BtaINT0079574 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30453080-30453842:-
Coord C1 exon
chr5:30453561-30453842
Coord A exon
chr5:30453280-30453560
Coord C2 exon
chr5:30453080-30453279
Length
281 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCCTCTGCCCCCCTCCCCAGCCC
3' ss Score
10.48
Exon sequences
Seq C1 exon
GCTGGCTGCAGGAGCTGGCCCGCCGACTGGAGACCCCCTACTACCTGGTGGGCCGGAGCCCTGCCGCAGGGAACAGCTCGGGCCAGAGTGACAACTGTAGCAGCAGCTTCGGCGAGGCCAACAGGACCGGGCCTGAGCTCCTGGGCGGCCCCTCACTGCGCAGCGCCTACATCACCTCCCTCTACTTCGCGCTCAGCAGCCTCACCAGCGTGGGCTTCGGCAACGTGTCCGCCAACACGGACACGGAGAAGATCTTCTCCATCTGCACCATGCTCATCGGCG
Seq A exon
GTGAGGCCTGCCCCGCTTCCGGTCCAGGGCCCCGTCCCAGACTCATGACCTCGGCCATGCCCCGGCCTCCCCACCCCCAGCAGGGTCCCCAGGTCCTTCCCCGAGGTGCGTCTGCCTTAGAGGAACAGGGAACCCGAGGCCAGGGCCGGGAGAGGCCACACGGCAGCCGGGGCCTCGCCTAGCGTGGGGGCGGAGTGGGAGCTGGGGGGACAGGTGTGTCCAGCACGTGGCTGGCCGGGCTGGGCAGGTCCTGGAGGTGACCCCTCTGCCCCCCTCCCCAG
Seq C2 exon
CCCTGATGCACGCGGTGGTGTTTGGGAACGTGACGGCCATCATCCAGCGCATGTACGCCCGCCGCTTTCTGTACCACAGCCGCACCCGCGACCTGCGCGACTACATCCGCATCCACCGCATCCCCAAGCCCCTCAAGCAGCGCATGCTCGAGTACTTCCAGGCGACCTGGGCGGTGAACAACGGTATCGACACCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277:ENSBTAT00000025668:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(39.3=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.2=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:
ATCACCTCCCTCTACTTCGCG
R:
TGTCGATACCGTTGTTCACCG
Band lengths:
304-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]