BtaINT0079568 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30460710-30461508:-
Coord C1 exon
chr5:30461275-30461508
Coord A exon
chr5:30460845-30461274
Coord C2 exon
chr5:30460710-30460844
Length
430 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
AGCTGTGTCTTCATGCCCAGGGC
3' ss Score
7.12
Exon sequences
Seq C1 exon
ATAGTAACTTCGTGCTGGGCAACGCCCAGGTGGCGGGGCTCTTCCCCGTGGTCTACTGCTCTGATGGCTTCTGTGACCTCACGGGTTTCTCCCGGGCCGAGGTCATGCAGCGGGGCTGCGCCTGCTCCTTCCTCTATGGGCCAGACACAAGTGAGCTCGTCCGCCAACAGATCCGCAAGGCCCTGGATGAGCACAAGGAGTTCAAGGCTGAGCTGATCCTGTACCGGAAGAGTG
Seq A exon
GTGAGGGGCCGTCTGGCCAGCCTGCCTTACTTTCTTGGTCTCACCCAGCCTGGTACCCACCCCATCCACAGTCCCTTCTTTCCACTCCCATCTTCATCTCCCCATCTCATCCCATCTTCCCACATTCCCATCTCCTTTTTCTCAACCTTCTTGGGTCCTCACCACAATCTCAATCAGTCCTCTATTTCCCATCTTGGATTTCCCCCCGCCCCCAGCAGAAGAATTTGCCCATCTTACTTAGCAGGACAGATCTCTGAACACACATGTCTGAATGTCCACTCTGCTCTCCCTTGCCCTTCCTCTCCCTGCTCGATCGAGCCTGAGTGTCCTAAGTGGAGCTGGCTTGTGCCTTAACTAAGGGGTGTCAATGGCCCCTCTGTCATCTTGGGCAGCACAGAAAATGGGAGCTGAGCTGTGTCTTCATGCCCAG
Seq C2 exon
GGCTCCCGTTCTGGTGTCTCCTGGATGTGATACCCATAAAGAATGAGAAAGGGGAGGTGGCCCTCTTCCTGGTCTCTCACAAGGACATCAGTGAAACCAAGAACCGAGGGGGGCCTGACAGCTGGAAGGAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277:ENSBTAT00000025668:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.261
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PU(70.1=94.9),PF051168=S6PP=PU(60.7=68.4)
A:
NA
C2:
PF134261=PAS_9=PD(29.0=67.4),PF051168=S6PP=PD(38.2=73.9)
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:
AGTAACTTCGTGCTGGGCAAC
R:
CCCCTCGGTTCTTGGTTTCAC
Band lengths:
343-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]