GgaINT1015900 @ galGal4
Intron Retention
Gene
ENSGALG00000027043 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr2:333608-334132:+
Coord C1 exon
chr2:333608-333860
Coord A exon
chr2:333861-333938
Coord C2 exon
chr2:333939-334132
Length
78 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CGCCCCAATCCCTCCCCAAGGGA
3' ss Score
5.02
Exon sequences
Seq C1 exon
GTGCTGAAGGGATTCCCCGAGTGCCTGCAGGCCGACATCTGCCTGCACCTGAACCGCAGCCTGCTGCAGAACTGCAAGCCCTTCAAGGGAGCCACCAAGGGCTGCCTGCGCGCCCTGGCCATGAAGTTCAAGACGACGCACGCTCCGCCCGGGGACACGCTGGTGCACGCCGGCGACGTGCTGACCGCGCTCTACTTCATCTCGCGTGGCTCCATCGAGATCCTGCGTGGCGATGTGGTGGTGGCCATCCTGG
Seq A exon
GTGAGCCCTGGGCCAGGGTGGTGACGTGGCCGTGCGTCCCCGCCGTGGGCTGACCCCGCGCCCCAATCCCTCCCCAAG
Seq C2 exon
GGAAGAACGACATTTTTGGGGAACCGCTGAACCTGTACGCGCGGCCGGGGAAGTCCAACGCCGACGTGCGCGCGCTCACCTACTGCGACCTGCACAAGATCCACCGCGAGGACCTGCTGGAGGTGCTGGACATGTACCCCGAGTTCTCCGACCACTTCTGGTCCAGCCTGGAGATCACCTTCAACCTGCGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027043:ENSGALT00000045642:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(45.5=47.1)
A:
NA
C2:
PF0002724=cNMP_binding=PD(53.4=72.3)
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:
CCCTGGCCATGAAGTTCAAGA
R:
TCAGCGGTTCCCCAAAAATGT
Band lengths:
171-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]