DreINT0084812 @ 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
chr3:17416859-17417216:+
Coord C1 exon
chr3:17416859-17416990
Coord A exon
chr3:17416991-17417091
Coord C2 exon
chr3:17417092-17417216
Length
101 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TGATTTTGCTGTTTTGTTAGAGG
3' ss Score
3.31
Exon sequences
Seq C1 exon
GTACTACTTTCTGGTGTCTGCTGGACATTGTCCCTATTAAAAATGAGAAAGGAGAAGTGGTCCTTTTTCTCCTGTCCTTCAAAAACATCACTGACTCGTATGGTAAATCCCATTTGGGCTCCAGCACAGAAG
Seq A exon
GTAACAGGCTAGCAGTGAGCCAACAAAGCATGTTTGATCCCAGTTATGGTTGATCATTCGATTAATTATTTTCACACGCTTTGATTTTGCTGTTTTGTTAG
Seq C2 exon
AGGACAGACGTCACGGCAGGAAAGTGGGTCGAACTCACCTGAGTCAAGCTCGAGAGCGTGGCCGCAACGTCCTGTACCACTTGACCTGCCAGTTCACTAATAGGAGCAAACGAAAGCTGCCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062565:ENSDART00000153763:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PD(29.5=68.9)
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:
ACTTTCTGGTGTCTGCTGGAC
R:
GGCAGCTTTCGTTTGCTCCTA
Band lengths:
248-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]