Gene detail

Detailed information of g404.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_047135091.1, protocadherin-like protein [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
B8V7Q1	Protocadherin-like protein OS=Acropora millepora OX=45264 PE=1 SV=1
Q5F226	Protocadherin Fat 2 OS=Mus musculus OX=10090 GN=Fat2 PE=1 SV=1
Q2PZL6	Protocadherin Fat 4 OS=Mus musculus OX=10090 GN=Fat4 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000001 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000616 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001004 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001265 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002891 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003900 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005247 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007390 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008655 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0010471 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0021540 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07714 all species →	PK_Tyr_Ser-Thr	Protein tyrosine and serine/threonine kinase	Domain	Interproscan
PF00054 all species →	Laminin_G_1	Laminin G domain	Domain	Interproscan
PF01049 all species →	CADH_Y-type_LIR	Cadherin, Y-type LIR-motif	Family	Interproscan
PF02210 all species →	Laminin_G_2	Laminin G domain	Domain	Interproscan
PF00008 all species →	EGF	EGF-like domain	Domain	Interproscan
PF00028 all species →	Cadherin	Cadherin domain	Domain	Interproscan
PF00612 all species →	IQ	IQ calmodulin-binding motif	Motif	Interproscan
PF00702 all species →	Hydrolase	haloacid dehalogenase-like hydrolase	Domain	Interproscan
PF00930 all species →	DPPIV_N	Dipeptidyl peptidase IV (DPP IV) N-terminal region	Repeat	Interproscan
PF04857 all species →	CAF1	CAF1 family ribonuclease	Family	Interproscan
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan
PF17919 all species →	RT_RNaseH_2	RNase H-like domain found in reverse transcriptase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050198 all species →	Family	Non-receptor tyrosine kinases involved in cell signaling	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR008266 all species →	Active_site	Tyrosine-protein kinase, active site	Interproscan
IPR020635 all species →	Domain	Tyrosine-protein kinase, catalytic domain	Interproscan
IPR001245 all species →	Domain	Serine-threonine/tyrosine-protein kinase, catalytic domain	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR002126 all species →	Domain	Cadherin-like	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan
IPR001791 all species →	Domain	Laminin G domain	Interproscan
IPR015919 all species →	Homologous_superfamily	Cadherin-like superfamily	Interproscan
IPR000233 all species →	Domain	Cadherin, Y-type LIR-motif	Interproscan
IPR039808 all species →	Family	Cadherin	Interproscan
IPR020894 all species →	Conserved_site	Cadherin conserved site	Interproscan
IPR027397 all species →	Homologous_superfamily	Catenin binding domain superfamily	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan
IPR016181 all species →	Homologous_superfamily	Acyl-CoA N-acyltransferase	Interproscan
IPR051185 all species →	Family	Abnormal Spindle-like Microcephaly-associated	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR000048 all species →	Binding_site	IQ motif, EF-hand binding site	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR036412 all species →	Homologous_superfamily	HAD-like superfamily	Interproscan
IPR050155 all species →	Family	HAD-like hydrolase superfamily	Interproscan
IPR023198 all species →	Homologous_superfamily	Phosphoglycolate phosphatase-like, domain 2	Interproscan
IPR023214 all species →	Homologous_superfamily	HAD superfamily	Interproscan
IPR050278 all species →	Family	Serine Protease S9B/DPPIV Subfamily	Interproscan
IPR002469 all species →	Domain	Dipeptidylpeptidase IV, N-terminal domain	Interproscan
IPR006941 all species →	Family	Ribonuclease CAF1	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR039637 all species →	Family	CCR4-NOT transcription complex subunit 7/8/Pop2	Interproscan
IPR050230 all species →	Family	Calcium-Regulated Muscle Contraction and Cellular Process	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR041577 all species →	Domain	Reverse transcriptase/retrotransposon-derived protein, RNase H-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24418 all species →	TYROSINE-PROTEIN KINASE	Interproscan
PTHR24027 all species →	CADHERIN-23	Interproscan
PTHR46113 all species →	SNAC DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR22706 all species →	UNCHARACTERIZED	Interproscan
PTHR43434 all species →	PHOSPHOGLYCOLATE PHOSPHATASE	Interproscan
PTHR11731 all species →	PROTEASE FAMILY S9B,C DIPEPTIDYL-PEPTIDASE IV-RELATED	Interproscan
PTHR10797 all species →	CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT	Interproscan
PTHR23048 all species →	MYOSIN LIGHT CHAIN 1, 3	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004713 all species →	Molecular Function	protein tyrosine kinase activity	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:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0007156 all species →	Biological Process	homophilic cell adhesion via plasma membrane adhesion molecules	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016342 all species →	Cellular Component	catenin complex	Interproscan
GO:0045296 all species →	Molecular Function	cadherin binding	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	Interproscan
GO:0098742 all species →	Biological Process	cell-cell adhesion via plasma-membrane adhesion molecules	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0000278 all species →	Biological Process	mitotic cell cycle	Interproscan
GO:0000922 all species →	Cellular Component	spindle pole	Interproscan
GO:0005516 all species →	Molecular Function	calmodulin binding	Interproscan
GO:0007051 all species →	Biological Process	spindle organization	Interproscan
GO:0051295 all species →	Biological Process	establishment of meiotic spindle localization	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008239 all species →	Molecular Function	dipeptidyl-peptidase activity	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0004535 all species →	Molecular Function	poly(A)-specific ribonuclease activity	Interproscan
GO:0030014 all species →	Cellular Component	CCR4-NOT complex	Interproscan
GO:0030015 all species →	Cellular Component	CCR4-NOT core complex	Interproscan
GO:0043928 all species →	Biological Process	obsolete exonucleolytic catabolism of deadenylated mRNA	Interproscan
GO:0016460 all species →	Cellular Component	myosin II complex	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
K10144	RCHY1, PIRH2; RING finger and CHY zinc finger domain-containing protein 1	EC:2.3.2.27	Ubiquitin system	ko04121	deepkoala
K12581	CNOT7_8, CAF1, POP2; CCR4-NOT transcription complex subunit 7/8	-	Messenger RNA biogenesis	ko03019	deepkoala
K12751	MYL6; myosin light chain 6	-	Exosome	ko04147	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 →