Gene detail

Detailed information of g264.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: PNF36328.1, Chromobox protein-like protein 3 [Cryptotermes secundus]
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
Q61686	Chromobox protein homolog 5 OS=Mus musculus OX=10090 GN=Cbx5 PE=1 SV=1
P23198	Chromobox protein homolog 3 OS=Mus musculus OX=10090 GN=Cbx3 PE=1 SV=2
P45973	Chromobox protein homolog 5 OS=Homo sapiens OX=9606 GN=CBX5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000005 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000034 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000294 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000559 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000598 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001068 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001991 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003693 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004416 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007155 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007668 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0022453 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0042551 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00385 all species →	Chromo	Chromo (CHRromatin Organisation MOdifier) domain	Domain	Interproscan
PF01393 all species →	Chromo_shadow	Chromo shadow domain	Domain	Interproscan
PF00672 all species →	HAMP	HAMP domain	Domain	Interproscan
PF14827 all species →	dCache_3	Double sensory domain of two-component sensor kinase	Domain	Interproscan
PF00262 all species →	Calreticulin	Calreticulin family	Family	Interproscan
PF00001 all species →	7tm_1	7 transmembrane receptor (rhodopsin family)	Family	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan
PF12474 all species →	PKK	Polo kinase kinase	Family	Interproscan
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan
PF05699 all species →	Dimer_Tnp_hAT	hAT family C-terminal dimerisation region	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016197 all species →	Homologous_superfamily	Chromo-like domain superfamily	Interproscan
IPR023780 all species →	Domain	Chromo domain	Interproscan
IPR017984 all species →	Domain	Chromo domain subgroup	Interproscan
IPR000953 all species →	Domain	Chromo/chromo shadow domain	Interproscan
IPR008251 all species →	Domain	Chromo shadow domain	Interproscan
IPR023779 all species →	Conserved_site	Chromo domain, conserved site	Interproscan
IPR051219 all species →	Family	Heterochromatin-associated chromo domain-containing protein	Interproscan
IPR029787 all species →	Homologous_superfamily	Nucleotide cyclase	Interproscan
IPR003660 all species →	Domain	HAMP domain	Interproscan
IPR050398 all species →	Family	Bacterial Sensor Histidine Kinase	Interproscan
IPR029150 all species →	Domain	Double Cache domain 3	Interproscan
IPR001054 all species →	Domain	Adenylyl cyclase class-3/4/guanylyl cyclase	Interproscan
IPR001580 all species →	Family	Calreticulin/calnexin	Interproscan
IPR018124 all species →	Conserved_site	Calreticulin/calnexin, conserved site	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan
IPR009169 all species →	Family	Calreticulin	Interproscan
IPR009033 all species →	Homologous_superfamily	Calreticulin/calnexin, P domain superfamily	Interproscan
IPR036361 all species →	Homologous_superfamily	SAP domain superfamily	Interproscan
IPR017452 all species →	Domain	GPCR, rhodopsin-like, 7TM	Interproscan
IPR000276 all species →	Family	G protein-coupled receptor, rhodopsin-like	Interproscan
IPR050125 all species →	Family	G-protein coupled receptor opsins	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR000421 all species →	Domain	Coagulation factor 5/8 C-terminal domain	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR022165 all species →	Family	Polo kinase kinase	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR051585 all species →	Family	STE20 Subfamily Serine/Threonine Kinases	Interproscan
IPR008271 all species →	Active_site	Serine/threonine-protein kinase, active site	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR034605 all species →	Family	PGC-1	Interproscan
IPR052958 all species →	Family	Interferon-induced PKR regulator	Interproscan
IPR008906 all species →	Domain	HAT, C-terminal dimerisation domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR038377 all species →	Homologous_superfamily	Sodium/glucose symporter superfamily	Interproscan
IPR051163 all species →	Family	Sodium:Solute Symporter (SSF)	Interproscan
IPR001734 all species →	Family	Sodium/solute symporter	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22812 all species →	CHROMOBOX PROTEIN	Interproscan
PTHR45528 all species →	SENSOR HISTIDINE KINASE CPXA	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR11073 all species →	CALRETICULIN AND CALNEXIN	Interproscan
PTHR24240 all species →	OPSIN	Interproscan
PTHR24543 all species →	MULTICOPPER OXIDASE-RELATED	Interproscan
PTHR46538 all species →	PROTEIN KINASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR15528 all species →	PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA COACTIVATOR 1 PGC-1 -RELATED	Interproscan
PTHR46289 all species →	52 KDA REPRESSOR OF THE INHIBITOR OF THE PROTEIN KINASE-LIKE PROTEIN-RELATED	Interproscan
PTHR42985 all species →	SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0005721 all species →	Cellular Component	pericentric heterochromatin	Interproscan
GO:0006325 all species →	Biological Process	chromatin organization	Interproscan
GO:0035064 all species →	Molecular Function	methylated histone binding	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0000155 all species →	Molecular Function	phosphorelay sensor kinase activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0009190 all species →	Biological Process	cyclic nucleotide biosynthetic process	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0030433 all species →	Biological Process	obsolete ubiquitin-dependent ERAD pathway	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004930 all species →	Molecular Function	G protein-coupled receptor activity	Interproscan
GO:0007186 all species →	Biological Process	G protein-coupled receptor signaling pathway	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007602 all species →	Biological Process	phototransduction	Interproscan
GO:0008020 all species →	Molecular Function	G protein-coupled photoreceptor activity	Interproscan
GO:0071482 all species →	Biological Process	cellular response to light stimulus	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003712 all species →	Molecular Function	transcription coregulator activity	Interproscan
GO:0008134 all species →	Molecular Function	transcription factor binding	Interproscan
GO:0030374 all species →	Molecular Function	nuclear receptor coactivator activity	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	Interproscan
GO:0051091 all species →	Biological Process	positive regulation of DNA-binding transcription factor activity	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0006814 all species →	Biological Process	sodium ion transport	Interproscan
GO:0015293 all species →	Molecular Function	symporter activity	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	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
K08057	CALR; calreticulin	-	Lectins	ko04091	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 →