GgaINT0017799 @ galGal4
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr13:13447095-13448519:+
Coord C1 exon
chr13:13447095-13447252
Coord A exon
chr13:13447253-13448293
Coord C2 exon
chr13:13448294-13448519
Length
1041 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
CACTTAAAATATATTTTCAGTCA
3' ss Score
4.17
Exon sequences
Seq C1 exon
GAGCAGATGCGTCACTCAAAACAAAGCCACTGCCCTGAGTGGGATGACAGGAGGAGCTGGGATCAGAGAAAGCACAGCAGCAGCCGGAAACGCAGGAAACGGTCCCACAGCAGTGGACAGGAAAGCAAGCACTATAAACCAAATCATGTTTCTGAAAG
Seq A exon
GTATAAGACACTGAATTGAGTAGTGCTAATATTTCTTACTGTATCTAAAATAAATACATGTTCAGGATAAGAGTTCGTAGATGTGCAGAGCTGGTAATTCCTTAAGGTTTGACTCAAGACGAGCTTAAGAGGTAGTTTGTATGCAGTATTTAAATCATTACATAGGAATTCTTTAATAAAAGCAGTAAGTGTTATGGGTTGGTCCACTACTGTCAGTTAAGCATTCAGTATTATATTTCAAGTGAAAAGCGTGTCCGTTCGCTTACTTTTAATGTGACCAAAAGAGGGGAAGAGAAGGTTTGTTTAATAAATGGTAAGTATGAGTTAGATTTCACTTACTAACGTGGAGGTGGTTTGCTTTTTCTCCCACACGGCTTTCCCTGGAAGGATGTGTTTTTCTGTTTTTCCTTTGAGAAGAAGATCTCATGGAATTCTTTTAAGAGCTCATAGTCATGCTTGTAAAATGCTGACAGGGGTATGTGTACAGCAGCGTGGGGCTCCTTGCCTCTGCGGCTCTAAGGCTGTTTGGCTTTTGTTCTTTCTGGGCAGAAGATTCTTGATCCAGATACTTTCTTAAGTACTCAGTGTTGAAGGTAGAGCACTAAGGAACAATGCTGCTTATCCTAGAATCTCCAGGTTCTGTTTTTTCTTTTCAATACTTGGAGCTTTGAAAGAGCAGAAGGGGGTTATTGTTGTAGCAAGAGCATTTTATCCTGTGACTTCGGAGATTGTAACTTGAGTTGTTTGGTGTGTTTTAGAAAGTGTCTCTCCTTCTTGAGGCCAAATTTCTTTCTTAATATGCAAACTGTGAACTGATGATGTATTTACTGTTCATGTGGATGGCTACTGTGTATTTGAGACTGACAGTGTCATTAGTTCCTAATAAAGTAACCTGAAAAGCTCCACTTCTTTTGAGGAGGGAGTTAATTAGAAAAGTTCTTTGGTGTAAAGACGGATACTGTGTAACTCAGTGCAATCACTTATCTTGTTGGAACCGCAAGTTTTTGAAGTGGAGAACATTCACTTAAAATATATTTTCAG
Seq C2 exon
TCATTATTTGGACGATAGAACCATAAATGAAAGAGACCATCATGACCGGAGATATGTTGAGGAGTACAGAAATGACTTCTGTGAAGTATATGACCACAGGCATTATCACAGAGACTATGAAAAGAGTCACCATCATCACTATAGCAAATCCTCTGGTCGGAGCAGGAAAAGTAGTCATAAAAGGAAGCATAAGAGGCATCATTGCTCCAGTCACCAATCACATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.906 A=NA C2=0.737
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGGGATGACAGGAGGAG
R:
TGTGATTGGTGACTGGAGCAA
Band lengths:
345-1386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]