GgaINT0143836 @ galGal3
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
NA
Coordinates
chr27:1497444-1497982:-
Coord C1 exon
chr27:1497936-1497982
Coord A exon
chr27:1497679-1497935
Coord C2 exon
chr27:1497444-1497678
Length
257 bp
Sequences
Splice sites
5' ss Seq
ACATGTAGA
5' ss Score
-19.64
3' ss Seq
TTGCATCCCTTTTATAACAGAAT
3' ss Score
6.6
Exon sequences
Seq C1 exon
GCTGGAGATCTCCAAGGCCAACCCCAACCCATCCCACTCTGCCCACA
Seq A exon
TGTAGAATCATTCAGGCTGGAGAAGACCTCCAAGATCTCCAAATCCATCCATCCACCCAAATCCTTCCCCCCACGCCCACCAAACCACGTCCCCATATGCCACATCTGCACATTTCGTGTCCCTGCACTGCAGCACACAGCCTGGATGTGCCCAAGCAGCCCGGATGGCTGCGCCGGGTGTGCACGGGGTCACGGTGGCTGTGTGTGTTTGAGTTGGTTGATGGATATTTGGATCTGTTGCATCCCTTTTATAACAG
Seq C2 exon
AATAGGAAGAGTTGGATCTCAGAAGACGATTTCTACAGACCTTCAGCAGGGGAGAGCGATGAAATCCCAGCTGATCCCAACGGCTTTGTGCCGGATGGGGCTGGGGAGGGCCCGACCTCGGGGCTGCTCAGTGCTTTGGATTTGGAAAGGCCGTCCCCACCGCCCTCCCAGGGCCCCAGGCTGTCCCCCGAGCGAGAGCAGAAGGGCTTCAGCGTCGTGCATCGCCGGCAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000040720:7
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=0.882
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCTCCAAGGCCAACCCC
R:
CATCTGCCGGCGATGCAC
Band lengths:
277-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]