Genomic Location: chr_3:22598915...22613270
NR annotation: XP_031572203.1, replication protein A 70 kDa DNA-binding subunit-like [Actinia tenebrosa]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families
| CDS |
| alvinactis_v1_g6928 |
| Transcript |
| alvinactis_v1_g6928 |
| Protein |
| alvinactis_v1_g6928 |
| UniProt accession | Description |
|---|---|
| Q5FW17 | Replication protein A 70 kDa DNA-binding subunit OS=Xenopus tropicalis OX=8364 GN=rpa1 PE=2 SV=1 |
| P27694 | Replication protein A 70 kDa DNA-binding subunit OS=Homo sapiens OX=9606 GN=RPA1 PE=1 SV=2 |
| Q01588 | Replication protein A 70 kDa DNA-binding subunit OS=Xenopus laevis OX=8355 GN=rpa1 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004288 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF08646 all species → | Rep_fac-A_C | Replication factor-A C terminal domain | Family | Interproscan |
| PF16900 all species → | REPA_OB_2 | Replication protein A OB domain | Domain | Interproscan |
| PF01336 all species → | tRNA_anti-codon | OB-fold nucleic acid binding domain | Domain | Interproscan |
| PF04057 all species → | Rep-A_N | Replication factor-A protein 1, N-terminal domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR012340 all species → | Homologous_superfamily | Nucleic acid-binding, OB-fold | Interproscan |
| IPR004591 all species → | Family | Replication factor A protein 1 | Interproscan |
| IPR013955 all species → | Domain | Replication factor A, C-terminal | Interproscan |
| IPR031657 all species → | Domain | Replication protein A, OB domain | Interproscan |
| IPR047192 all species → | Domain | Replication factor A, C-terminal, eukaryotes | Interproscan |
| IPR004365 all species → | Domain | OB-fold nucleic acid binding domain, AA-tRNA synthetase-type | Interproscan |
| IPR007199 all species → | Domain | Replication factor-A protein 1, N-terminal | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR23273 all species → | REPLICATION FACTOR A 1, RFA1 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000724 all species → | Biological Process | double-strand break repair via homologous recombination | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0003684 all species → | Molecular Function | damaged DNA binding | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0005662 all species → | Cellular Component | DNA replication factor A complex | Interproscan |
| GO:0006260 all species → | Biological Process | DNA replication | Interproscan |
| GO:0006281 all species → | Biological Process | DNA repair | Interproscan |
| GO:0006289 all species → | Biological Process | nucleotide-excision repair | Interproscan |
| GO:0006310 all species → | Biological Process | DNA recombination | Interproscan |
| GO:0007004 all species → | Biological Process | telomere maintenance via telomerase | Interproscan |
| GO:0043047 all species → | Molecular Function | single-stranded telomeric DNA binding | Interproscan |
| GO:0051321 all species → | Biological Process | meiotic cell cycle | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K07466 | RFA1, RPA1, rpa; replication factor A1 | - | DNA repair and recombination proteins | ko03400 | deepkoala |
Genes whose expression across the transcriptome samples of Alvinactis idsseensis sp. Nov. 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 Alvinactis idsseensis sp. Nov., 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 → |
