DreINT0084782 @ 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
chr2:24508439-24509309:+
Coord C1 exon
chr2:24508439-24508637
Coord A exon
chr2:24508638-24509116
Coord C2 exon
chr2:24509117-24509309
Length
479 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
GTTGTCTTGTTTTTCGAAAGATT
3' ss Score
5.52
Exon sequences
Seq C1 exon
GAGCTTTTTCAGGGGTTTCTAACATCTTTAGCCTTTGGGGAGACAGCAGCCGTGGCCATCACTACCAGGAAGTACCCAGCCACAGCATGTCCTTCCCCTCATCTTCAGTTCCCTCTAACACCGTCCTGCACAATGTCACCTATGGGCAATGCTCAGAGGTAGAGAACAGACTGGAAATGATGCACAGGCAGCTCTACCG
Seq A exon
GTGAGATCAAACTACAGTTATTGTTGTTTTCTTGCTCTCCTACACTCAAAAAAATGACTTTTGCTGCTTCTACACTGTAAACAATTATATGAACAATTAGTCATGACAGCATATGTTTTAGTTCATTGTAACTTATTAAACTAAGTTAATCATGTTGTTAATTAATTTTATAAGTTATGCAAGCTGTTTTAAGTCAGTTTAACATAATATAAGTTCAGTGGACTCATAAGGTTTGTTTGATTCAGCCTAAAAATGTAAGGCAACCAGAATGTTTTACAGTGTACTACCTATTTAAAAAGAGTTGAAGACAACACATTATTTTTTTGTGGAGAGGGGCAACTTAATTGTTTAATGTTCAATGCACTCAAATTTGTAAAAATGATTAACAACATTAAGGAATTATGTGGAAGCCAGCATATTTTTACAGTGTGGTGTATTCTTTATGCTTGAGTTGTGTTTGTTGTCTTGTTTTTCGAAAG
Seq C2 exon
ATTGGAGAAGCGCATGTCAAAGGACATTGGAGCCATAATGCAGTTGCTTCAGAGGCAAATGGTGCAGGTTCCACCAGCCTACAGCTCAGTGACGTCTCCTACAGAAGCATCGCCAATTCCACCCAAACCTGGACAGAAATTGGTTCAGCCTGTGAATCCTTTAGAAACAGAGACTCCATCTATCCTGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029881:ENSDART00000024058:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.556
Domain overlap (PFAM):
C1:
NO
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:
TTAGCCTTTGGGGAGACAGCA
R:
TCTGTTTCTAAAGGATTCACAGGCT
Band lengths:
343-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]