BtaINT0039370 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005408 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr2:89926652-89927819:-
Coord C1 exon
chr2:89927748-89927819
Coord A exon
chr2:89926816-89927747
Coord C2 exon
chr2:89926652-89926815
Length
932 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
AAAACTTGTTTTTTATGTAGATG
3' ss Score
6.14
Exon sequences
Seq C1 exon
AGCGAGCTGGTTTTTTTCCGTGGTTGTGTTGCAAGCATTGCCTCCTTAGGCTTGGACTCTTTGGCCAACACG
Seq A exon
GTAAGACGCAGGGAGAAGCGGGCTAGATGTCGGGACCCCCTTTTGTGTCTTGAGAACGCCCGTGAAGCTCTCCCACAGGCTTGTTGGCCGCCCGCAGTCTCTGGCGCGGTGATCTTTTCTTCTCCGCCGCCCGCTCCCCTCCCCTAGCTGCAGAAAGATGGTTCGCTCGTCTTCCAAGCTTTGTCCAGGCCGTCGCTGCGATTTTCTGTGTGATCCGCAACGAAGAGTTCGCTGGGCGGGCAGAGGTTCTCGAACGTTTGAGACAACGTTCAGAGGAAGAGGGGAGGGCCGAGCTCGGGCGTCCGCGGCCGCCATGTTGTCTGCGACGGCTGGCCTCGGACGGGCTCTAAGATGGCGGTGGGGTGGGGTGGGGGAAGTTGGCAATGACTTGGGTCCTGGAATGTGCCTCAGTCACGCTCTTCTGAGGATCTGTGTTCTTAAAGAAAAGAACACATTGACCCGATGTAAGGCGACTCGAGGGAAAATGGCGAGTGTCTGCCCTCAGTGGTGAAAGCAAAAGTTAGGTTTAGGAACTCAAGGAGACAGGAATAATATGGAGTAGTTGAAGGAGCCTGTGAGAAGTCGGGTGATCGGGCCTTTTAGGCGTGGTGTTCCTGCCGCCCCTTCTCGGAACAGTTGGAGCGTCTTGATTTCGACGCTTGTTTTTGTATGGAATCGAGCCCAGGTGTTAGTACGGGTATGATCGGTAGTTGATGAAAAGTCGTTTTGTATAACGTCTTTTTCAAGTTGTTAGGAATTTGTAGTTTCGGCAGGAAAGGATTTCCCTCATAGTTGAGTAATAATGACTTTTGAGCTTTGATTTAAAAGAACAATTGAAACGTCACAACTCGGATGAATTTTAGAGGACGAGTTTTATTAAAATGTTGACATGTGGGATACACCTTAACCGGGAAAACTTGTTTTTTATGTAG
Seq C2 exon
ATGAGACACTCAAAAAGAAGTTACTGTCCTGATTGGGATGAAAAAGATTGGGATTATGGAAAATGGAAGAGCAGCAGCGGCAGTCATAAAAGAAAGAAGAGATCGCATAGCAGTGCACGGGAGAACAAGCGCTGCAGATACAATTACTCTAAAACATCTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005408:ENSBTAT00000007115:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.345
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF105774=UPF0560=PU(26.4=87.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTTCCGTGGTTGTGTTGCA
R:
TTTTAGAGTAATTGTATCTGCAGCGC
Band lengths:
214-1146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]