BtaINT0079553 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004078 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr4:114327051-114327722:-
Coord C1 exon
chr4:114327536-114327722
Coord A exon
chr4:114327229-114327535
Coord C2 exon
chr4:114327051-114327228
Length
307 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TCCTCCTCCTTCTCGCCCAGGCT
3' ss Score
7.99
Exon sequences
Seq C1 exon
GCGCCTTCTCAGGAGTGTCCAACATCTTCAGCTTCTGGGGGGACAGCCGTGGCCGCCAGTACCAGGAGCTGCCTCGCTGTCCTGCCCCCGCCCCCAGCCTCCTCAACATCCCCCTTTCCAGCCCTGGCCGTCGGCCGCGGGGAGACGTGGAGACCAGGCTGGACGCCCTCCAGAGGCAGCTCAATAG
Seq A exon
GTGAGTGTCCAGGGGGACAGGCTAGGAGGTGTTGGACAGGGGAGTGCTGCAGTGTGATCTGTGGGTTTCGGGCAGTGTTGTCGGGTGCCGGTGGGGTGGGGGTTGTTTGCTCCATCTAGACCTGTGCATGTGTCCCAGCGGCTTAGCCCTCTCTTTCTGTTCGGAGACAAGCTGGGGCTGCCACACCTAGGATGGAGAGTTGGCCTGAGGGTTGACCAGCTGGCTGTCCACAGGGCGGTCCTGAAGTCACAGTTGCTGGTGTCTCCACTTCTCTGAGACCCAGAGCATCCTCCTCCTTCTCGCCCAG
Seq C2 exon
GCTGGAGACCCGGCTGAGTGCAGACATGGCCACCGTCCTGCAGCTGCTGCAGAGACAGATGACGCTGGTCCCGCCAGCCTACAGTGCTGTGACCACCCCGGGGCCCGGCCCCGCCTCCACCTCCCCCCTGCTGCCCGCAGGCCCCATCCCCACCCTCACCCTGGACTCGCTTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004078:ENSBTAT00000005328:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.642
Domain overlap (PFAM):
C1:
NO
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:
AACATCTTCAGCTTCTGGGGG
R:
GAGAAAGCGAGTCCAGGGTGA
Band lengths:
343-650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]