Genomic Location: sc0000052_pilon:560752...621059
NR annotation: XP_044167139.1, LOW QUALITY PROTEIN: CCR4-NOT transcription complex subunit 1-like [Acropora millepora]
Species Acropora selago · all data for this species · gene families
| CDS |
| asel_s0052.g40.t2 |
| Transcript |
| asel_s0052.g40.t2 |
| Protein |
| asel_s0052.g40.t2 |
| UniProt accession | Description |
|---|---|
| A5YKK6 | CCR4-NOT transcription complex subunit 1 OS=Homo sapiens OX=9606 GN=CNOT1 PE=1 SV=2 |
| Q6ZQ08 | CCR4-NOT transcription complex subunit 1 OS=Mus musculus OX=10090 GN=Cnot1 PE=1 SV=2 |
| A1A5H6 | CCR4-NOT transcription complex subunit 1 OS=Danio rerio OX=7955 GN=cnot1 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002467 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF16417 all species → | CNOT1_TTP_bind | CCR4-NOT transcription complex subunit 1 TTP binding domain | Repeat | Interproscan |
| PF16418 all species → | CNOT1_HEAT | CCR4-NOT transcription complex subunit 1 HEAT repeat | Domain | Interproscan |
| PF04054 all species → | Not1 | CCR4-Not complex component, Not1 | Repeat | Interproscan |
| PF12842 all species → | DUF3819 | CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819 | Domain | Interproscan |
| PF16415 all species → | CNOT1_CAF1_bind | CCR4-NOT transcription complex subunit 1 CAF1-binding domain | Repeat | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR038535 all species → | Homologous_superfamily | CCR4-NOT subunit 1, TTP binding domain superfamily | Interproscan |
| IPR032193 all species → | Domain | CCR4-NOT transcription complex subunit 1, TTP binding domain | Interproscan |
| IPR032194 all species → | Domain | CCR4-NOT transcription complex subunit 1, HEAT repeat | Interproscan |
| IPR007196 all species → | Domain | CCR4-Not complex component, Not1, C-terminal | Interproscan |
| IPR040398 all species → | Family | CCR4-NOT transcription complex subunit 1 | Interproscan |
| IPR024557 all species → | Domain | CCR4-NOT transcription complex subunit 1, domain 4 | Interproscan |
| IPR032191 all species → | Domain | CCR4-NOT transcription complex subunit 1, CAF1-binding domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR13162 all species → | CCR4-NOT TRANSCRIPTION COMPLEX | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000288 all species → | Biological Process | nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay | Interproscan |
| GO:0000932 all species → | Cellular Component | P-body | Interproscan |
| GO:0017148 all species → | Biological Process | negative regulation of translation | Interproscan |
| GO:0030015 all species → | Cellular Component | CCR4-NOT core complex | Interproscan |
| GO:0060090 all species → | Molecular Function | molecular adaptor activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K12604 | CNOT1, NOT1; CCR4-NOT transcription complex subunit 1 | - | Messenger RNA biogenesis | ko03019 | deepkoala |
Transcript abundance of asel_s0052.g40.t2 across 24 RNA-seq samples of Acropora selago. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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 |
|---|---|---|---|---|---|
| coral larvae | 24 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR14308004 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308005 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308006 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308007 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308008 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308009 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308010 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308011 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308012 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308013 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308014 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308015 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308016 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308017 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308018 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308019 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308020 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308021 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308022 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308023 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308024 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308025 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308026 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
| SRR14308027 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (ASELA_TPM,
StringTie quantification over 24 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.
Genes whose expression across the transcriptome samples of Acropora selago 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.
| Direction | Partners | Most correlated partner | PCC |
|---|---|---|---|
| Positively correlated | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Acropora selago network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.
Whether this gene can be visualised in the single-cell atlases of Acropora selago, 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.
| Sample | Methylation profile |
|---|---|
| Coral_Fragment_Parent | open |
| Larval_Pool_Offspring | open |
The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.
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 → |
