DreINT0084821 @ danRer10
Intron Retention
Gene
ENSDARG00000061990 | kcnh4b
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4b [Source:ZFIN;Acc:ZDB-GENE-121214-54]
Coordinates
chr12:13422273-13423409:+
Coord C1 exon
chr12:13422273-13422487
Coord A exon
chr12:13422488-13422999
Coord C2 exon
chr12:13423000-13423409
Length
512 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCTTTGTCTCTTCCTTGCAGCAG
3' ss Score
11.28
Exon sequences
Seq C1 exon
GAAGAGGAGATCTGATTGGATCAGACCTCCCAGGCCAGAATCATGTGATTAAGACAAATGCAGATGTGAAGGCACTGACGTATTGTGACCTGCAGTACATTGGTGTGAAAGGTTTAAGCGATGTGCTTGAACTTTATCCTGAGTATGCCAACATCTTCACTATAGACATCCACCGAAACCTCACATATAATCTGAGAGAGGGCAGTGAGACTGAG
Seq A exon
GTGAGCCCACACATTCTACAATTCATTGTCATTTTCAATACTGTAACAGCTAATTAGTTAGTTTATTTAAGTGCTCTATACTTGTCTTTTTGACAAATTTATAGTGTAATAAATGTGATGCAACAAGATGATAAAATAACATCCAATACAACAATACAGATTCAGGAGTGCCGTTCTGAATAGTTTCTCTTCTAATATCTTCTCTGCTGTTCATTAGTGCAATGAATTGCAGTTTGTTTGTGTGATTCTGGATTGAGGTTGGTGGGTGGTGGTCAGTTAAAATAATGGGGATGCTGTTGACATTGCATTCGAGAGTTGGTACCATAGGAAAACAAGATTGTTTACATTTTAAATTTAACCTAAAGGATCTTTCATCTTACTTCACTAGAGTAGCTATATTGGGTATTCCAGTTTATAAGTACAATTCCATCACAAGTCCAATGGTCATTCAAGCTACTGTACGCATATAATGATCTATCTCTTAGCAAAATGTCTTTGTCTCTTCCTTGCAG
Seq C2 exon
CAGAATTACCCAGACTTCAGTGTCTCAACTGAGAATAAGCGTCCATCCGTTGTAGAAAAGGCTGATGATCCAGACAAGTACTTCCATGTTTCATCTGCTTCTAGTACATGTAGGAATCTACTCCTGCCCAATCTAGGCAGCCCTGTGCGGCGAACATCATTAGGGAACCTTTTAGGAGAGGAGTTAATGCAATTCAATGCCCTACGACATTGTCGCTCACCCGTCAGGGGCTGGAGTCCAAATCCCTCTCCAAAACCTCCAAGCAAAGTACAGAAACAAACCCAGCAACCTTCATCTACGCCTAAACCCATCCATAAAACACAAACAGATTCTGGAAGTATGGCGCGCAAACCTGCCAAGCTGCTCATCCCTACTCTCAACTGCTTTGGACCACCAGATCTTAGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061990:ENSDART00000089042:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.569
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=65.3)
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:
TCCCAGGCCAGAATCATGTGA
R:
TTCCCTAATGATGTTCGCCGC
Band lengths:
355-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]