DreINT0084799 @ 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
chr9:28156500-28157772:-
Coord C1 exon
chr9:28157520-28157772
Coord A exon
chr9:28156658-28157519
Coord C2 exon
chr9:28156500-28156657
Length
862 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATG
5' ss Score
7.57
3' ss Seq
TTTTTCTTTCTTTGTTACAGATA
3' ss Score
12.31
Exon sequences
Seq C1 exon
AACATGTTTGGCGAGAAGCCGCCCATACCAGAGTACAAAGTGGCAGCCATTCAGAAAAGCCGTTTCATTCTTCTCCATTACGGCACCTTCAAAGCAGGCTGGGATTGGCTCATCCTGTTAGCAACCTTTTATGTAGCAGTTACTGTGCCCTACAATGTCTGTTTCACCGTCGTTGGAGGGCGAGATGAAGCATCAACCCCTAGAAGTCCACCGAGTGTGAGCGACATTCTGGTGGAAATTCTTTTCATGTTAG
Seq A exon
GTAATGAACAAACTACAGTCCTAGTCTTTTTGTACAATCATTACCATCATTAAAATGTTTTTTAAAACCATATTGTGTTATTAAATCGCCCAGATGCCAAACAAATCTGTTATTGTTCAGGTTTGCACTCATATTTCTGAGTCAGTGTTTTGTGTCATATTGCCAGACATCTTTTAGTTACTCAGAGATTGTAAAAAGTTCTAGATGTTGCTAAGCCAACATCATAAAAAAACACACCTACTGTAGCCATTCTAAAGCATTTCTTAGAAACTTGAAAGCAAAATGAAGAGATTCTGAAGGACATTGCTGTTGAATTCTGATATAACTCTGAAGACCCACTGTTAAACTGATTTACTAAGTTAGATTTCTATCTGTAGCAGTTTATACTGTATATAAATATACAGTAGATATTCATATAAACATATTCATTAGAGAAAACATCAAATTTTCAAAACATTACCATTGTTTTACAAGTCTGCTATGTGCAATTAAGCTTTTTAGCACTGCATAAAAGCTGTTAGTGTTTAATGACAGAATCGTTTTCTGTTCATTACACAGATTCATAATGCAAAGCAATTCTAGATCATTAAAACATTTGCATAAAAAAAGAAAAATCTCCAACATAAAACATTGCTTTTAGCTGTGTTGGTTTGAAAAGTGTCCAAAGTCCTTTACTAAACTGAACTTATCATTTAAATTATATTGCTGTTGTTACAACTTTCATTGAATAGCATTATAGCCACTAGATCTCAGCCCAAACTGAACATTTGAATCATATATTAAATCAAATACAGTTTTCTTTGCTATAATTACTGAATGTCAGTGTCTTCTGTAATTTATTTTTTTTCTTTCTTTGTTACAG
Seq C2 exon
ATATTGTACTAAACTTCCGCACCACATTTGTGAGCACATCAGGCCAGGTGGTATATGATGCTCGCTCTATATGTGTGCATTACGTCACCACCTGGCTCTTTGTGGACCTGATTGCTGCGCTGCCATTTGACCTGTTGTATGCCTTCAATGTCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069560:ENSDART00000146284:5
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=PU(4.4=14.1)
A:
NA
C2:
PF0052026=Ion_trans=FE(19.2=100)
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:
CCAGAGTACAAAGTGGCAGCC
R:
CGCAGCAATCAGGTCCACAAA
Band lengths:
345-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]