Gene detail

Detailed information of g718.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_012563324.2, mesoderm induction early response protein 1-like [Hydra vulgaris]
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
Q811S7	Upstream-binding protein 1 OS=Mus musculus OX=10090 GN=Ubp1 PE=1 SV=1
Q9NZI7	Upstream-binding protein 1 OS=Homo sapiens OX=9606 GN=UBP1 PE=1 SV=1
Q12800	Alpha-globin transcription factor CP2 OS=Homo sapiens OX=9606 GN=TFCP2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000005 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000109 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001706 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001808 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001957 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003033 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003767 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006663 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008169 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011268 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0012471 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0019350 (this species only) · gene tree & orthology
Transcription factor family	CP2 · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04516 all species →	CP2	CP2 transcription factor	Family	Interproscan
PF03937 all species →	Sdh5	Flavinator of succinate dehydrogenase	Domain	Interproscan
PF12763 all species →	EF-hand_4	Cytoskeletal-regulatory complex EF hand	Family	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF00640 all species →	PID	Phosphotyrosine interaction domain (PTB/PID)	Domain	Interproscan
PF13650 all species →	Asp_protease_2	Aspartyl protease	Domain	Interproscan
PF09072 all species →	TMA7	Translation machinery associated TMA7	Family	Interproscan
PF02463 all species →	SMC_N	RecF/RecN/SMC N terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007604 all species →	Domain	CP2 transcription factor	Interproscan
IPR040167 all species →	Family	Transcription factor CP2-like	Interproscan
IPR005631 all species →	Family	Flavinator of succinate dehydrogenase	Interproscan
IPR036714 all species →	Homologous_superfamily	Flavinator of succinate dehydrogenase superfamily	Interproscan
IPR040138 all species →	Family	Mesoderm induction early response protein/metastasis-associated protein	Interproscan
IPR000949 all species →	Domain	ELM2 domain	Interproscan
IPR000261 all species →	Domain	EH domain	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR001005 all species →	Domain	SANT/Myb domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR006020 all species →	Domain	PTB/PI domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR051133 all species →	Family	Adapter and Engulfment Domain-Containing Protein	Interproscan
IPR021109 all species →	Homologous_superfamily	Aspartic peptidase domain superfamily	Interproscan
IPR015157 all species →	Family	Translation machinery associated TMA7	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR003395 all species →	Domain	RecF/RecN/SMC, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11037 all species →	TRANSCRIPTION FACTOR CP2	Interproscan
PTHR12469 all species →	PROTEIN EMI5 HOMOLOG, MITOCHONDRIAL	Interproscan
PTHR10865 all species →	METASTASIS-ASSOCIATED PROTEIN AND MESODERM INDUCTION EARLY RESPONSE PROTEIN	Interproscan
PTHR11216 all species →	EH DOMAIN	Interproscan
PTHR46459 all species →	E1A-BINDING PROTEIN P400-RELATED	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR11232 all species →	PHOSPHOTYROSINE INTERACTION DOMAIN-CONTAINING FAMILY MEMBER	Interproscan
PTHR47331 all species →	PHD-TYPE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR46704 all species →	CXC DOMAIN-CONTAINING PROTEIN-RELATED	Interproscan
PTHR19306 all species →	STRUCTURAL MAINTENANCE OF CHROMOSOMES 5,6 SMC5, SMC6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0001228 all species →	Molecular Function	DNA-binding transcription activator activity, RNA polymerase II-specific	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0006121 all species →	Biological Process	mitochondrial electron transport, succinate to ubiquinone	Interproscan
GO:0018293 all species →	Biological Process	protein-FAD linkage	Interproscan
GO:0034553 all species →	Biological Process	mitochondrial respiratory chain complex II assembly	Interproscan
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003714 all species →	Molecular Function	transcription corepressor activity	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0016575 all species →	Biological Process	obsolete histone deacetylation	Interproscan
GO:0042826 all species →	Molecular Function	histone deacetylase binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0016197 all species →	Biological Process	endosomal transport	Interproscan
GO:0042734 all species →	Cellular Component	presynaptic membrane	Interproscan
GO:0060090 all species →	Molecular Function	molecular adaptor activity	Interproscan
GO:0097708 all species →	Cellular Component	intracellular vesicle	Interproscan
GO:0150007 all species →	Biological Process	clathrin-dependent synaptic vesicle endocytosis	Interproscan
GO:0000812 all species →	Cellular Component	Swr1 complex	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0035267 all species →	Cellular Component	NuA4 histone acetyltransferase complex	Interproscan
GO:0043967 all species →	Biological Process	obsolete histone H4 acetylation	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0003684 all species →	Molecular Function	damaged DNA binding	Interproscan
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0030915 all species →	Cellular Component	Smc5-Smc6 complex	Interproscan
GO:0035861 all species →	Cellular Component	site of double-strand break	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
K20068	REPS; RalBP1-associated Eps domain-containing protein	-	Membrane trafficking	ko04131	deepkoala
K22804	SMC6; structural maintenance of chromosomes protein 6	-	DNA repair and recombination proteins	ko03400	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 →