DreINT0084858 @ 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
chr3:31600573-31602562:-
Coord C1 exon
chr3:31602379-31602562
Coord A exon
chr3:31600781-31602378
Coord C2 exon
chr3:31600573-31600780
Length
1598 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
CTCTCTCTCTGTCTGTCTAGACT
3' ss Score
9.34
Exon sequences
Seq C1 exon
CAGCCCCTCTGAACATTTCAGGGGTATACAGCTATTTGTCGGACCGCAGGGCCAGTGAGTACTCAGAGAGTCAGAGACGTTCCTCTGCGGTGCAGGCATGCTATCACCATCACAGCCCCTGTGTGGGGGACAGACCGAATCAACTACAGGCCCGTCTGGAGCTGCTGCAGTCACAACTCAACAG
Seq A exon
GTCACTCATCCAGACAGAGAGAACAATAAAACAAGCCGCCAGGGCTCTTTGTACAGTGTTCAGAATATATAAGTTCACCCCTCACAAATCTCTCTTTTAAATTAATTTTAATAGGAATCTATGCAATATTATATTTGAGCATATACATTAGATTAGTCGGTTCTAAAGCCAAATCTGGAGCTTATCTAACAAAATAACTTTTGATAACAGTCCAAAAACTAGTACACCCAAATTTATAAAAATAAAAAATATATTAAATACAAATTTAAAAAATAGGAAAAGTCAAGAGAAGCATTGACAAAGCAGATGACAAATTTTGTTTTTTTTTTTGCAATATTTTTCTTGAATTTAATTGTATTTTCTTTCCATTTCTAAATATGTTTGGTGACTAAAATATTATTTAAATAAATATATCTGTTTTGTTTACATGCACCAAAATACATTGCCTATATTCACTGAGAAATTTTCAAAATGGGTGTACTCAATTAAGCTGAGCACTGTATACATAAAACCATCAGCCAGTCTTCAAACAGTAATGTCTTGGGCAGGGGTCACCAATTCTGTTCTTGGAGAGCTACCTTCCTGCAGAATTTAGCTCCAACCCCAGTCACTCCAACACACCTGAACCAATTAATCAGGACCTGAAGCAGCACTTGATAATTACAGACAGGTGTGTTTGGTCAGGGTTGCAACTGAAATGGGTCATAAAGGGTCATAAAATTGTCATTTTGAGTCATCAACTATGGTCTGCACTTACCCATGATCTCAAATTACCATCAAACTAACTCTTACTAATGGCATTTAGTGCCCCTAATACCTGTTTTACATTCTTTTATTTATAGTTGATTACTGCAATCTCATTGGGTGAAATTGGTCAATACTGAAAATCTACTATAGTTTAAAAGAGTTGTTTGCATACTCAATATGCATTTTGTGTATTTTCAAAACACACAATAATATCCTTGTATACAAAAATATTTTGTCTTTGTATTTTGAATTATTTAAATACATTCTGTTTAATAGTATCTATAGTATTTGTGCTGGTGCTCATATATATAGTTGAAGGCAAAATTATTAGCACTCTTGTGATTTGTTTGTATTTTATTTTTTTTTAATTTTTGTTGTTCTGGATAATTTCTATTATTATTATTTATTTTATTTTTTTTTGCTGAAATAAAGCCGTTTTACATTTTAGAAAAAAAGTCTTAAAGGTATTGAACTTACCTCTAAGATTCCTGCATATACCCTGTAAATACTAGTATCTTGCAAAATGACAAGAAATATATTGTGTACTTTCATCATAGCGAAGACAAAGGAAATTAGTTACTAACTGTTATTTTTGAAAATGTATAAAAAAAATTGTCTCTGTCAAAGATAAATTGATAAAAATATTTGAAAAATGTCTAAATACCGAGTTTTGATCATGTTTTTAATCTCTAAAATGTTTTATTTATGAGAGATCTTTATATAAAACAAAATGTTTTGTACATTTGAAAATGATCTAAGGGTATATTTGTCCTTTGGTGGTTCTATTGTTAAATGTGAAGCCTGCATTTGCTCTACAGCCTCTCTGTCTCTCTCTCTCTCTGTCTGTCTAG
Seq C2 exon
ACTGGAGACCAGGATGACGGCTGATATAAATGTGATCCTGCAGCTGCTGCAGAGGCAGATGGCACCTGTTCCTCCAGCCTACAGTGCCGTTTCTCCTGATCCACTCGCACACCCAGCCCCCCCAGCCCACCCCACCAGCCTCTACACTACAGCAGCACACAACACCACACCCTCCCTACAGATCACTGACGCTTCTTCACCTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001803:ENSDART00000134201:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=0.687
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:
CAGGGCCAGTGAGTACTCAGA
R:
CCAGGTGAAGAAGCGTCAGTG
Band lengths:
342-1940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]