GgaINT1015898 @ galGal4
Intron Retention
Gene
ENSGALG00000027043 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr2:332405-333534:+
Coord C1 exon
chr2:332405-332792
Coord A exon
chr2:332793-333334
Coord C2 exon
chr2:333335-333534
Length
542 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CCGCTCCTCGCCCCGCGCAGCCC
3' ss Score
6.92
Exon sequences
Seq C1 exon
ACCACCACACTGATCGGGCTGCTGAAGACGGCGCGGCTGCTCCGCCTGGTGCGGGTGGCCCGCAAATTGGACCGGTACTCTGAGTACGGGGCAGCCGTGCTCTTCCTGCTGATGTGCACCTTCGCGCTGATCGCGCACTGGCTGGCCTGCATCTGGTACGCCATCGGCAACGTGGAGGGGCAGCGCATCGGCTGGCTGCACTCGCTGGGCGACCAAATCGGCAAGCCACTGAATGACAGCAACCCCCTGTATGGCCCCACCATCAAGGACAAGTACGTCACGGCGCTCTACTTCACCTTCAGCAGCCTGACCAGCGTCGGCTTCGGCAACGTCTCACCCAACACCAACTCTGAGAAGATCTTCTCCATCTGTGTCATGCTCATCGGCT
Seq A exon
GTGAGTGCAGTGCCTGGCGGGGGGGGGGGGGATGCGCTGGGGGGCGTTTTCAGGGCAGGGTGTGAACATGTGTGGCCGAACACGTGTGTGTTTCTGTACTGTGAGAGTGGGGAGGTGCTGGAACAGCTGCCCAGAGAGGCTGTGGATGCCCCGTCCATCCCTGGAGGTGTTGAAGGCCAGGTTGGATGGGGCCCTGGGCAGCCTGGGCTGGTATGAAATGGGGAGGTTGGTGGCCCTGCCTGTGGTGGGGGGTTGGAGCTCCATGATCCCTGAGGTCCCTTCCAACCCAACCATTCTGTGACTCCATGTGTGTGTGTCACTGTGCTGCAGATCATGCACCCATCTGTCTGAGTGTAGGTGTGAGCATGCACGTGAGTGCTGCCCCCAACCCAGCACCATTCCCAGCTCAACATTTGGCACGTGGAGAGCCCGCTGCTGTGCACACTGTGTGTGTCTGTGTGTGTGGGTCCCACCGTGGTGTGGGGTCTGTGGGGCACCGCTATCCACCACCCCGTGCCCTCACCGCTCCTCGCCCCGCGCAG
Seq C2 exon
CCCTGATGTACGCCAGCATCTTTGGGAACGTGTCGGCCATCATCCAGCGCCTGTACTCGGGCACGGCGCGCTACCACACGCAGATGCTGCGCGTCCGCGAGTTCATCCGCTTCCACCAGATCCCCAACCCGCTGCGCCAGCGCCTGGAGGAGTATTTCCAACATGCCTGGTCCTACACCAATGGCATCGACATGAACGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027043:ENSGALT00000045642:3
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:
PF0052026=Ion_trans=FE(62.6=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.9=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:
CTTCCTGCTGATGTGCACCTT
R:
GAGTACAGGCGCTGGATGATG
Band lengths:
345-887
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]