GgaINT0143001 @ galGal3
Intron Retention
Gene
ENSGALG00000000505 | KCNH6
Description
NA
Coordinates
chr27:2607095-2607842:+
Coord C1 exon
chr27:2607095-2607273
Coord A exon
chr27:2607274-2607580
Coord C2 exon
chr27:2607581-2607842
Length
307 bp
Sequences
Splice sites
5' ss Seq
CAGTTGGGA
5' ss Score
-1.8
3' ss Seq
GGGTGGTGGCTTTCCATGAGCAC
3' ss Score
-11.69
Exon sequences
Seq C1 exon
ACCAGTGACGATGAGGCCAAGCCTGGCAGCCCCACAAAAGCTGAGCCCTTCCCCCTGTCCAAAAAGGACGACTTTGCCCTGCCAGCACTCAGCCTCGTCACCGCCAGCGCCAGTGGCACAGAGGTCAGCAAGCAGGCGGCAGAGAGCAGCCAGTCCTATGCAGGTACCCACATCTGCAG
Seq A exon
TTGGGAGGATGGGGCTGAGGGTTGCTTGGGCACAGTGGCCTCACGTTGGGGCAGAGCTAAACAACTCACAGATTTGAGGGCAATCATGCTCCTGGCCAATGGTCTTTGCTGCCTTTTGTCCACAGTAGTGTTTGCTCTGTGCTTCCAATGCCCTGGGGTTTTGCCTCATCTCTGGGGACTTCTTTGGATTTCCCCCCAGGGGACTCATAGGTGTGTTGGGTAGCAGTGTGATGGACTGCCTACGAGCACTTTGGGTGCTAGGGTGATGGACTCTCCCATGTATGTCAGGGTGGTGGCTTTCCATGAG
Seq C2 exon
CACACTGGGTGATGGACCCTGGAGCATCGACAGCATGGGGGATGCAAGTCCAAGGTGCTGAGGGGTCTCCTCTTCTTCCAGCCACCCCCCTGGACATCCCCAATATGTTCACCTTCTGGGAGGATCAAAGGCCAAACCATCACCCGGAGCCCCTACAGCATGTCTCCTTGGTGCACAGCTCACGGGACATCCCCCTGCACAGCGACTACAGACCAGGACAGATTGAGTCCAGGCTGGAGCTCCTGCAGGCCCAGCTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000505:ENSGALT00000031464:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.648
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCCCCCTGTCCAAAAAGG
R:
TCTGTCCTGGTCTGTAGTCGC
Band lengths:
355-662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]