DreINT0084811 @ 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
chr3:17414395-17416990:+
Coord C1 exon
chr3:17414395-17414628
Coord A exon
chr3:17414629-17416858
Coord C2 exon
chr3:17416859-17416990
Length
2230 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAG
5' ss Score
7
3' ss Seq
TTGCCTTTCTTGACCCACAGGTA
3' ss Score
11.42
Exon sequences
Seq C1 exon
ACAGTAACTTCCTGCTGGGGAATGCTCAGGGGAGTCGCGGATACCCCATCGTGTACTGTTCAGACGGCTTCTGCGAGCTCACAGGCTTTGCGCGCACTGAGGTAATGAAGAAGACGTGCACATGTCAGTTTCTGCATGGACAGGAAACAAGCGAGAGAGTCACTCAGCAGGTGGAGAAAACCTTGGAAGGACAGAGAGAGTTCCAGACAGAGGTCTGCTATTACAGGAAGAACG
Seq A exon
GTAAAGAACACTTTTTTTTTTTTAAATTGAACACATTGAACATCATTAAATGACAAATGTAGTGTATAATATAATAAGCATATGTAGTGGTTACGCATAAGGGAAATAGTTTTGATTTTAAAAAAAATGCTCCTTTAAAATAATGATTTATCATACAATTTTAGGTCCCACTTTATATTAAGTGGCTTAAAATCTGTGCTTTACTGTGGTAAAAGGGGAAAGGTTTCATGCTCTAAAATAAAAAAAATGTTATAAATTGTGAAGTCAAGAGAATTTTTTTTTATTGTGTTCAATATTTTTGCATTGAAAGCCAAGTGTCTCGTAAGTTTATATTTCAAATTTGCATTAGAGAGCAGGCAAAATGAGATCTCTGTAAAAAGTTTTCCAAGGCTCTGTTTTCTCAAAAATGACCTTCCCAAACTTAAACAGTAAAAGTTGCTTAATAATTTGGTTTACATTCACAGTTCATGTATCTTTGGAAAGAAGACACTTTGGGCTTTATTATCCATCATCTAAAGTTTATAATGTTCAAAATGAAAAAAGTTATGTAAAGAAATTGCACTGCACTAAACATTTTATTATTTCATAAACAAATATAGTAAATTAACCCTGGAGCAATACAGAAAAGTTACAGGTCAAAAGCTACACATCTCCTGACTACAAATTTTGAATTTGATGCCAATATCATGCAAAATGAAATTTCTGGAAATTTCCACCTATCCATACCGCCAAACCTGTGCCTAACTTTACCTGTATCCCACCTTAAGAGCATCAAAAGTCTTCTCCAACACATTAAGTACATTTATACATATTTTTATATAAGTACATAGTAGTTAAGGCATCTTAATATAAAGTGGGACTCAAATGTACTTTAGTTTTACACCTATTAAAATGTGTAACATCAATTTGTAAACCCTCCCCACAATTTTTTTTGAACACCTCCAAAATACTCATTAAGGGCCCTGTCATACATCTGGTCCAATGAGATCTTTGCAAAACATGTATGGCATGACATGTATGGCGTGATGTGTCGCTGTTTTCAGATCAGCGCAGCCCTAATTTTCATGTTTTGTGCCACGGTATTTAAATAGCAAATTTATTTGCACCACTTTGTGGACTCACTAAGGTGCATTGTTGGAGCATTGCTATTTTGGGGCAACTGAAATAGACCACACCGTTGACCATCTAAAAGCTGGTCTAAAGTCCAGCGCAGAGTGCCTTATTTATACGACTATGCGGTCCAAAACGCTTACACATTGCTTAATCACAGGATGTACAGCAATACACAAATATCTCTACATATGAAAAAAAAATTTAAAGATTAAAATGTTACTAAATTATTATTTCTACCTAAATATAAAACCCACTGCCTACATGCCTTCTTCGCCTTAGGGGGCTTTTTCAGTTTAGTCATGACAATTTGCATAATGCTATTACTATTAGCAGTATTAGTTATTAAATGCATATTTATATTTGTTTTTACAAAAAACAAGCTTGGATTTGTCCACCTGTTTTGTTTTGGAGATGTATGCATCACCATAATAAGAATAGGACATGTGTTTGGATATAACTCAGCTTTTTGACCACACTTCATTATTATTATTAATTTATTCCTTTGCTGGAAACTAGAACTGATTTTAGAAATAGTTTTGAAACAAATCTTTGAGCTTAACAAACGAAATTAAATATGTAGGCTAATAGATGTCTTCAGTGGAGTGGGTAGAACACTGTTTCCTTATCCACCAAAGTAAAGGAGTAAAGTAAAGAGTACATGTAAAGTAAAGAGAAAGTAAAGAGGCCGAATGGAGGAGGCTCATTCTTTATCCTCACACTGCAAGGATCTTTACACGCAATGACTCAGAGATTGTTTACTGTATATCACTGATGAGATGACTGATGTTTACTGTATCTTTATTGAAATCACTAAATGACCCTGAAACAATTACTAAATGCACTACAAAATGTTACGTTTTCACATGCACAAATTTCATGTAAACGCTTCAACCTTTCACAGTGTAATACTCACTACTCTTGAGTGCTTTTAAAAGGGCTACTTTTAAATTTTTAACAGATACTTTTACTCTACTTGCACTACATTTTTGGGCAAGTAATGGTACTTCTACTTGAGTATGATTTTTCTGTACTCTTTCTGGATATGAATGAACTTTTAATTAATGAGGAGACAATTCAAATACTAAAGCTTTCACATTTTGCCTTTCTTGACCCACAG
Seq C2 exon
GTACTACTTTCTGGTGTCTGCTGGACATTGTCCCTATTAAAAATGAGAAAGGAGAAGTGGTCCTTTTTCTCCTGTCCTTCAAAAACATCACTGACTCGTATGGTAAATCCCATTTGGGCTCCAGCACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062565:ENSDART00000153763:2
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=0.089
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PU(69.5=92.4)
A:
NA
C2:
PF134261=PAS_9=PD(29.5=68.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]