Genomic Location: sc0000161_pilon:908910...918808
NR annotation: XP_029192309.1, lissencephaly-1 homolog [Acropora millepora]
Species Acropora microphthalma · all data for this species · gene families
| CDS |
| amic_s0161.g84.t1 |
| Transcript |
| amic_s0161.g84.t1 |
| Protein |
| amic_s0161.g84.t1 |
| UniProt accession | Description |
|---|---|
| A7S338 | Lissencephaly-1 homolog OS=Nematostella vectensis OX=45351 GN=v1g242515 PE=3 SV=1 |
| C3XVT5 | Lissencephaly-1 homolog OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_59218 PE=3 SV=1 |
| Q4RJN5 | Lissencephaly-1 homolog OS=Tetraodon nigroviridis OX=99883 GN=pafah1b1 PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006874 (this species only) · gene tree & orthology |
| Ubiquitin family | UBD|Other|Beta-prp · all ubiquitin genes in this species |
| Ubiquitin family | E3|E3 adaptor Cullin RING|CDC20 · all ubiquitin genes in this species |
| Ubiquitin family | E3|E3 adaptor Cullin RING|DWD · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00400 all species → | WD40 | WD domain, G-beta repeat | Repeat | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR019775 all species → | Conserved_site | WD40 repeat, conserved site | Interproscan |
| IPR001680 all species → | Repeat | WD40 repeat | Interproscan |
| IPR036322 all species → | Homologous_superfamily | WD40-repeat-containing domain superfamily | Interproscan |
| IPR050349 all species → | Family | WD repeat LIS1/nudF dynein regulation | Interproscan |
| IPR006594 all species → | Conserved_site | LIS1 homology motif | Interproscan |
| IPR020472 all species → | Repeat | G-protein beta WD-40 repeat | Interproscan |
| IPR017252 all species → | Family | Dynein regulator LIS1 | Interproscan |
| IPR037190 all species → | Homologous_superfamily | LIS1, N-terminal | Interproscan |
| IPR015943 all species → | Homologous_superfamily | WD40/YVTN repeat-like-containing domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR44129 all species → | WD REPEAT-CONTAINING PROTEIN POP1 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0000132 all species → | Biological Process | establishment of mitotic spindle orientation | Interproscan |
| GO:0000776 all species → | Cellular Component | kinetochore | Interproscan |
| GO:0005635 all species → | Cellular Component | nuclear envelope | Interproscan |
| GO:0005875 all species → | Cellular Component | microtubule associated complex | Interproscan |
| GO:0005881 all species → | Cellular Component | cytoplasmic microtubule | Interproscan |
| GO:0007097 all species → | Biological Process | nuclear migration | Interproscan |
| GO:0031023 all species → | Biological Process | microtubule organizing center organization | Interproscan |
| GO:0047496 all species → | Biological Process | vesicle transport along microtubule | Interproscan |
| GO:0051010 all species → | Molecular Function | microtubule plus-end binding | Interproscan |
| GO:0070840 all species → | Molecular Function | dynein complex binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K16794 | PAFAH1B1, LIS1; platelet-activating factor acetylhydrolase IB subunit alpha | - | Exosome | ko04147 | deepkoala |
Genes whose expression across the transcriptome samples of Acropora microphthalma tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.
No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.
Whether this gene can be visualised in the single-cell atlases of Acropora microphthalma, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.
No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.
Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.
No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.
Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.
| Analysis | What it does | Status | |
|---|---|---|---|
| Primer design | Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed. | template found | open → |
| BLAST | Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start. | template found | open → |
| Expression heatmap | Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it. | no expression matrix | – |
| Gene family / orthogroup | Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue. | open → | |
| Gene set analysis | Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it. | open → |
