GgaINT0143838 @ galGal4
Intron Retention
Gene
ENSGALG00000000201 | PLEKHM1
Description
pleckstrin homology domain-containing family M member 1 [Source:RefSeq peptide;Acc:NP_001026095]
Coordinates
chr27:1590446-1593184:-
Coord C1 exon
chr27:1592291-1593184
Coord A exon
chr27:1590592-1592290
Coord C2 exon
chr27:1590446-1590591
Length
1699 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
CTGTTCTCTGCTCCCCAAAGGCT
3' ss Score
7.92
Exon sequences
Seq C1 exon
GTCTCTCCAACCCATTTCGGGGACTCCTGAAGCTGGGCAGCCTGGAGCGGCGCGGGGCCATGGGCATCTGGAAGGAGTTCTCCTGCGAGCTGTCGCCGCTGGAGCTCCGGCTCTTCCTGGACCACGAGGACCGCATCTGCGTGGAGAGCTTTTCCCTGCTGCGCTGCGAGTCGCTGGCGCTGACGCATTCGGATGGACGCTTCGAGCTGGTGTTCCTGGGGAAAAAGCTCTGCCTGAGGGCTCCTTCCCGGGACGAGGCTGAGGACTGGCTGGATCGGATCCGCGAGGCGCTGCGCAAGGTCCGCCCGCAGCTGGAGGAGGAGGAGTGGGAGACGCTGGAGTACCCCGAGGACGGTGGGGATGGCTGTGAGCCCTCTGCTCCGCTCCAGTATGAAGCACCTGGGAACGGCTTGGACTGGACTTTATCCCACAAAGCAGAGCTGGATGCCATCAAGGAGTCCATTCTGTACGCGGACGTAGATAAGACGTGGGTCCCTTTTATATTTTCCCTCTCACTGGAAACCTTGAAGTGCTTTAAAGTGCGGAACAACGACAAAATCTTGAGCAACAGCTATGGCATAGAGACGATCCAGGACATCCTCCCCGACACCAGCCTGGGGGGACCCTCCTTCTTCAAGGTGATCACCTCCAAAGCTGTGCTGAAACTGCGGGCCGAGAGCGCGCAGGAGGCTGCGGCATGGAGGGAGCTGGTGCGAGCGGTGCTGGGCTCCTACCTGGAGGGAGCCGAGGAGGCACTGACCCTGGGGGGCGGCTTGGACGGCCATTCCCAGGTGCTGCTGAAGAGCATGGTGAAGGAGAACGGCTTCTTGTTGCAGTACCTGGTGGCCATCCCCGTGGAGAAGGGGCTGGACTCGCAGAGCTTCATCTGCGCAG
Seq A exon
GTAGATGGGGCTGGTTTGCAGTGAGGAACCCAGCTCTGCATTGTGTTCATTCAGGTTAACGAGGTTGTGGTGTTGCCCCTCTGTTGGGCTTCAACCCCAAATTCTGTGCTGTCTTTGGCACACGGAGAATCCCCCAGCACCGAATCTCCGTCCCCATCTCACCCAACGCATCAAACCATGCTCTGCTGGGGTGCTGCCCAAGAGATCTGCAGTGTAGGCAAAAGGTTGGCTGTAAGCAACCTCATTTGGAGCTGATGGACCCCCATGGTGGGCATCCAGTGCCCACAGCCCACAGGGAAGTCATGCTCAAAGGCAATCCCGTGGAGCAGGGCAGTTTTTCCAGTAAGGCTGCTCTGGGTGTGACAGCTGGTTCGTGCAGCACTCGCGTGACCTTCCACCGCCTCCTGGTTTAATGGCATAACACCCACTGACCTCTCTGGGAGCTATAATTTCTTCTGTACCTCGCTAAGATAATTAAGCTTCAGCTTTTCTCATGCTTCAGTTGTGTTTCTCATCCCCTCCAGCAGGTTCTTCCTTAATCTTTTTTCCATATTTTCCATTTTTCGGTCTCTACCTTCCCCCCAGGCTGTGTTCTTCCACCTTCCAACAGAGGGAAGCAGCAAACTGAGGACACCCATCTCCCTTCCCCGTTTCTTTGCTTTGCATTTCCTTAGGTGTCTGCTGCCTTCCAGCCCTGACACCCGTTAGGACAGGAGTGGTTTCCCAGTGTGCCAGGGTAGGAGAAGAAATGTAGGCTTCTTTTTTTGATATGCAACACCCGAGCTCCATAAAACGTCGGCAGTGCACTGCAGATTGCAAATAAGTGAATGTTGAAGCTTTCTGGAGGGTGATGGGGTGGCCCTGGCTCTTCCTGGGGCAGACACAGACCCACCGACGCCGTCTGGGTTGTTTTAGAGAAGTGAACCCATTAAAAATAGCACCCAGAGTTTTCCTGTCTTCACGACTCCGTTCAGATGGAGCAGCTGTTCAGAGCACTGTAGCTCTCCCCCAGGAGCTGAGCCAGGTTCCCCTGGCTGCAAACACCTCAGTGTTTGCTTCTCCCATCCCCAGGCGATGGGGTGGGCGGGTGGAATGTAGGTTGTGCCCTACACTGCTGTGATGTCCCAAAAGAAGGGCAGGGGGAATAAACAAACACTTTAAACCCATAGTCATAGAACAGCACAGTTTGGAAGGGACCTCAAAGATCATAGAACCATGGAATGCAGCATGGTTGGGTTGGAAGGGACCTTAATGATCACAGAATCATGGAATTGTTAGGTTGGATTGAGTAGGGTTGGGTTGGCAGGGAGCTTAATGATCGTAGAACCATGGAATGGTTGAGTTGTGTTGAGTAGGGTTGGGTTGGGTTGAGTAGGGTTGAGTTGGAAGGGACCTTAGGGATCATAGAACCATGGAATGGTTAAGTTGGGTTGAGTTGTGTTGAGTAGGATTGGGTTGGAAGGGACCCTGAAGATCATCTAAATAATTTATGGATTAAAAGTGGGATGGGTTCAGGAATGATCACGATGCCTTGTGTATGAAGTTGGTCAGTCATGGTCTAACTTAACCCCGAGCCCCCTGGCCCATGCTTTACCCAATGTCCACCCCGTTCCCAGGTTTTCCTGCCCCATGTCTCACCCCACATCTTCCCCCCAGGCCAAGGGGTCCCCTTTCACCTCCTGTTCTCTGCTCCCCAAAG
Seq C2 exon
GCTGCTCCAGGCAGATCGGCTTCTCCTTCGCCAAACCCAAACTCTGTGCCTACTCCGGGCTCTACTACTGCGACAGCTGCCACCGGGACGACGAGACGGTCATCCCCTCACGCCTCATCCACAACTGGGACCTGAGCAAGAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000201:ENSGALT00000000267:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139011=DUF4206=PU(17.2=71.4)
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:
AGACGATCCAGGACATCCTCC
R:
GTTTGGGTTTGGCGAAGGAGA
Band lengths:
354-2053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]