Gene detail

Detailed information of g428.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: KXJ17176.1, PHD finger protein 20-like protein 1 [Exaiptasia diaphana]
Species Calvadosia cruxmelitensis · all data for this species · gene families

Sequence

Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A2VE56	PHD finger protein 20-like protein 1 OS=Bos taurus OX=9913 GN=PHF20L1 PE=2 SV=1
Q4V9H5	PHD finger protein 20-like protein 1 OS=Rattus norvegicus OX=10116 GN=Phf20l1 PE=1 SV=2
Q8CCJ9	PHD finger protein 20-like protein 1 OS=Mus musculus OX=10090 GN=Phf20l1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000013 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000014 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000117 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000281 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000517 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002533 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002971 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003640 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004001 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008301 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008549 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0009267 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0033341 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0083627 (this species only) · gene tree & orthology
Transcription factor family	CSD · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20826 all species →	PHD_5	PhD finger domain	Domain	Interproscan
PF02820 all species →	MBT	mbt repeat	Domain	Interproscan
PF01431 all species →	Peptidase_M13	Peptidase family M13	Family	Interproscan
PF13738 all species →	Pyr_redox_3	Pyridine nucleotide-disulphide oxidoreductase	Family	Interproscan
PF06916 all species →	FAM210A-B_dom	FAM210A/B-like domain	Domain	Interproscan
PF00428 all species →	Ribosomal_60s	60s Acidic ribosomal protein	Family	Interproscan
PF00313 all species →	CSD	'Cold-shock' DNA-binding domain	Domain	Interproscan
PF00735 all species →	Septin	Septin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR019786 all species →	Conserved_site	Zinc finger, PHD-type, conserved site	Interproscan
IPR002999 all species →	Domain	Tudor domain	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR016197 all species →	Homologous_superfamily	Chromo-like domain superfamily	Interproscan
IPR043449 all species →	Family	PHD finger protein 20-like	Interproscan
IPR001965 all species →	Domain	Zinc finger, PHD-type	Interproscan
IPR004092 all species →	Repeat	Mbt repeat	Interproscan
IPR018497 all species →	Domain	Peptidase M13, C-terminal domain	Interproscan
IPR000718 all species →	Family	Peptidase M13	Interproscan
IPR024079 all species →	Homologous_superfamily	Metallopeptidase, catalytic domain superfamily	Interproscan
IPR029731 all species →	Family	OKL38 family	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR045866 all species →	Family	Protein FAM210A/B-like	Interproscan
IPR009688 all species →	Domain	Protein FAM210A/B-like domain	Interproscan
IPR033467 all species →	Domain	Tesmin/TSO1-like CXC domain	Interproscan
IPR027534 all species →	Family	Large ribosomal subunit protein P1/P2	Interproscan
IPR038716 all species →	Homologous_superfamily	Large ribosomal subunit protein P1/P2, N-terminal domain	Interproscan
IPR000569 all species →	Domain	HECT domain	Interproscan
IPR035983 all species →	Homologous_superfamily	HECT, E3 ligase catalytic domain	Interproscan
IPR052069 all species →	Family	Calcium-regulated mRNA-binding domain-containing protein	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR002059 all species →	Domain	Cold-shock protein, DNA-binding	Interproscan
IPR011129 all species →	Domain	Cold shock domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR030379 all species →	Domain	Septin-type guanine nucleotide-binding (G) domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37984 all species →	PROTEIN CBG26694	Interproscan
PTHR15856 all species →	PHD FINGER PROTEIN 20-RELATED	Interproscan
PTHR11733 all species →	ZINC METALLOPROTEASE FAMILY M13 NEPRILYSIN-RELATED	Interproscan
PTHR15192 all species →	PROTEIN CBG05349	Interproscan
PTHR21377 all species →	UNCHARACTERIZED	Interproscan
PTHR46704 all species →	CXC DOMAIN-CONTAINING PROTEIN-RELATED	Interproscan
PTHR45696 all species →	60S ACIDIC RIBOSOMAL PROTEIN P1	Interproscan
PTHR12962 all species →	CALCIUM-REGULATED HEAT STABLE PROTEIN CRHSP-24-RELATED	Interproscan
PTHR18884 all species →	SEPTIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0016573 all species →	Biological Process	obsolete histone acetylation	Interproscan
GO:0044545 all species →	Cellular Component	NSL complex	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0016485 all species →	Biological Process	protein processing	Interproscan
GO:0008237 all species →	Molecular Function	metallopeptidase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006414 all species →	Biological Process	translational elongation	Interproscan
GO:0002181 all species →	Biological Process	cytoplasmic translation	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0030295 all species →	Molecular Function	protein kinase activator activity	Interproscan
GO:0043021 all species →	Molecular Function	ribonucleoprotein complex binding	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0003730 all species →	Molecular Function	mRNA 3'-UTR binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0043488 all species →	Biological Process	regulation of mRNA stability	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005940 all species →	Cellular Component	septin ring	Interproscan
GO:0015630 all species →	Cellular Component	microtubule cytoskeleton	Interproscan
GO:0031105 all species →	Cellular Component	septin complex	Interproscan
GO:0032153 all species →	Cellular Component	cell division site	Interproscan
GO:0034613 all species →	Biological Process	protein localization	Interproscan
GO:0060090 all species →	Molecular Function	molecular adaptor activity	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0061640 all species →	Biological Process	cytoskeleton-dependent cytokinesis	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02942	RP-LP1, RPLP1; large subunit ribosomal protein LP1	-	Ribosome	ko03011	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Calvadosia cruxmelitensis 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.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Calvadosia cruxmelitensis, 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.

Epigenetic marks

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.

What you can do with this gene

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.	sequence table not available	–
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.	sequence table not available	–
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 →