GgaINT0142783 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4504387-4504938:-
Coord C1 exon
chr27:4504781-4504938
Coord A exon
chr27:4504595-4504780
Coord C2 exon
chr27:4504387-4504594
Length
186 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
CCCTCCTGCCTGCCCCTCAGACC
3' ss Score
9.43
Exon sequences
Seq C1 exon
ACATCATCCTGAATTTCCGGACGACGTATGTGAGCCACTCAGGCCAGGTGGTGTATGAGCCCCACTCCATCTGCATCCATTACGTGGCCACCTGGTTCTTCGTGGACCTGATTGCCGCGCTGCCCTTCGACCTGCTCTACATCTTCAACGTGACTGTG
Seq A exon
GTGAGAGCGGGGAGAGGGGCTCTATGGCTGCACAGTGGGGAGCGCCTCCCAACCCATTCTATAGCCCACGACCCTCCTGCAGTCATGGAGAGCGGTGGAGGGTCTCTGCCCCAGGGAGTGGGGGGGGGAGTCCTTCCCAGCCCTTCCTGCAGCTCTGCCAGGTTCACCCTCCTGCCTGCCCCTCAG
Seq C2 exon
ACCTCGCTGGTGCATTTGCTGAAGACGGTGCGCCTGCTGCGGCTGCTGCGGCTGCTGCAGAAGTTGGACCGCTACTCGCAGTACAGTGCCATGGTGCTGACGCTGCTCATGTCTGTGTTCGCACTGCTGGCCCACTGGATGGCGTGCATCTGGTACGTCATCGGCCGCAAGGAGATGGAGAGCAACGACCCGCTGACCTGGGACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:6
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(24.8=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(32.9=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:
CGACGTATGTGAGCCACTCAG
R:
AACACAGACATGAGCAGCGTC
Band lengths:
256-442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]