTTCTATTGCCACTTTAAGTATCTTATCTGAAAATCTGTTCCTTGCCATGTTTTTCTTCTGTAACATAAACTGTGCCCTGTGAATTTCTGGGGACTGAATTTGAAATTGCTCCTGCCAACTGTTCGTGGCCTGGTGCTTATCTGAATGCCTGAATATCTCCCCGCTGAATGAATTGCGTATTCTGCCCTGAATTCACTCTGATATATTGATTGGCTGGACGATCTTGGTGCTGCCCACTTGCCGTTCCAG
Seq C2 exon
AAGAGCCACCGAAGGAAAAGATCCAGGAGTATAGAGGATGATGAGGAGGGTCACCTGATCTGTCAAAGTGGAGACGTTCTAAGAGCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019414:ENSBTAT00000025863:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.323
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATTATTTAGAAGCAAGGTCCTTGA
R:
TGCTCTTAGAACGTCTCCACT
Band lengths:
310-1397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]