Gene detail

Detailed information of g1682.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_027050214.1, H/ACA ribonucleoprotein complex subunit 2-like protein [Pocillopora damicornis]
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
Q6PBV6	H/ACA ribonucleoprotein complex subunit 2-like protein OS=Danio rerio OX=7955 GN=nhp2 PE=2 SV=1
Q6XIP0	H/ACA ribonucleoprotein complex subunit 2-like protein OS=Drosophila yakuba OX=7245 GN=NHP2 PE=2 SV=1
Q9V3U2	H/ACA ribonucleoprotein complex subunit 2 OS=Drosophila melanogaster OX=7227 GN=NHP2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000116 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002999 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004429 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005559 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007293 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00995 all species →	Sec1	Sec1 family	Family	Interproscan
PF04065 all species →	Not3	Not1 N-terminal domain, CCR4-Not complex component	Family	Interproscan
PF02816 all species →	Alpha_kinase	Alpha-kinase family	Family	Interproscan
PF01248 all species →	Ribosomal_L7Ae	Ribosomal protein L7Ae/L30e/S12e/Gadd45 family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036045 all species →	Homologous_superfamily	Sec1-like superfamily	Interproscan
IPR027482 all species →	Homologous_superfamily	Sec1-like, domain 2	Interproscan
IPR001619 all species →	Family	Sec1-like protein	Interproscan
IPR007207 all species →	Domain	CCR4-Not complex component, Not N-terminal domain	Interproscan
IPR000727 all species →	Domain	Target SNARE coiled-coil homology domain	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR004166 all species →	Domain	Alpha-type protein kinase, alpha-kinase domain	Interproscan
IPR029064 all species →	Homologous_superfamily	Ribosomal protein eL30-like superfamily	Interproscan
IPR018492 all species →	Family	Ribosomal protein eL8/Nhp2 family	Interproscan
IPR050257 all species →	Family	Eukaryotic ribosomal RNA-processing and assembly protein	Interproscan
IPR002415 all species →	Family	H/ACA ribonucleoprotein complex, subunit Nhp2-like	Interproscan
IPR004038 all species →	Domain	Ribosomal protein eL8/eL30/eS12/Gadd45	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11679 all species →	VESICLE PROTEIN SORTING-ASSOCIATED	Interproscan
PTHR23105 all species →	RIBOSOMAL PROTEIN L7AE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0000469 all species →	Biological Process	obsolete cleavage involved in rRNA processing	Interproscan
GO:0000470 all species →	Biological Process	maturation of LSU-rRNA	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0031118 all species →	Biological Process	rRNA pseudouridine synthesis	Interproscan
GO:0031120 all species →	Biological Process	snRNA pseudouridine synthesis	Interproscan
GO:0031429 all species →	Cellular Component	box H/ACA snoRNP complex	Interproscan
GO:0034513 all species →	Molecular Function	box H/ACA snoRNA binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	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
K11129	NHP2, NOLA2; H/ACA ribonucleoprotein complex subunit 2	-	DNA replication proteins	ko03032	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 →