BtaINT0079554 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004078 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr4:114325568-114327228:-
Coord C1 exon
chr4:114327051-114327228
Coord A exon
chr4:114325793-114327050
Coord C2 exon
chr4:114325568-114325792
Length
1258 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACTCTTTGTTTTCTCCGCAGGTT
3' ss Score
12.64
Exon sequences
Seq C1 exon
GCTGGAGACCCGGCTGAGTGCAGACATGGCCACCGTCCTGCAGCTGCTGCAGAGACAGATGACGCTGGTCCCGCCAGCCTACAGTGCTGTGACCACCCCGGGGCCCGGCCCCGCCTCCACCTCCCCCCTGCTGCCCGCAGGCCCCATCCCCACCCTCACCCTGGACTCGCTTTCTCAG
Seq A exon
GTGAGTTCCCAGCACCCCCGGCCTTGCCTTTTCTACACTGATTTCACCCCAGGCCTGCTTTGCTGCCCCTTCTGTGGCCTTGGGCCCCAGCCTCCTCCCCTCCCCTATCCCTGCCCTCCTCCCAGGCAGTATTCTTGGAGGAGGAGGAGCTGTGAGCACAGAGCACAAAGCACGCAGAGGCTGGGACAAGGCAGCCCGCAGGCCGCAGGCCGAGTGGTCTGCGTTCCCCTGGGGTCACCTGAAGGGCCGGGTCTACTCAGGGTGCCTGTGTCCATGGCTGCATGTGGAGGAGACTGTTGAGCCCTGGGGGGGCTGGTGGTGGGTGCTGGGTGCCAGTGCGCCCTTGGGACAGAGTCCCACGGCCCTGCTGACACCCCCGGGTCTGGCTCTCCACTCGATCCATGACTTTCATGCTTGGCACTTTGCAGGGTTGTCCCGGAGGCTTTGGTTAAGCCCCAGGGTGGCCTTTCCGGTCGGCTTGTCTCTCCCACTGCTAGAGGTGGGCCTCTGTCATCCTTTGTCCTCTCCTGAATGGACCTGTGTGTTCCTGGCCTCCTGATAGGGCAGTGGTGTCTGGGTCTCAAGCTGGGGGTCCTTCGGGCACCCCGAGGTGGCCTGGGCTTCGCTGCCCCCCGCCCCCCAGCCCGGCATCTGCTCCCCTCCCATATGGTGCCTGCTCCTGTTTGCCGACACCAGGGCCCACGTCAGCAAATGTGCCAGTCTCCCTTCACAGCCTCCCCCGCAGAGATCTCACAGCAGACTCGTCAGCACCCACAAAGCCCCTCCCGCCTGCCCTGGCACTCTCCCTGGCCTTCCGAAGCCTGGCCGCCAGCCTGCCTCTGTTTCTAGGTCCCGGAGTCCTTTCGAGACTGCAGGCAGGAACCTTGTCTCTTTTTCTGTCTAGCTTTGGTGCCAGCTCAGGGCCCCTTATTCCGCGTCGGCGTTGAATCCAGCGGCCAGGTTCCCTGGGGAGGGAAGTGGCTGAGGTCTGGGGCTCCCTGCAGGATCAGACAGATGCTGCCTCGGGGTCCCCAGCTGCCCGGCCTGGCTCTTGTCCACCCAGAGCATATACCTCCACGTCCAGTCTTGCCCCCCTCCCTTGGCAGTTGGAGTCCTGCTCTGTCTCCCTCAGCTCTTCTGTCTCCTCCAAACCCCCTCCTGTCTGGCCCCAGAGTTCCCAGACCCTCTCTCTTCTCTGACCCTTTCCCTCTCCCGCTCCTCGACTCTGGGCCCCCCACACTCTTTGTTTTCTCCGCAG
Seq C2 exon
GTTTCCCAGTTCATGGCGTGCGAGGAGCTGCCCCAAGACGGACCCGCTCGACGCCTCTCCCTGCCGGGCCAGCTGGGGGCCCTAACCTCCCAGCCCCTGCACAGACATGGCTCAGACCCGGGAAGTTAGTGGGGCTGCCCAGTGTGGACACATGGCTCACCCAGGGTTCAGTGCACTGCCTGGGCCCCTCCCCGTGGAGGCCCTGCCCGGGAGGCCCTGGCCGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004078:ENSBTAT00000005328:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.642 A=NA C2=0.929
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGTGCAGACATGGCCAC
R:
AGTGCACTGAACCCTGGGT
Band lengths:
342-1600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]