BtaINT0079559 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004078 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr4:114331065-114331939:-
Coord C1 exon
chr4:114331552-114331939
Coord A exon
chr4:114331265-114331551
Coord C2 exon
chr4:114331065-114331264
Length
287 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CCCACTCACCCCGCCCCCAGCCC
3' ss Score
7.96
Exon sequences
Seq C1 exon
CTGATTGGGCTGCTGAAGACGGCGCGGCTGCTGCGGCTGGTACGTGTGGCCCGGAAGCTGGACCGATACTCGGAGTATGGGGCGGCCGTGCTCTTTCTGCTCATGTGCACCTTCGCACTCATCGCGCACTGGCTGGCCTGCATCTGGTACGCCATAGGCAACATGGAGCAGCCGCATATGGACTCCCGCATCGGCTGGCTGCACAACCTGGGCGATCAGATCGGCAAGCCCTACAACAGCAGCGGCCTGGGCGGCCCCTCCATCAAAGACAAGTATGTCACCGCCCTCTACTTCACCTTCAGCAGCCTCACCAGCGTGGGCTTCGGCAACGTGTCCCCCAACACCAACTCGGAGAAGATCTTTTCCATCTGTGTCATGCTCATTGGCT
Seq A exon
GTGAGTGCATCCCTGGGGGCGGGTGTGGGCACAAGTCACACAGGAGAGGGAGGGTGTTAGAGGGGCCCGAGTGGGCGCCCCCCACCCCCCAGGGGCCCCCATCACAGTGCTGGGAACACCAGGGCAGAGGCACAAGGCAGGGGCTGAGGAGCGTGTGTGCCCGGGCTTCTGTGCATGCATCTCACGTGTGTGCTCACACTGAGGCGGGAGTGTGTGTTGGCACTGACCTGGTGCTGGGGTGGACAGGGTCCCTCGGAGGCTGACGGCCCCACTCACCCCGCCCCCAG
Seq C2 exon
CCCTCATGTATGCCAGTATCTTCGGCAACGTGTCGGCCATCATCCAGCGGCTATACTCGGGCACGGCGCGCTACCACACACAGATGCTCCGCGTTCGGGAGTTCATCCGCTTCCACCAGATCCCCAACCCGCTGCGCCAGCGCCTTGAGGAGTACTTCCAGCATGCCTGGTCCTACACCAACGGCATCGACATGAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004078:ENSBTAT00000005328:7
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=FE(62.6=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.9=14.9)
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:
GGCCCCTCCATCAAAGACAAG
R:
GACCAGGCATGCTGGAAGTAC
Band lengths:
308-595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]