GgaINT0142779 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4506389-4506850:-
Coord C1 exon
chr27:4506617-4506850
Coord A exon
chr27:4506521-4506616
Coord C2 exon
chr27:4506389-4506520
Length
96 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTTTCCTCTCCTCCCCACAGGAG
3' ss Score
13.7
Exon sequences
Seq C1 exon
ACAGCAATTTCATCCTGGCCAACGCTCAGGTCCGCCGTGGCTTCCCCATTGTCTACTGCTCTGACGGCTTCTGCGACCTGACCGGCTTTGCCCGCACCGAGGTGATGCAGAAGAACTGCAGCTGCCGCTTCCTGAGTGGGGCTGAGACCAGCGAGCCCGTCCTGCAGCGCATTGAGAAGGTGCTGGAGGGCAAGCAGGAGCAGCAGGCAGAGGTCTGCTTCTACAAGAAGGGTG
Seq A exon
GTGAGTGGCACGGAGTGCGGGGCCCGTAGGCAGCTCTGGACAGAACTCAGTCCTCGGAGGGGCTGTCCTGCCTACCCTTTCCTCTCCTCCCCACAG
Seq C2 exon
GAGCTGCATTCTGGTGCCTGCTGGACATTATGCCCATCAAGAACGAGAAGGGGGAGGTGGTGCTCTTCCTCGTCTCCTTCAAGGACATCACAGAGAGCCGGGGCAAGAGCCATCCAAGTGACAAAAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:2
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=0.244
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PU(70.6=97.5)
A:
NA
C2:
PF134261=PAS_9=PD(28.4=68.9)
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:
CGCATTGAGAAGGTGCTGGAG
R:
CGGCTCTCTGTGATGTCCTTG
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]