BtaINT0079571 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30458313-30459083:-
Coord C1 exon
chr5:30458840-30459083
Coord A exon
chr5:30458471-30458839
Coord C2 exon
chr5:30458313-30458470
Length
369 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGT
5' ss Score
9.22
3' ss Seq
CCCGCCCTGACTTCCCACAGATA
3' ss Score
10.66
Exon sequences
Seq C1 exon
GGGGTGTTTGGGGAGAAGCCAAATCTGCCTGAGTACAAGGTAGCCGCCATCCGGAAGTCGCCCTTCATCCTGCTGCACTGTGGGGCGCTGAGGGCCACTTGGGATGGCTTCATCCTGCTGGCCACCCTCTACGTGGCTGTCACCGTGCCCTACAGCGTGTGCGTGAGCACAGCCCGGGAGCCCAGTGCCGCCCGTGGCCCCCCCAGTGTCTGCGACCTGGCCGTGGAGGTCCTCTTCATTCTCG
Seq A exon
GTATGTGCACTCTGCGTCCCACCCCTGGCGACCCCCGGGCTTTGGTGGGGATAGTCTGCATGGCTTCCACTGCCCCCTGCTGTCCCCCTGGCCCTCCCTTTGTTTATGACCCGTGGCCTTTGAAATAGGACCACGGGTCCATATGTCCCCACTGCTAATGGGTCACTTGACCGCGACCGAGTCATAGCCTCTCCAAGCCTGTTTCTCCCATCATCAAATAGGCATAACAGTACCTACCCTTTGCAGTTACTGTGAAAACTAAGACGATGCATATAAAGGGCCCAGGCCAGTGTCACATACTGAGCCAGGGGCCCAAAAAAGTGTGGCTTCTCCCCAACCCACGCTGAGTCCCGCCCTGACTTCCCACAG
Seq C2 exon
ATATTGTGCTGAATTTCCGTACCACGTTCGTGTCCAAGTCAGGCCAGGTGGTGTTTGCCCCCAAGTCCATTTGCCTCCACTACGTTACCACGTGGTTCCTGTTGGATGTCATTGCAGCGCTGCCCTTTGACCTGCTGCACGCCTTCAAGGTCAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277:ENSBTAT00000025668:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(5.0=14.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(21.8=100)
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:
GGTGTTTGGGGAGAAGCCAAA
R:
ACATCCAACAGGAACCACGTG
Band lengths:
351-720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]