GgaINT1009626 @ galGal4
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr13:13450207-13451433:+
Coord C1 exon
chr13:13450207-13450273
Coord A exon
chr13:13450274-13451316
Coord C2 exon
chr13:13451317-13451433
Length
1043 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
TATTTCTCTGTATTTTGAAGGAG
3' ss Score
7.33
Exon sequences
Seq C1 exon
ATGAAATTGTTGCGACTTTAGGAGAAGGCGCTTTTGGAAAAGTGGTGGAGTGCATAGATCATGATAT
Seq A exon
GTAAGTGGCAGTAAGTGCCCCTCGTGCCACGAGGCGCTGCTCAGCTCGGAACTTAAAGTTTCTTTGTCTCTCCTTTTGCACTGTGACAGCCCTTGCATGCTATTGACTTTATATAAGATGGCATATAAAGAAATACTATCGGTTGCTTTTTCTCTTAGGTTTTGAGAATCTGCCCTTAACAGTAAACTTCATTGCCACGTTCTTCTTGAGAAACATCTGCCCCGAGAGGATTCATTTCAAAAATAATCATTTTGTGTGTGGTTGTGTGTGTGTGTATGTATATACACACTATATATATATAGATAGATAGATAGATACAGATATAGATATATAGATATATAAATATATCTATATCTATCTTTAGAAACTGCATTGTACAAATCACTAATTACTGGAGCTTGAGATCATGTTGTGAGGGCAGAAAGTATTCCTAAGTACAGAGACAGTTGAAAATTGTCAGTGAGAAAATAGGATAGATTGGACTTAGTGTAGCTGTGTTCCTTCGAGTAGTATCCTTAGCATTTCAGTGTGCTACTGAGTGCAGATCTGCTTGTACAAGCACAAAATATTTAGGATACAAACCTAATGAAATGAATTACTGCAATGAAATAAATGCACTGATGCCATTAGGAGCACTGTAAAAGAGTGGAACGAGTTATGTAAGCTGCTGAAAAATTGACAGATTCTTGCAGTCGTTCCCTCAGAAGAGATCTTTGCAGGTTTTTGTGTCATCTTTTGGGTGGGTTCCCGATGTTTATTCAAAGTAAATCAGCTGTGTAAGACTGAGAAATAGTTAACGTAGCGTATGCTGTGGGTATATGAGCTTAACCAGAACGGTTTCTACTTAAAAAAAAAAAAACCCAACAAAAAGTAATACCTAACTTTCCTTTGGAATTTGCTTCAGTCACATTTCCCCTAATCCAGCTTGTAGTCATCTGTGACCTTCGATTTTTGTGTTCGTTTTATTGAAGTCAGACTGCTTGGGATATGTAGCTGTTTAATAATAACCGGTTTTGTTTGTGGTATTTCTCTGTATTTTGAAG
Seq C2 exon
GAGAGGAATGCATGTAGCAGTTAAAATAGTGAAAAATGTTGGTAGATACCGAGAGGCGGCCCGCTCAGAAATACAGGTGTTGGAACACTTGAACACCATGGATCCCAGCAGCACTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:5
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=PU(7.0=95.7)
A:
NA
C2:
PF0006920=Pkinase=FE(12.3=100)
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:
TGAAATTGTTGCGACTTTAGGAGA
R:
AAAGTGCTGCTGGGATCCATG
Band lengths:
183-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]