DreINT0084855 @ danRer10
Intron Retention
Gene
ENSDARG00000001803 | kcnh6a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6a [Source:ZFIN;Acc:ZDB-GENE-040702-5]
Coordinates
chr3:31605602-31605986:-
Coord C1 exon
chr3:31605793-31605986
Coord A exon
chr3:31605699-31605792
Coord C2 exon
chr3:31605602-31605698
Length
94 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGA
5' ss Score
5.46
3' ss Seq
CTGAAGCTTATGTGTATCAGGTA
3' ss Score
2.8
Exon sequences
Seq C1 exon
GTAAGAATGACATTTTCGGGGAGCCCATCAGTCTATATGCCAGGCCGGGGAAGTCAAGCGCTGATGTGAGGGCTCTGACATACTGTGACCTGCATAAGATCCTGAGGGACGACCTGCTGGAGGTGCTGGACATGTACCCCGATTTCTCCGACAACTTCTGGAGCAACTTGGAGATCACGTTCAACCTTCGAGAT
Seq A exon
GTAAGACACTCAAACTCATACATTAGCATACTAGCTAGTGTTTCTCAACATGATTTTCATAATTATGTGAGTTACTGAAGCTTATGTGTATCAG
Seq C2 exon
GTAGACAGAATCATGCACCCAACACCAAGCGAGGACTCAGATTGTGGGTACAGGCGGCCCAGACACCGGAGGAACCCCCTACGGCGAAATCGACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001803:ENSDART00000134201:11
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=0.788
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTCAAGCGCTGATGTGAGG
R:
GCTTGGTGTTGGGTGCATGAT
Band lengths:
174-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]