Genomic Location: NC_064037.1:3316176...3324514
NR annotation: XP_048583149.1, replication protein A 70 kDa DNA-binding subunit [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families
| CDS |
| LOC5507561 |
| Transcript |
| rna-XM_048727192.1 |
| Protein |
| XP_048583149.1 |
| UniProt accession | Description |
|---|---|
| Q5FW17 | Replication protein A 70 kDa DNA-binding subunit OS=Xenopus tropicalis OX=8364 GN=rpa1 PE=2 SV=1 |
| Q8VEE4 | Replication protein A 70 kDa DNA-binding subunit OS=Mus musculus OX=10090 GN=Rpa1 PE=1 SV=1 |
| 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 |
|---|---|---|---|
| IPR047192 all species → | Domain | Replication factor A, C-terminal, eukaryotes | Interproscan |
| IPR013955 all species → | Domain | Replication factor A, C-terminal | Interproscan |
| IPR012340 all species → | Homologous_superfamily | Nucleic acid-binding, OB-fold | Interproscan |
| IPR031657 all species → | Domain | Replication protein A, OB domain | Interproscan |
| IPR004591 all species → | Family | Replication factor A protein 1 | 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:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006260 all species → | Biological Process | DNA replication | Interproscan |
| GO:0006281 all species → | Biological Process | DNA repair | Interproscan |
| GO:0006310 all species → | Biological Process | DNA recombination | Interproscan |
| GO:0000724 all species → | Biological Process | double-strand break repair via homologous recombination | Interproscan |
| GO:0003684 all species → | Molecular Function | damaged DNA binding | Interproscan |
| GO:0005662 all species → | Cellular Component | DNA replication factor A complex | Interproscan |
| GO:0006289 all species → | Biological Process | nucleotide-excision repair | 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 |
Transcript abundance of XP_048583149.1 across 48 RNA-seq samples of Nematostella vectensis. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| whole 6 week old aboral regenerate · regenerate 96hpa | 3 | 3 | 23.38 | 27.71 | |
| whole 6 week old aboral regenerate · regenerate 144hpa | 3 | 3 | 17.05 | 23.97 | |
| whole 6 week old aboral regenerate · regenerate 0hpa | 3 | 3 | 13.34 | 15.14 | |
| whole 6 week old aboral regenerate · regenerate 2hpa | 3 | 3 | 15.69 | 17.49 | |
| whole 6 week old aboral regenerate · regenerate uncut | 3 | 3 | 11.97 | 13.16 | |
| whole 6 week old aboral regenerate · regenerate 4hpa | 3 | 1 | 3.89 | 11.68 | |
| whole 6 week old aboral regenerate · regenerate 120hpa | 3 | 3 | 23.72 | 26.48 | |
| whole 6 week old aboral regenerate · regenerate 36hpa | 3 | 3 | 27.57 | 31.92 | |
| whole 6 week old aboral regenerate · regenerate 24hpa | 3 | 2 | 9.72 | 17.51 | |
| whole 6 week old aboral regenerate · regenerate 20hpa | 3 | 3 | 13.66 | 16.18 | |
| whole 6 week old aboral regenerate · regenerate 16hpa | 3 | 3 | 10.55 | 13.46 | |
| whole 6 week old aboral regenerate · regenerate 72hpa | 3 | 3 | 25.12 | 26.75 | |
| whole 6 week old aboral regenerate · regenerate 60hpa | 3 | 3 | 26.89 | 28.81 | |
| whole 6 week old aboral regenerate · regenerate 48hpa | 3 | 2 | 18.54 | 31.77 | |
| whole 6 week old aboral regenerate · regenerate 8hpa | 3 | 3 | 14.58 | 16.73 | |
| whole 6 week old aboral regenerate · regenerate 12hpa | 3 | 1 | 3.75 | 11.26 |
Source: CnidoSite RNA-seq expression matrices (NVECT_TPM,
StringTie quantification over 48 runs), joined to SRA sample
metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped
by the descriptor carried in the expression matrix itself.
