GgaINT0143837 @ galGal4
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
pleckstrin homology domain-containing family M member 1 [Source:RefSeq peptide;Acc:NP_001026095]
Coordinates
chr27:1592291-1593976:-
Coord C1 exon
chr27:1593742-1593976
Coord A exon
chr27:1593185-1593741
Coord C2 exon
chr27:1592291-1593184
Length
557 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
CCGCCCCCTTTTCCCCCAAGGTC
3' ss Score
9.31
Exon sequences
Seq C1 exon
AATAGGAAGAGTTGGATCTCAGAAGACGATTTCTACAGACCTTCAGCAGGGGAGAGCGATGAAATCCCAGCTGATCCCAACGGCTTTGTGCCGGATGGGGCTGGGGAGGGCCCGACCTCGGGGCTGCTCAGTGCTTTGGATTTGGAAAGGCCGTCCCCACCGCCCTCCCAGGGCCCCAGGCTGTCCCCCGAGCGAGAGCAGAAGGGCTTCAGCGTCGTGCATCGCCGGCAGATGG
Seq A exon
GTACGTGTGCCCCATGGCACTGCTGTGGGTCCGTTTGGGAGCAGTGCATTGCTGAGTGCTGGCAGTGCTGAAAGCCCCACGGGTGGTGCTCCCGTGGCACTGCTGAGCCCATGGGGCACTGCTGGGACGCGTGAGAGGGGATGGGATGCTCCGGGTGCCGCTGTCCCCGTGCAGCACAGATTTCCTTTACACCCTCCCTCTCATCCTTAGCCTCAAAACCAAGAGCCTATGGACCGTGATGGGGCCCAGCAGACTCCTGCCCTGTCCCTTATTCCACTGGAATCCCCTTCCGTATTCCACCAGGATCCACTCCCCATCCCATATTCCACTGGGATCCCCATCTCACGTTCCACCAGGGTCTGCTCCCTGTCTCATATTCCACTGGGATCTGTTCCCCCTCCCATATTCCACCAGGATCCCCATCCCATCTCCCAGCGGGATCCCCATCCCCTATTCCACCGAAGCCTCGGTGCCTGTGTTTGCACGCTGTGAGCCGCCTCCTGGCTCTCCTCCCTCCCCCCTTCGGCTCCCACTGAGCCGCCCCCTTTTCCCCCAAG
Seq C2 exon
GTCTCTCCAACCCATTTCGGGGACTCCTGAAGCTGGGCAGCCTGGAGCGGCGCGGGGCCATGGGCATCTGGAAGGAGTTCTCCTGCGAGCTGTCGCCGCTGGAGCTCCGGCTCTTCCTGGACCACGAGGACCGCATCTGCGTGGAGAGCTTTTCCCTGCTGCGCTGCGAGTCGCTGGCGCTGACGCATTCGGATGGACGCTTCGAGCTGGTGTTCCTGGGGAAAAAGCTCTGCCTGAGGGCTCCTTCCCGGGACGAGGCTGAGGACTGGCTGGATCGGATCCGCGAGGCGCTGCGCAAGGTCCGCCCGCAGCTGGAGGAGGAGGAGTGGGAGACGCTGGAGTACCCCGAGGACGGTGGGGATGGCTGTGAGCCCTCTGCTCCGCTCCAGTATGAAGCACCTGGGAACGGCTTGGACTGGACTTTATCCCACAAAGCAGAGCTGGATGCCATCAAGGAGTCCATTCTGTACGCGGACGTAGATAAGACGTGGGTCCCTTTTATATTTTCCCTCTCACTGGAAACCTTGAAGTGCTTTAAAGTGCGGAACAACGACAAAATCTTGAGCAACAGCTATGGCATAGAGACGATCCAGGACATCCTCCCCGACACCAGCCTGGGGGGACCCTCCTTCTTCAAGGTGATCACCTCCAAAGCTGTGCTGAAACTGCGGGCCGAGAGCGCGCAGGAGGCTGCGGCATGGAGGGAGCTGGTGCGAGCGGTGCTGGGCTCCTACCTGGAGGGAGCCGAGGAGGCACTGACCCTGGGGGGCGGCTTGGACGGCCATTCCCAGGTGCTGCTGAAGAGCATGGTGAAGGAGAACGGCTTCTTGTTGCAGTACCTGGTGGCCATCCCCGTGGAGAAGGGGCTGGACTCGCAGAGCTTCATCTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000000267:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.848 A=NA C2=0.047
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGCGATGAAATCCCAGC
R:
CAGCAGGGAAAAGCTCTCCAC
Band lengths:
346-903
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]