DreINT0084807 @ 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
chr3:17441726-17443799:+
Coord C1 exon
chr3:17441726-17441764
Coord A exon
chr3:17441765-17443452
Coord C2 exon
chr3:17443453-17443799
Length
1688 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTATTTTTTTCTATCACTAGGAA
3' ss Score
10.86
Exon sequences
Seq C1 exon
GGCCAGGCCAGATTCTCCCGCTCAACTCGACTGGCACAG
Seq A exon
GTAACAAACTGATTCTACACACACTTTCAGAGCGGTGTCTGTAATTTAGTGTTTTTATTTCATTCTTTTTAACCTTATGATTCACACACTTGCACACATGCACTGCCATACCGGTACAAATCAAAAGGCCACGTTATGTAAGATCCCAATTATTAGTGTCACTCTGAACTGTAGACGGTGTCTTGGTGTGTGTTTGTGTGTGCGCGTTTGCGTGTGTATGTGTGTGAACATCAGAGCAGCTCATCTGGCTGTGTGTGAATCAGATGAATTAGCAATCTGTTTGTGGCGCTGACCCGGTGTCTCTTTGCTGTGCCAGCTGTCTAATGATCAGAACACACACACACACACACACACACATACTTGTATAGCTATCTTTATGAGGACTTAATGATGTAATCTGGGCTGGAGCAAGCTGAACTGGCACTAGGCAAACGACGATCACGCCGCCCTCAACCCGAAAGTGAAAACGGAAGTGACCGGTTCACGAAGTGAACCTAGGTAGCCTCTATGGATATAAGGATTTTTATACTATACAGACTTTATATACTTTCCCCTATGTGTTCAATGAAAAATACAGACTGTGGAATGTATTTTTAACAGAAATATTCTGTAAATTAAGTTTATGAATGTAAAATGTTAAAAACATAGGTAGATTACTGGCAACCACAGCTGCCCATATTTTTCCATAAAAACAAGAAAGGAAAAAAAACAGCAAAACGTTTTTTGTGTCACCATTGTGGAGGATAGTAGCACCTGTGTTCAAGTACAAGATGAACTGAGAGTATCTGATGTTGTGCTGCATCTTCTTTTGTTTAAATGTAACTGTGTAGTTCCTAATGCAGTGAAAATCTGTTTGCTATTTGCAAACCCACATGAACACATTAGTGCATTGAATGACTTTACATTTTTGTGCACCAAGCTACGATTTTGTCATTGTATCAGTTCATGAAAGACGGTTATAAGAGTTAACTAATTAACACTCTCTCAGTGTTGATAATGTTAACTCTTTCGAAAGTTATTATTATTATTTTTAACATTTTTTAGTGGTTCCCATATAAACTCTGAGAGAGTGTTAATTTTAACTCTAAGGTAGTTAAACCTATTATATAAAATTTGCAGTGTACTCATAAACCAAACACTCACATAAACAATCTGCATTATTTACATTTTCAAAATACTTCAGTCTATGTGATTTATGAGCTGCTTTCCTCATGGGGGTCAAATTTACTGGTATTGCTATACTTATGGAGACATTTAGACACTACAATGTAACAAATACAAGGTACACACACATATACACATCAAACACACACACACACACACACACACTCAGAGAAACTCAGCAAAACATGAACACATTAACCGCTCAGTCAAATATAATAACATATTATAATATGCGTCTTATTTTTAGTACAAACTATTATGCACTATTCCGGATTTTTGATAAATAGAAGTTTCGAAATGTATTTATTTGGCAGAGAATTTATATATATATATATATATATGTATACATACATACATGTCAGTTGTTATCAATTGTTTTTATTTTCTAATACTTGTTTCTTTTATATATGTTTATGTAAAGCACTTTGAATTATCATTGTATGAAATGTGGTATTTAAATAAATTTGCCTTGTCTAACATAGCAGCCAGTGTCCTTTAATTAGTTTATTTTTTTCTATCACTAG
Seq C2 exon
GAAAAATTTGACGAGTGCAAGCTGCCATTTATCGTGGAGACCGAACAAGAGGACGACACTGGGCAGGATTTAGGCAGGAGACCCCTGCTCTCTGGCTTCAGCTGCCCTTCATCTCAGTCCAATCTGAGTGCCATGCTAGGGGAGGAGTTTCGGCACCACAACATGCTCCGTTTCTGCAGATCGCCCGTCCAGAGCTCTCGCATACAGAGTCCTCAAATACCACTCCACGAGGAGCAGACGACGGCTTCAGCTCCTGTCCCAAAAACAGACAAGATCTCCTGCAACAGACCAGCCAAACTGCTTATTCCCACTCTCAACTGCGTCAGCCCGCTGGACCTGAGCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062565:ENSDART00000153763:12
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=0.267
Domain overlap (PFAM):
C1:
NO
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:
CCAGATTCTCCCGCTCAACTC
R:
TGGGAATAAGCAGTTTGGCTGG
Band lengths:
342-2030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]