Genomic Location: HiC_scaffold_31:3413983...3447362
NR annotation: CAH3130355.1, unnamed protein product [Porites lobata]
Species Chrysaora quinquecirrha · all data for this species · gene families
| CDS |
| evm.model.HiC_scaffold_31.264 |
| Transcript |
| evm.model.HiC_scaffold_31.264 |
| Protein |
| evm.model.HiC_scaffold_31.264 |
| UniProt accession | Description |
|---|---|
| P35950 | Low-density lipoprotein receptor OS=Cricetulus griseus OX=10029 GN=LDLR PE=3 SV=2 |
| Q28832 | Low-density lipoprotein receptor (Fragment) OS=Sus scrofa OX=9823 GN=LDLR PE=1 SV=2 |
| P01131 | Low-density lipoprotein receptor OS=Bos taurus OX=9913 GN=LDLR PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000259 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00058 all species → | Ldl_recept_b | Low-density lipoprotein receptor repeat class B | Repeat | Interproscan |
| PF14670 all species → | FXa_inhibition | Coagulation Factor Xa inhibitory site | Domain | Interproscan |
| PF12662 all species → | cEGF | Complement Clr-like EGF-like | Domain | Interproscan |
| PF00041 all species → | fn3 | Fibronectin type III domain | Domain | Interproscan |
| PF00057 all species → | Ldl_recept_a | Low-density lipoprotein receptor domain class A | Repeat | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR002172 all species → | Repeat | Low-density lipoprotein (LDL) receptor class A repeat | Interproscan |
| IPR000033 all species → | Repeat | LDLR class B repeat | Interproscan |
| IPR003961 all species → | Domain | Fibronectin type III | Interproscan |
| IPR036055 all species → | Homologous_superfamily | LDL receptor-like superfamily | Interproscan |
| IPR000742 all species → | Domain | EGF-like domain | Interproscan |
| IPR023415 all species → | Conserved_site | Low-density lipoprotein (LDL) receptor class A, conserved site | Interproscan |
| IPR009030 all species → | Homologous_superfamily | Growth factor receptor cysteine-rich domain superfamily | Interproscan |
| IPR013783 all species → | Homologous_superfamily | Immunoglobulin-like fold | Interproscan |
| IPR011042 all species → | Homologous_superfamily | Six-bladed beta-propeller, TolB-like | Interproscan |
| IPR018097 all species → | Conserved_site | EGF-like calcium-binding, conserved site | Interproscan |
| IPR001881 all species → | Domain | EGF-like calcium-binding domain | Interproscan |
| IPR026823 all species → | Domain | Complement Clr-like EGF domain | Interproscan |
| IPR000152 all species → | PTM | EGF-type aspartate/asparagine hydroxylation site | Interproscan |
| IPR036116 all species → | Homologous_superfamily | Fibronectin type III superfamily | Interproscan |
| IPR002350 all species → | Domain | Kazal domain | Interproscan |
| IPR050685 all species → | Family | Low-density lipoprotein receptor | Interproscan |
| IPR036058 all species → | Homologous_superfamily | Kazal domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR24270 all species → | LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0005509 all species → | Molecular Function | calcium ion binding | Interproscan |
| GO:0005886 all species → | Cellular Component | plasma membrane | Interproscan |
evm.model.HiC_scaffold_31.264.Genes whose expression across the transcriptome samples of Chrysaora quinquecirrha 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 Chrysaora quinquecirrha, 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 → |
