BtaINT0079550 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004078 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr4:114328681-114329234:-
Coord C1 exon
chr4:114329041-114329234
Coord A exon
chr4:114328781-114329040
Coord C2 exon
chr4:114328681-114328780
Length
260 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ACACCGCTCTTGGGTTTCAGACC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GGAAGAACGACATCTTCGGAGAGCCTCTGAACCTGTACGCGCGCCCTGGGAAGTCCAACGGGGACGTGCGGGCCCTCACCTACTGCGACCTGCACAAGATCCACCGCGACGACCTGCTGGAGGTGCTGGACATGTACCCCGAGTTCTCTGACCACTTCTGGTCCAGCCTGGAGATCACCTTCAACCTGCGGGAT
Seq A exon
GTGAGTGGGCCATGCGGCCGACCGCCCTGCTGGGTGGCTGTCCCTTCGCCGCGGGACCTTCTCTCTGGGCTTGTTTAATGGTATCTGGGGCAGACCAGGTTGTGAAAAGTGCCAGTCTCAGCCCTGGTCCTGCGGCGGAGCTTACACCCCACGGAGCGGGCATGCCCTGTTCCACCTCCATTGGTCATGAGAGGGTCTTCCCCGGGACCGGGCAGGGCAGGTGGACGCGGAAGGGCCCTGACACCGCTCTTGGGTTTCAG
Seq C2 exon
ACCAACATGATCCCCGGCTCTCCGGGCAGCGCGGAGTTGGAGGGCGGGTTCAACCGGCAACGCAAACGCAAGCTGTCCTTCCGACGGCGCACGGACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004078:ENSBTAT00000005328:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
A:
NA
C2:
NO
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:
CGACATCTTCGGAGAGCCTCT
R:
GAAGGACAGCTTGCGTTTGC
Band lengths:
268-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]