BtaINT0079562 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019277 | KCNH3
Description
potassium channel, voltage gated eag related subfamily H, member 3 [Source:HGNC Symbol;Acc:HGNC:6252]
Coordinates
chr5:30461275-30463019:-
Coord C1 exon
chr5:30462944-30463019
Coord A exon
chr5:30461509-30462943
Coord C2 exon
chr5:30461275-30461508
Length
1435 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
TGAGAGGTGCTCTCTTGCAGATA
3' ss Score
6.93
Exon sequences
Seq C1 exon
ATGCCGGCCATGCGGGGACTCCTGGCGCCGCAGAACACCTTCCTGGACACCATCGCCACGCGCTTCGACGGCACGC
Seq A exon
GTGAGTCCCGACCCTCGTCCCACTATCTCCCGGACCAGCTGTCCCTAGCCAGGGTTCCCTCTAGTCCAGTACCCTGACATCTCAGACTGGAGCCCTCCTGCTCTCGCCTTCCCTTCCCCGAGCCCCACTTTAAGCTGGGACCACCGTCTCCTTTCAGATGCCGTTTCTGAAAAATTCAAAGTCAACGCTGCCCCAGACCAGGCGAAATGACTAGAACTCTCAGTCTGGGAGCCGGGCATGCTCTCTGTGCCTGGGGGAGAGAACCCGGAGCTACTTAATCTAATCTATCCCATCCCTGCGTCTGGCGCTGTCCCATCGACTACCCTCGAACTGGCAGGTTGGGGAGTGAGGCAAGGAAGCGTCAAGAGACAGCCCAGAGGCTTAAAAAACTGCTGTAGAAAAGAGGTTTGCAAACCAGGATAGAGTAAACCGGTCTCCGGAGAGCACTGTTGGTTCAAGCTCACCTCACTGCCTAAACCCACTGAGCCCGTCTATCCCCAAATAGACAGGTTTGGGGACTCCCACCAAGACTGGGGAAGTTTGGAGAAGGCAACCAGAGTTCTGAATTATGGTTTTCTATGGCTCTGAACCCTGGAAAGTCGTGAAAGCTCCCTTCCTTCTCCTCCTCCCTCAAACTACCGCCACCCACCCCCACCCCCCACCACCCCGCAGTGGGGCTTCCCAGCTCTCTACCTCAGTCTCTGGCTCCTCATAGAGGGTGGAAGCCCCTCTCTGAGGACCCCTTCAGGCTTCTCCCTCTGCTTTGCCTGCACTTGGCTCCCGTAGCCTGCTGATTCAGTGCCCCCCACCCCCCAATACGTTCCTGGCTCCAGGCTGCCAGAGCTCAGCTACCGTCCTTACACCCCCATTGTGGATCACATTCACTAACTCCCGAGCCAGGTCAGGCAGCTGGGGCTCAGGCAGAGTGCAGAATAGATGATGGCTTGAATCGCCTTTCCCAGCGAGGCTCAGTGGGAGGAGCCAAATGGTCCACCTGAGCACCTGGCAGGTGAGGGAACCTGGCCGAGGCTGGGGTGGGGCTGAGGCGGTCCTAGAACTGGTCCTGCAGTTCTCCTGCAGACATCCCCAGTCCCACTCCTTACCCCTGGCTGGTCAGCTCACACTCCAGAGAGCAGAGCACCCACACAGGGCTGCGTTCACCAGCCTCAGGGCTCAGGTATGCCGATTCTCAAATACACTTACACACGATGCTAAGAATGGGTCCTTGCAGGGCACTGACACACAGGCGACATCCTAACTCCAGTTCATGAACAGCTCCTGTCCTAACCCTCCCCCAGCCCCCCAGCCCAAACACTCGCAGGCAGGAGTCCCAAGATTGTCACACCCCCCCTTTGATGGCAGGCAGTGTTAAAGGAAGGCAGTAGACCTCGTGTCCCTTCACCACACACCCGCTCTGAGAGGTGCTCTCTTGCAG
Seq C2 exon
ATAGTAACTTCGTGCTGGGCAACGCCCAGGTGGCGGGGCTCTTCCCCGTGGTCTACTGCTCTGATGGCTTCTGTGACCTCACGGGTTTCTCCCGGGCCGAGGTCATGCAGCGGGGCTGCGCCTGCTCCTTCCTCTATGGGCCAGACACAAGTGAGCTCGTCCGCCAACAGATCCGCAAGGCCCTGGATGAGCACAAGGAGTTCAAGGCTGAGCTGATCCTGTACCGGAAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019277:ENSBTAT00000025668:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.1=94.9),PF051168=S6PP=PU(60.7=68.4)
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:
CCATGCGGGGACTCCTGG
R:
ACTCTTCCGGTACAGGATCAGC
Band lengths:
302-1737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]