GgaINT0142784 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4504069-4504594:-
Coord C1 exon
chr27:4504387-4504594
Coord A exon
chr27:4504264-4504386
Coord C2 exon
chr27:4504069-4504263
Length
123 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCCTGGGCTGTGCTTGGCAGGCT
3' ss Score
6.03
Exon sequences
Seq C1 exon
ACCTCGCTGGTGCATTTGCTGAAGACGGTGCGCCTGCTGCGGCTGCTGCGGCTGCTGCAGAAGTTGGACCGCTACTCGCAGTACAGTGCCATGGTGCTGACGCTGCTCATGTCTGTGTTCGCACTGCTGGCCCACTGGATGGCGTGCATCTGGTACGTCATCGGCCGCAAGGAGATGGAGAGCAACGACCCGCTGACCTGGGACATCG
Seq A exon
GTGAGTGTGGGCACAGCACTTCTGGCCGCCTCCTGCCTGCAGAGCGCAGCCAGGGCAGGGCTGCGGCTGTGCTGAGTGGTGACTGCCCCTTGGCGAGCGCTGACCCTGGGCTGTGCTTGGCAG
Seq C2 exon
GCTGGCTGCACGAGCTGGGCAAGAGGCTGGAGGCTCCCTACATCAACAACTCAGTGGGGGGGCCCTCCATCCGCAGCGCCTACATCGCCTCCCTCTACTTCACCCTCAGCAGCCTGACCAGCGTGGGCTTCGGCAACGTCTGCGCCAACACTGATGCCGAGAAGATCTTCTCCATCTGCACCATGCTCATTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(32.9=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(31.0=100)
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:
GCAGAAGTTGGACCGCTACTC
R:
GGTGAAGTAGAGGGAGGCGAT
Band lengths:
256-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]