GgaINT0142998 @ galGal3
Intron Retention
Gene
ENSGALG00000000505 | KCNH6
Description
NA
Coordinates
chr27:2606222-2606719:+
Coord C1 exon
chr27:2606222-2606415
Coord A exon
chr27:2606416-2606619
Coord C2 exon
chr27:2606620-2606719
Length
204 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
CCAGTTCCTCTGTCCCTCAGGCA
3' ss Score
8.1
Exon sequences
Seq C1 exon
GGAAGAACGACATCTTTGGGGAGCCCATCAGCCTCTATGCCCGTCCAGGGAAGTCGAATGCCGATGTGAGGGCCCTGACCTACTGCGATTTGCACAAGATCCAGCGGGAGGATCTGCTGGAGGTCTTGGACATGTACCCAGCCTTCTCTGACAACTTCTGGAGCAACTTAGAGATCACCTTCAACCTGCGAGAT
Seq A exon
GTGAGTGCCAGTGTTGTCCCAGGGATGAATGCTGTCAACACCTTAAATTTGGCAAGTGGGAGAGCTGAAGTGAGGATGCCAACCTGTGCTCCTCACCCCATTTGGTGATGAATTGATCAACAGCCACGTTGCCCAGCCCACTCCATGAGTTCATGGTTTCCCACGGGCACCCTTGCCTTGCTGACCAGTTCCTCTGTCCCTCAG
Seq C2 exon
GCAGACAGTGTTCCCCGCACACCGCTCAGTGAGGAGTACGACTGCACCTACCGACGTGTGCGCCGACGCAAGCACTCCCTTTGTCAGCCCAACAAGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000505:ENSGALT00000031464:7
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=0.324
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGAACGACATCTTTGGGGA
R:
GGCTTGTTGGGCTGACAAAGG
Band lengths:
292-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]