GgaINT0143842 @ galGal3
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
NA
Coordinates
chr27:1491231-1492533:-
Coord C1 exon
chr27:1492470-1492533
Coord A exon
chr27:1491384-1492469
Coord C2 exon
chr27:1491231-1491383
Length
1086 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACCCCATCCGCGCTCTGCAGATC
3' ss Score
8.93
Exon sequences
Seq C1 exon
CCTCGATCACAGGAACTACCTCCTGGAGTGTCCCCACAAGTACAGCGTGGCCGACCTGCAGCAG
Seq A exon
GTGAGCACCCCGTGCCGTGCTGGTGGGTGCCCCCCTGGAGGGGCTGCGTCCAATGGGACCCTTCTCCAGCAGCAGATTTCACAGCGCTCCGCTCCTCTTCGCTTCCTGTCATCACCACAGCTTAGGGGCTAAAATCATGGGGTGGGGTGGGGTGGGGTGGGGTGGGGTGGGATGGGGTGGGTTGGAATGGGGTGGGGTGGGTTGGGAAGGGGGTGGGATGGAGTGGGGTTGAAATGGGATTGGTTGGGATGGGATTGGGGTGGGTTTGCGTTGAGGTGGGATGAGGTTGGGATGGGATGGGTGGAGTTGAGAGGTTGGATTGGAGTGGGATGGGATGGGATGGGATGGGATGGAGTTTGGTTGGAGTGGGATGGGGTGGGTTGAGTGGTATGGGAATGGGATGGGTTGTTGGATGGGGTTGTGTTGGGATTGGTTGGGGTGGGATGGGATGGGATGGGATGGGATGGGATGGGATGGGATGGGATGGGATGGGATGGATGGAGTTGAATGAGGTTGGGTTGGAGTGGGATGGATCAGGATGGAGTGGGTTGAGTGGGGGTGGGTTGGGATTGCATTGGGGTGGAATGGGTTGAGTGGGAATGGGATGAAATGGGATTGGGTTGGGATGGGATTGGGTTGGGATTTTTTTGGGATGGTGTTGAGGTGGGATGGGGTTGGGATGGAATGGATTGGAGTGGGTTGAGGGGTGTGAGGGTGGGGTTAATTGGGATGGTGCTGTGGTTGGATGGGATTGGGATGGGACGGGGATGGGAGGGGACTGGGATGGGTGGGGTAGAGTGGGATTTGGATGGGATCGGGTTGGGGTGGGTGAGACTGGAGTGGATTGGGGTGAGATGGGATGGGTTGGGGGGACCTCGTGCTCCAGGAGCTCCAGGAGAACCATTTCACCCCCGTGTGCCCCAACACTGCTGCACCACACAGAACTGCGCCCCAAATGGCGCTCAGTGCGTTCTGCAGCTGAATATCACTGACCCCAAAGCCGTGAGCCCCACGCGGGCACACGGGGCTGCCGAGGCCGTGGGGGACTCTTTGTCTGCAGAGGATGACCCCATCCGCGCTCTGCAG
Seq C2 exon
ATCTCCGACGGCGCCTTCGAGCCCTTCCTGCTCTCCCTGACCCACTTCGCGTCCCACCACGTCTACAGCTGCGATCTGTGCACGCAGCGCGGCTTCATCTGCCAGATCTGCGAAGGCAGCGACATCATCTTCCCCTTCCAGCTGGACTCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000040720:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=FE(18.5=100)
A:
NA
C2:
PF139011=DUF4206=FE(28.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCGATCACAGGAACTACC
R:
CCAGCTGGAAGGGGAAGATGA
Band lengths:
209-1295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]