Genomic Location: Scaffold_161__1_contigs__length_177188:115826...120714
NR annotation: CAF2063279.1, unnamed protein product [Rotaria magnacalcarata]
Species Montipora grisea · all data for this species · gene families
| CDS |
| ANN25129-RA |
| Transcript |
| ANN25129-RA |
| Protein |
| ANN25129-RA |
| UniProt accession | Description |
|---|---|
| P0CAW9 | RNA polymerase sigma factor RpoH OS=Caulobacter vibrioides (strain ATCC 19089 / CIP 103742 / CB 15) OX=190650 GN=rpoH PE=1 SV=1 |
| B8H3C3 | RNA polymerase sigma factor RpoH OS=Caulobacter vibrioides (strain NA1000 / CB15N) OX=565050 GN=rpoH PE=3 SV=2 |
| P50507 | RNA polymerase sigma factor RpoH OS=Rhizobium radiobacter OX=358 GN=rpoH PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0023325 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04542 all species → | Sigma70_r2 | Sigma-70 region 2 | Domain | Interproscan |
| PF03449 all species → | GreA_GreB_N | Transcription elongation factor, N-terminal | Domain | Interproscan |
| PF04545 all species → | Sigma70_r4 | Sigma-70, region 4 | Domain | Interproscan |
| PF01272 all species → | GreA_GreB | Transcription elongation factor, GreA/GreB, C-term | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR036805 all species → | Homologous_superfamily | Transcription elongation factor, GreA/GreB, N-terminal domain superfamily | Interproscan |
| IPR036953 all species → | Homologous_superfamily | Transcription elongation factor GreA/GreB, C-terminal domain superfamily | Interproscan |
| IPR013325 all species → | Homologous_superfamily | RNA polymerase sigma factor, region 2 | Interproscan |
| IPR018151 all species → | Conserved_site | Transcription elongation factor, GreA/GreB, conserved site | Interproscan |
| IPR007627 all species → | Domain | RNA polymerase sigma-70 region 2 | Interproscan |
| IPR000943 all species → | Domain | RNA polymerase sigma-70 | Interproscan |
| IPR050813 all species → | Family | Bacterial Sigma-70 Factor | Interproscan |
| IPR022691 all species → | Domain | Transcription elongation factor, GreA/GreB, N-terminal | Interproscan |
| IPR014284 all species → | Domain | RNA polymerase sigma-70 like domain | Interproscan |
| IPR007630 all species → | Domain | RNA polymerase sigma-70 region 4 | Interproscan |
| IPR006359 all species → | Family | Transcription elongation factor GreA | Interproscan |
| IPR012759 all species → | Family | RNA polymerase sigma factor RpoH, proteobacteria | Interproscan |
| IPR013324 all species → | Homologous_superfamily | RNA polymerase sigma factor, region 3/4-like | Interproscan |
| IPR028624 all species → | Family | Transcription elongation factor GreA/GreB | Interproscan |
| IPR001437 all species → | Domain | Transcription elongation factor, GreA/GreB, C-terminal | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR30376 all species → | SIGMA FACTOR RPOH HEAT SHOCK RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0032784 all species → | Biological Process | regulation of DNA-templated transcription elongation | Interproscan |
| GO:0003700 all species → | Molecular Function | DNA-binding transcription factor activity | Interproscan |
| GO:0006352 all species → | Biological Process | DNA-templated transcription initiation | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0016987 all species → | Molecular Function | sigma factor activity | Interproscan |
| GO:0070063 all species → | Molecular Function | RNA polymerase binding | Interproscan |
ANN25129-RA.Genes whose expression across the transcriptome samples of Montipora grisea 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 Montipora grisea, 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 → |
