Gene detail

Detailed information of ENSBQFP00000012042 in Heliopora coerulea

Genomic Location: JASJOG010000016.1:2490540...2512431
NR annotation: XP_028405689.1, calpain-5-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000013367

tcatctaccttacaTTAtcaGTTTAAAAACCAGAGTTATTCTAAACTGAAGAAGAAATGCCAAACAGAGGGAAAACTCTTCGTGGATCCTGAGTTTCCTCCGGAGGTAAAATCTATGTACTACAGTCGACCGATGGCTCCTGAGTCCATAGAATGGAAAAGACCGAAGGACATTTGTGAAGATCCTCACCTGTTTGTCAGTGGTATTGATACTAAAGACGTTACCCAAGGGAAGCTAGGTAACTGCTGGTTTGTGGCTGCATGTGCTCTTGTAGCCCAAGAAGCGGTATTTTGGCGAAAGGTTATTCCCGACTCAGAAAAACAAGAGTGGGATCCTGCTAAGCCAAATGAGTATCAAGGGATTTTTAGATTCCGATTTTGGCGTTTTGGACAGTGGTGTGAGGTTGTCGTTGATGATCTTCTACCAACCCATAATGGAGAACTTGTTTACGTACGTTCCACAGCAAAGAATGAATTTTGGAGTGCTTTGGTCGAAAAGGCCTATGCAAaAATTAATGGTTGTTACGAAGTGCTAGAAGGAGGAAATACCGCTGATGCACTGGCTGATTTTACTGGTGGTGTAGCTGAACCGATCGATATTGTTGATGGAGGATACAGTACGGACAGTGACAAGAGAATGCAGTTATATAAGGAACTGTCAGATGCCATGAAACATAATCATGCTCTTATTAGTGCATCAATCAGAACAAAAGATGCAGCAGAGGTTGAAAAGCGAACCGAAAATGGATTGGTGTTAGGTCATGCTTATGGTGTCACGGCGATCAAAAAGATAACGTTAGGGGAAGGATTTTTGAGTCTGTTTAATCGACACTACCTGTACTTGATTCGTTTGAGAAATCCGTGGGGACAGAAAGAATGGAAAGGAGCCTGGAGTGATGGCTCTCCCGAGTGGAATAAGTTGAAAGCTAGTGACAGAGAAAAACTTGGCATAGTTTTTGAGGAAGATGGCGAATTTTGgATGTCGTTTGAGGACTTTTGCACATATTTTACGACCGCAAATGTTTGTCATGTACCAAATACGAAGGTTCTGAGCGTCCGTAAACGGTGGCGTGCCGCTGTCCACAAAGGAAAATGGCAGTCTGGGGTAAATGCTGGTGGATGTGTCAACAATAAGGATACCTTTTTCAAAAACCCACAATATGCTTTTACCGTCAGCGATGATAAACACCGTCACTGCTTAGTGGCATTGCAGCAAAAAGATAGCAGACCAGAAAAAGCTCAAGGAAAAGAAGCATTAACTATTGGCTTTTTTATCATGCGAGTAGAAGTAAATCGGCAGTATCGTCTTCACTCATCCATGGAGAAAGCTGGATCCTCAATATTCATTAACGCACGTGAGGTGTTTTGTAAGCTAGAATTGGATGCAGGACGTTACATTATTGTCCCATCCACGTTCGATCCGAACAATGATGGCGAATATATGCTAAGGATATACACCGAGAAAAGTGGAAAATCCAGGTGGgtgttaaaaaagaaatcctTAAAAATGCATAGACACTTGTTTCGACATCACTTGGCGTCGACCTGTATTTCTAAGCTGCTATTCTTTTATTGCAACAGAGAATTGACAAAGGACAACGACAAAGCATCTCCTTTTCTGTGTTGTATTCCGAAGTACGGAACTCCAAATTGCGTCCTGTCAGTAACAGTAATAAGCGGCAGTGGCTTGAAAAAGATGAGGGCTGATCCTTATTGTATTATCAGTTGTGATGGGAGAAAGGTGAAAACCCCGGTGCAAAACGACACGCTTAATCCAAAGTTCAATGCGGGAGGCTTATTTTATGCACGAAACGTAAACAGCGTCTTTGACAGTAACATCTTTTGTGATAGTTTCATGGGTCGTGCTACCATTCCTGTCGCAGTCAACGACAAGACTGTACAACAGTCAGTTCAGCTAAAAGGAAGAGGTCGTCGGGTCAGTGAAGAAATGCCAGGCACGCTTACTGTAAAGATTGCTTGTTACGCTGAATTACAGTCCATTTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O08688	Calpain-5 OS=Mus musculus OX=10090 GN=Capn5 PE=1 SV=1
Q8R4C0	Calpain-5 OS=Rattus norvegicus OX=10116 GN=Capn5 PE=1 SV=1
O15484	Calpain-5 OS=Homo sapiens OX=9606 GN=CAPN5 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000855 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00648 all species →	Peptidase_C2	Calpain family cysteine protease	Family	Interproscan
PF01067 all species →	Calpain_III	Calpain large subunit, domain III	Domain	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001300 all species →	Domain	Peptidase C2, calpain, catalytic domain	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR033884 all species →	Domain	Calpain C2 domain	Interproscan
IPR050420 all species →	Family	Calpain	Interproscan
IPR022683 all species →	Domain	Peptidase C2, calpain, domain III	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR022684 all species →	Family	Peptidase C2, calpain family	Interproscan
IPR000169 all species →	Active_site	Cysteine peptidase, cysteine active site	Interproscan
IPR022682 all species →	Domain	Peptidase C2, calpain, large subunit, domain III	Interproscan
IPR033883 all species →	Domain	Calpain subdomain III	Interproscan
IPR036213 all species →	Homologous_superfamily	Calpain large subunit, domain III superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10183 all species →	CALPAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004198 all species →	Molecular Function	calcium-dependent cysteine-type endopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K08574	CAPN5; calpain-5	EC:3.4.22.-	Peptidases and inhibitors	ko01002	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000012042 across 37 RNA-seq samples of Heliopora coerulea. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

37Samples

36TPM > 0

6Conditions

246.7Max TPM

95.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	66.29	86.62
polyp and skeleton · 31C, 3week	6	6	121.73	154.49
polyp and skeleton · 28C, 3week	6	5	95.20	125.48
polyp and skeleton · 26C, 3week	4	4	161.94	246.71
polyp and skeleton · 28C, 24hr	2	2	112.64	120.90
polyp and skeleton · 31C, 24hr	2	2	111.59	127.78

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	86.62
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	80.94
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	79.80
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	78.34
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	74.59
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	74.35
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	71.50
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	67.04
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	65.86
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	65.49
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	64.72
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	61.50
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	60.72
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	58.29
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	48.24
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	44.53
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	44.34
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	154.49
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	153.94
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	129.72
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	127.72
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	82.57
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	81.93
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	125.48
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	122.73
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	115.14
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	106.40
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	101.47
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	0.00
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	246.71
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	167.59
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	126.38
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	107.08
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	120.90
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	104.38
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	127.78
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	95.40

Source: CnidoSite RNA-seq expression matrices (HCOER_TPM, StringTie quantification over 37 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

Co-expression network

Genes whose expression across the transcriptome samples of Heliopora coerulea 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.

Direction	Partners	Most correlated partner	PCC
Positively correlated	27	ENSBQFP00000020396	0.890420440551037
Negatively correlated	27	ENSBQFP00000049620	-0.7926591919349

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, 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.	template found	open →
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.	template found	open →
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.	ready	open →
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 →