GgaINT0142785 @ galGal4
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr27:4851229-4851759:-
Coord C1 exon
chr27:4851565-4851759
Coord A exon
chr27:4851429-4851564
Coord C2 exon
chr27:4851229-4851428
Length
136 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CACTGCCCCCTGGTACCCAGCGC
3' ss Score
3.19
Exon sequences
Seq C1 exon
GCTGGCTGCACGAGCTGGGCAAGAGGCTGGAGGCTCCCTACATCAACAACTCAGTGGGGGGGCCCTCCATCCGCAGCGCCTACATCGCCTCCCTCTACTTCACCCTCAGCAGCCTGACCAGCGTGGGCTTCGGCAACGTCTGCGCCAACACTGATGCCGAGAAGATCTTCTCCATCTGCACCATGCTCATTGGGG
Seq A exon
GTGAGGCGGGTACCCGGGCAGGGAGGAGATGGGGTTGCAACTACACAGCTGCATCCTTCAGCCCCACAGTGCCACCGAGCACAGCCCCTCCTGACCCTGGCCCCCCTGTGGGCTGACACTGCCCCCTGGTACCCAG
Seq C2 exon
CGCTGATGCACGCCGTTGTCTTTGGCAACGTCACGGCCATCATCCAGCGCATGTACTCGCGCCGCTCGCTCTATCACACCCGCATGAAGGACCTCAAGGACTTCATCCGCGTGCACCGCCTGCCCCAGCAGCTCAAGCAGAGGATGCTGGAGTACTTCCAGACCACCTGGTCGGTGAACAACGGCATAGATGCTAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:8
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(31.0=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.8=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGCCTCCCTCTACTTCACC
R:
CATCCTCTGCTTGAGCTGCTG
Band lengths:
258-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]