DreINT0084806 @ danRer10
Intron Retention
Gene
ENSDARG00000062565 | kcnh4a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4a [Source:ZFIN;Acc:ZDB-GENE-131125-34]
Coordinates
chr3:17441279-17441764:+
Coord C1 exon
chr3:17441279-17441478
Coord A exon
chr3:17441479-17441725
Coord C2 exon
chr3:17441726-17441764
Length
247 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAAT
5' ss Score
3.59
3' ss Seq
GGATTTTCATTTCTCAACAGGGC
3' ss Score
8.84
Exon sequences
Seq C1 exon
GTAAAGGAGACCTGGTTGGTGCGGATCTGCCTGGGAAGGATCAGGTGATCAAAGCTAATGCGGATGTGAAGGCCCTGACTTACTGTGACTTACAGTACATCAGTGTTCGAGCGCTGCAGGAGGTTCTGGAGCTTTACCCTGAATACGGCAGCCGCTTCAATGAGGACATTCACCACAACCTCACCTACAACCTCAGAGAA
Seq A exon
GTAAATAGCCTGCATTATTCTCATCATTTACAAATTCAAATACATCTGATTGATTCAATAATATATATACCATTATATTTTAATATTTAAAAAATGTAATTTAATTTCAAATAATTTTTCCATACATATTCAATATATTCTTAAAATATACCTGAGTATACCTGTGTGTTGTATGGTGGCCATGTGTATTTTGTGTACTGTCTGAGCTTGAGTCATTACAGTACTCAGGATTTTCATTTCTCAACAG
Seq C2 exon
GGCCAGGCCAGATTCTCCCGCTCAACTCGACTGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062565:ENSDART00000153763:11
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:
PF0002724=cNMP_binding=PD(53.4=70.1)
A:
NA
C2:
NO
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:
CCTGGTTGGTGCGGATCTG
R:
CTGTGCCAGTCGAGTTGAGC
Band lengths:
229-476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]