GgaINT0142997 @ galGal3
Intron Retention
Gene
ENSGALG00000000505 | KCNH6
Description
NA
Coordinates
chr27:2605466-2606415:+
Coord C1 exon
chr27:2605466-2605718
Coord A exon
chr27:2605719-2606221
Coord C2 exon
chr27:2606222-2606415
Length
503 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGAA
5' ss Score
-2.76
3' ss Seq
CAAGCTGTCTCTTTGTGCAGGGA
3' ss Score
8.09
Exon sequences
Seq C1 exon
GTGCTGAAGGGCTTCCCTGACTGCCTGCAGGCAGACATCTGCCTCCACCTCAACCGCACACTGCTGCAGAACTGCAAGGCTTTCCGAGGAGCCAGCAAAGGCTGCCTGCGTGCCCTGGCCATGAAGTTCAAGACGACCCATGCACCGCCTGGAGACACCCTGGTGCACTACGGGGATGTCCTCACCACCCTCTACTTCATCTCCCGGGGCTCCATTGAGATCCTCAAGGAAGACATTGTGGTTGCCATCTTAG
Seq A exon
GTGGAAAAGTCTGTCCTTCTGGGAGGGCAAGGGGTGAAGGGCGATGGATGAAGGACAATGGGAAATGGACAGAGTGCTAGACAGAGGGTGGTGAACAATGGACAGAGGGTGGCAGGTGAAGAAGGAAGGACTTCTCCAAGTCCTGGAGAAATTAAGGTTGTTTGTTCTTGATCATCTCAGTGGTCACCGTACCAGTGGTCCTGGGATGGGGGATTCTCTTTAAATGCTGGGGAAAGACCCCAAAGGACTGAAGGTAGTATGGCTCAGCAGTCATGGCTCAGCAGCCCTCAGAAGGGCATGGCTCAGCAGTTCCCAGCGGTCACAGATGACCCACTGCTCTGCTCAGTCTCCCCATCAGCAATGGCTTTCATGGTGGAATCCCCCACTCCGCTGTCAGGGTTTCTGGGCATCCACTTGTCCACAAGCCCACATGTAAGGGCTCCTGGTCCAGTGGAGTTGGGATGGACACCCACCTATCTCTAACAAGCTGTCTCTTTGTGCAG
Seq C2 exon
GGAAGAACGACATCTTTGGGGAGCCCATCAGCCTCTATGCCCGTCCAGGGAAGTCGAATGCCGATGTGAGGGCCCTGACCTACTGCGATTTGCACAAGATCCAGCGGGAGGATCTGCTGGAGGTCTTGGACATGTACCCAGCCTTCTCTGACAACTTCTGGAGCAACTTAGAGATCACCTTCAACCTGCGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000505:ENSGALT00000031464:6
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:
PF0002724=cNMP_binding=PU(63.5=47.1)
A:
NA
C2:
PF0002724=cNMP_binding=PD(53.4=72.3)
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:
AGAACTGCAAGGCTTTCCGAG
R:
AGTTGTCAGAGAAGGCTGGGT
Band lengths:
342-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]