DreINT0084803 @ danRer10
Intron Retention
Gene
ENSDARG00000069560 | kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:ZFIN;Acc:ZDB-GENE-070912-23]
Coordinates
chr9:28129790-28132357:-
Coord C1 exon
chr9:28132158-28132357
Coord A exon
chr9:28130040-28132157
Coord C2 exon
chr9:28129790-28130039
Length
2118 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
GCCTCTTTGTCCTTTTGCAGCTT
3' ss Score
11.27
Exon sequences
Seq C1 exon
CACTCATGCACGCTGCAGTCTTCGGTAACGTGACGGCCATTATCCAGCGGATGTACTCGCGCCGCTCACTCTATCACACTCGAACCAAAGACCTCAAAGACTTCATCCGTGTGCATCGACTGCCCAAAGCCCTTGCGCAGCGCATGTTGGAGTGCTTTCAGACCACATGGTCCGTCAACAATGGCATTGATGTCAGCGAG
Seq A exon
GTATGACCTTAATGTTAATACTTAATAATGTTTTTCATAATTGGTGTGCAGGAAAGACTCAGTTGGATAATATGTTAGCAGTATGAGAGCTGCTCTTCTTAACTAATCTTTGAACTTGAGCAGATTCTTGACATGATTTATGAAAATGTTCACAATATGTTTTTTGTGTTTTCTTATTTAATTAATGGTCAGTGAAAAAGGTCAGACTGTTTACAAGTTGTTAAATTTTAAATTATTTAGCATTATTTTTGTTTTTTGAAGTTGTACATTTATATATATAAGTAAACATTAAATCAGGGGTGCCAACACTTTTTCGTATGAAGAGCCAAAAACCAAATATCATTGAGAGCCATGGGCCAAAGATAAACATACCAAACTATTTGACATTGAAGTTGCCATGGATCATTTCTTAATGTATTTAATAATATTTTAAAACAAATAGAAAGCAACACATTGAATCTTACTGCAGTTAGAACACAAACAGTCACATTTATTAAGGCAGTGGAGTTCAATGCTGAATAGTCAAGCAGAGTCTGCCTTAGCTTTGAATCACTCACCAAAAGGTTGATGTTAAATGACATTTCTGGACTTTGAATTCTTTCGATAATATTAAATAAATAAAAATAAATAAATAAAATAAATCTATCTATCTATCTTCACCTGCTTGGTGAAATAGCAACACAATGTTGTGTTCTTATGTGAATACATCTTATGTTAAATTTTGATCACTTATTCAGAATTTAGTTGTAAAGCATGAAGCATTATTTAAAACCCCAATAACTTGTCTTCTGTGGCACAATAAAACAATAATATCCCTGAGCGCAATAAGGATCTTACGGGAATCTTGATGAGCATTTTTTTTTATACATTCATATTAAAAAAACTCAATTTCTTTATGTGAATATTGCTCAAATTAATAGGAATGCTTAATCTCCCATTAACCTGTAAACTTTATTGTGCTCATGGTATTATATTTTATGGTTTTTTACAATACGAGGTCATGAATATGTATCTGTGGTAAAGAAAACTGAAACAAACTATAATTATTAACAGCATCTAAATGCAAAATACTGACACACAGACAACATTTAAAATGCGAATTATACAAATGCAATCACATGTTGTGATTGCAAATGTTTATCATATTTAAATAGCACAAAGTTTTAAGAAATGTATATTATTAGGTTTAGAGATAATATTGTGATTCATGTTTAAGCTAAGAGGTAAAAGATTGTGATTGCAAATGTCTGTCATATTTAAATTGCTCATATTTTTTTAGAAATGTATATGTTTAGGCTTAGATGTAGGCACTGGATTATCGACTTAATTTTTTTTTTATGCTGTCTTTAAAAAATTTGTTAAGTTTATTGTAAAATGGCTAACAGGTCCAAAAATCTAAATAATTTATGAGCTTTTTTGAAGTGATAAAAGTACAACTATGCACGTTTTTTGCTGTAGATGCATGGATGGTAAGTTTTGAATGTTCAATGCATGAATGGTAAGTTTTGAATGTGTAATACGTCCAAACTTTGTTTCAGCACCAATCAAAACATACAAAACTGTCAATTTTGTAGCCATAAATGTTTCATACTAAAATACTTACGAATAAACAAAGACATCAGGCTGCATTTTTAGCTCATCTACGCAACAGTTGGTTCTCATTACTGGTCTCAACATCACTGGTGTCATTTGATGCATCTGTCTAAGATTAGAGTGTGCTTTTCTATTCCTGTTTAGCTTCACCGTCTCTCCTTTTCTTTCACAATCCCTCATCTCTTTTATCATTTGATTTACTTTCTGCCTTCCACCCCCATCTCATTCACTATCCCATCCGTATCTCTGTTCTGCTCATAAACAAGAGATTCCATCTTACACTCACAATGTATTTAATGAGCTCAATTCAAAACACTCGTTGCGTAACTCGTAGCTCATAACTTACTCTCTCCTTCTGATTTGATATCCAATATCATCTCCAATTAAAGTTCAAGTAGAAGACTGATCTGCGGTTTCGTTGCCGCAGTCTCCTTGACGATCAGCCGTGAATCAAAAGTTTGTGATTCTTTTCAAGGTTGAGAAGTACGAGTACTTGAAATAAAATGCCTCTTTGTCCTTTTGCAG
Seq C2 exon
CTTCTGAAGGACTTTCCAGATGAACTGCGGGCCGACATCGCCATGCACCTGAATAAAGAGCTGCTGCAGCTGCCTCTGTTTGAATCGGCCAGTCGAGGGTGCCTGCGATCGCTCTCTCTCATTATCAAAACCTCTTTCTGCGCTCCAGGAGAGTTCCTCATCCGCCAGGGTGACGCTCTGCAGGCCATATACTTTGTCTGCTCGGGCTCCATGGAAGTGCTCAAGGACAACACTGTGCTGGCTATACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069560:ENSDART00000146284:9
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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(3.7=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.6)
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]