DreINT0084779 @ danRer10
Intron Retention
Gene
ENSDARG00000029881 | kcnh2a
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2a [Source:ZFIN;Acc:ZDB-GENE-070912-699]
Coordinates
chr2:24505567-24505960:+
Coord C1 exon
chr2:24505567-24505760
Coord A exon
chr2:24505761-24505839
Coord C2 exon
chr2:24505840-24505960
Length
79 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGC
5' ss Score
7.1
3' ss Seq
TGTGTTATTCTCCTCAACAGACT
3' ss Score
8.95
Exon sequences
Seq C1 exon
GCAAGAATGATATATTTGGAGAGCCCATTAACTCATATGCTCGTCCTGGAAAGTCAAGTGCAGATGTGAGAGCACTTACGTACTGTGACCTGCACAAAATCCACAGAGATGATGTCCTGGAGGTCTTGGAAATGTATCCAGAGTTCTCTGACTACTTTTGGAGCAATCTGGAAATCACTTTTAATTTGAGAGAC
Seq A exon
GTAAGCTTACATGTTTTTCTAGCTTTATGACACATTTACATTGTGGGATTTTGAGCAGTTGTGTTATTCTCCTCAACAG
Seq C2 exon
ACTAACACTAAAGCTGGGTCAATGAGCAGTGACCCTGATGATTCGGACAATGGCGGTCTGGACCATCACACACGCAGAGCAAAGTTGTTCTTTCAATCTAAAAGAAACTCCATCTCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029881:ENSDART00000024058:10
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=0.756
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:
TGATGTCCTGGAGGTCTTGGA
R:
AACTTTGCTCTGCGTGTGTGA
Band lengths:
171-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]