Genomic Location: chr4:3564038...3568283
NR annotation: XP_031573275.1, LIM/homeobox protein Lhx1-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families
| CDS |
| ENSOJPT00000045819 |
| Transcript |
| ENSOJPT00000045819 |
| Protein |
| ENSOJPP00000039609.1 |
| UniProt accession | Description |
|---|---|
| P29674 | LIM/homeobox protein Lhx1 OS=Xenopus laevis OX=8355 GN=lhx1 PE=1 SV=1 |
| P37137 | LIM/homeobox protein Lhx5 OS=Xenopus laevis OX=8355 GN=lhx5 PE=1 SV=2 |
| Q90476 | LIM/homeobox protein Lhx1 OS=Danio rerio OX=7955 GN=lhx1a PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000726 (this species only) · gene tree & orthology |
| Transcription factor family | Homeobox · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00046 all species → | Homeodomain | Homeodomain | Domain | Interproscan |
| PF00412 all species → | LIM | LIM domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001781 all species → | Domain | Zinc finger, LIM-type | Interproscan |
| IPR001356 all species → | Domain | Homeobox domain | Interproscan |
| IPR050453 all species → | Family | LIM/homeobox transcription factors | Interproscan |
| IPR017970 all species → | Conserved_site | Homeobox, conserved site | Interproscan |
| IPR009057 all species → | Homologous_superfamily | Homeobox-like domain superfamily | Interproscan |
| IPR049618 all species → | Domain | Lhx1/5, LIM domain 1 | Interproscan |
| IPR049619 all species → | Domain | Lhx1/5, LIM domain 2 | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR24208 all species → | LIM/HOMEOBOX PROTEIN LHX | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0000977 all species → | Molecular Function | RNA polymerase II transcription regulatory region sequence-specific DNA binding | Interproscan |
| GO:0000981 all species → | Molecular Function | DNA-binding transcription factor activity, RNA polymerase II-specific | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006357 all species → | Biological Process | regulation of transcription by RNA polymerase II | Interproscan |
| GO:0030182 all species → | Biological Process | neuron differentiation | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K09374 | LHX3_4; LIM homeobox protein 3/4 | - | Transcription factors | ko03000 | deepkoala |
Genes whose expression across the transcriptome samples of Anthopleura xanthogrammica 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 Anthopleura xanthogrammica, 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 → |
