BtaINT0079575 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30452443-30453279:-
Coord C1 exon
chr5:30453080-30453279
Coord A exon
chr5:30452693-30453079
Coord C2 exon
chr5:30452443-30452692
Length
387 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGC
5' ss Score
7.52
3' ss Seq
CCACCTGGTGCCACCCGCAGCTG
3' ss Score
7.76
Exon sequences
Seq C1 exon
CCCTGATGCACGCGGTGGTGTTTGGGAACGTGACGGCCATCATCCAGCGCATGTACGCCCGCCGCTTTCTGTACCACAGCCGCACCCGCGACCTGCGCGACTACATCCGCATCCACCGCATCCCCAAGCCCCTCAAGCAGCGCATGCTCGAGTACTTCCAGGCGACCTGGGCGGTGAACAACGGTATCGACACCACAGAG
Seq A exon
GTGCGCAGGCCTCCAGGGCCGGCCCTTCCAGCCTCTGCTCCTTCCAGGAGCGTGCGCTCCGCCCAAGATTCCGCGGACCGGGCTGGAGGGCAAGGGAGGCAGCATTCTGACCTCCGTGCCTCCGCTCTCTCCTGGGGAGACAGCGGGGAGGAGCAGAAGGCAGCCAAGCCGGCTCGAAGGCCCCTCTCCACCATCGTTAGATCTACAGGCCCTGCTCACTGACGTCCAAGCCCAAGGCCTGGTGGAGAAAAGCAGGGCTGCTGGAGGGGAGGGAGGCCGGTCCCTCCCACGCCTCCCCTTGCTCCTCAGGCTCTCCGGGTGGAAAGGGCTGGCGGGAGGCTGCTCCCATTCTCCACTCTGACCTTCCCCACCTGGTGCCACCCGCAG
Seq C2 exon
CTGCTGCAGAGCCTCCCAGACGAGCTCCGCGCTGACATCGCCATGCACCTGCACAAGGAGGTCCTGCAGCTGCCCCTGTTCGAGGCGGCCAGCCGGGGCTGCCTGCGGGCGCTGTCCCTGGCCTTGCGGCCCGCCTTCTGCACGCCGGGCGAGTACCTCATCCACCAGGGCGACGCCCTCCAGGCCCTCTACTTCGTCTGCTCTGGCTCCATGGAGGTGCTCAAGGGCGGAACTGTGCTCGCCATCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277:ENSBTAT00000025668:9
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(4.2=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:
CTTTCTGTACCACAGCCGCAC
R:
AGCCAGAGCAGACGAAGTAGA
Band lengths:
344-731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]