Gene detail

Detailed information of ENSBQFP00000003377.1 in Heliopora coerulea

Genomic Location: JASJOG010000006.1:3831471...3874573
NR annotation: XP_028416815.1, DNA replication licensing factor MCM6-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000003757

ATGGATGTTGCAGATAGAATTGTTGGGGGTATTCATCTCCGAGATCAATTAGCAGAACACTGTCAAAAGCTATTTCAAGATTTCCTAGAAGATTTCAAGGCTGAAGgtgaaaacaaatatttaaatgaagttCAAGAATTGATTAGACCTGAAAGGAACACTTTGACAGTTAGTTTCAATGATATTGAAAGTTACAATTCAAAACTAAGTACCATCATACAAGAAGAGTATTACAGAGTATTTCCATACTTGTGCAATGCTGTCCATAACTTTGCTCATGATAGATTCTCTGGTGACAGTGGACAAATTCCTCCTGGTAAAGATTTTTATGTCAGTATCACAGAACTTCCTACCAGACACAAAATACGTGAACTAACATCTCAAAAGATTGGAACATTACTTCGTATCACAGGTCAAGTCGTAAGAACACACCCTGTTCACCCAGAGCTTGTGAGTGGAACATTTATTTGCCTTGATTGCCAGACAGTCATTAAAGATGTTGAGCAGCAGTTTAAATACACTCAGCCAACTGTCTGCAGAAATCCTGTTTGCCAGAACAGGGCACGTTTCATGCTGGATGTCAATAAATCTAAGTTTGTAGACTTTCAGAAAGTGAGAGTTCAAGAAACACAAGCAGAACTACCACGAGGCAGCATTCCAAGAAGTTTGGAAATTATTTTGAGAGCTGAAGCTGTTGAGCAAGCCCAGGCTGGAGATAAATGTGATTTCACAGGCACACTAATTGTAGTCCCAGACGTCTCAAAACTGCAAATGCCCGGTGCTCGTGCAGAGACATCCGAAAGACAAACTGGTGGAGAGGGTTATAACACAGACGGTGTCAGGGGTCTGAAAGCTCTTGGTGTTCGTGATCTGTCTTACAGATTAGCATTTTTAGCATGCAGTGTTGAATCAACTAATCCAAGGTTTGGAGGGAAAGACTTGGATGGTGATATGACAGCTGAGATGATTAAGAAACAAATGACTGATCATGAATGGGAGACGATTTACAAGATGACTAAAGACAAGAATTTGTATCAAAACCTAATCAACAGTATTTTCCCTACTATACATGgtaaTGATGAAGTGAAGCGAGGGATTTTGCTGATGTTGTTTGGGGGAGTTCCAAAAGTTACTCTTGAAGGAACGACTCTAAGAGGAGATATTAATGTTTGTGTGGTTGGTGACCCAAGTACGGCAAAAAGTCAATTCTTAAAACAAGTTGAAGAGTTTAGCCCTAGGGCAGTGTACACATCAGGAAAAGCTTCCAGTGCTGCTGGTTTAACAGCAGCGGTAGTTAAAGATGAAGAATCTCATGAATTTGTAATTGAAGCTGGAGCGCTGATGTTAGCAGATAATGGAGTTTGCTGTATTGATGAATTTGACAAAATGGATATTCGAGATCAAGTGGCTATTCACGAGGCTATGGAACAGCAAACCATATCTATAACAAAAGCGGGAGTCAAGGCAACTTTAAACGCAAGAACGTCAATATTAGCTGCTGCAAATCCCATTGGAGGCCGTTATGACAGAACCAAATCCTTAAAGaacAACTTGAATTTATCAGCCCCAATCATGTCACGTTTTGACTTGTTTTTCATCCTCGTGGATGACTGCAATGAAGTAACAGATTATGCAATTGCCAGGCGCATTGTCGATTTACACAGCCACATGGAAGAGTCTGTTGAGCGATTTTACAGTGTGGAAGATGTCCAGCGCTATATGTTATTTGCCAGACAGTTCAAACCATTGATCAGCAAAGATGCTCAAGATTTCTTTGTTCAGCAGTACAAACATCTTCGTCAGAGGGATTCTTCAGGTGTCGCCAAGACATCTTGGAGGATCACTGTGCGTCAATTAGAAAGCATGATCAGGTTGTCTGAGGCAATGGCAAAGATGTACTGTCAAGACACTGTTCAACCAAAGCATGTGAAAGAAGCATTTCGATTGTTGAATAAATCTATCATTAGGGTTGAAACGCCAGATATACAATtcaatgatgatgaagatgaaccAGAAGAAATGGACGAAGATGATCATGATGAGCCTTCGCAAAATGGGATGTTGAATGGCTACAGCCATGACGATGTTTCAACTGATCAAACTGCCGCTTCAAAGCCAAGGGTCCGTTTATCCTATGAGGACTACAAAAACATGGCCAATCTTATGGTCATGTATATTagacaagaagaagaaaagcGAGGAGACGATGGAGAAGGCTTACACAGAAGTGATGTGGTCAACTGGTATTTGCAGGAAGTGGAGGGAGATATTGAAACTGAGCAACAATTAGCACAAAAGAAATTCTTGGTGGACAAAGTGCTTGACAGACTTATTGGTCATGACCACGTTATTTTGGCCTTGCAACAACAAGATGTTCCTGACAAAGATTCtcaagatgaagatgaagaccCCTTCCTTGTTGTCCATCCTAACTATGTAATAGAATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q14566	DNA replication licensing factor MCM6 OS=Homo sapiens OX=9606 GN=MCM6 PE=1 SV=1
Q2KIZ8	DNA replication licensing factor MCM6 OS=Bos taurus OX=9913 GN=MCM6 PE=2 SV=1
P97311	DNA replication licensing factor MCM6 OS=Mus musculus OX=10090 GN=Mcm6 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004180 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00493 all species →	MCM	MCM P-loop domain	Domain	Interproscan
PF17207 all species →	MCM_OB	MCM OB domain	Domain	Interproscan
PF18263 all species →	MCM6_C	MCM6 C-terminal winged-helix domain	Domain	Interproscan
PF14551 all species →	MCM_N	MCM N-terminal domain	Domain	Interproscan
PF17855 all species →	MCM_lid	MCM AAA-lid domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR008049 all species →	Family	DNA replication licensing factor Mcm6	Interproscan
IPR001208 all species →	Domain	MCM domain	Interproscan
IPR033762 all species →	Domain	MCM OB domain	Interproscan
IPR041024 all species →	Domain	Mcm6, C-terminal winged-helix domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR018525 all species →	Conserved_site	Mini-chromosome maintenance, conserved site	Interproscan
IPR031327 all species →	Family	Mini-chromosome maintenance protein	Interproscan
IPR027925 all species →	Domain	MCM, N-terminal domain	Interproscan
IPR041562 all species →	Domain	MCM, AAA-lid domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11630 all species →	DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003678 all species →	Molecular Function	DNA helicase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006270 all species →	Biological Process	DNA replication initiation	Interproscan
GO:0042555 all species →	Cellular Component	MCM complex	Interproscan
GO:0032508 all species →	Biological Process	DNA duplex unwinding	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0000727 all species →	Biological Process	double-strand break repair via break-induced replication	Interproscan
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0006268 all species →	Biological Process	DNA unwinding involved in DNA replication	Interproscan
GO:0017116 all species →	Molecular Function	single-stranded DNA helicase activity	Interproscan
GO:1902969 all species →	Biological Process	mitotic DNA replication	Interproscan
GO:1990518 all species →	Molecular Function	single-stranded 3'-5' DNA helicase activity	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
K02542	MCM6; DNA replication licensing factor MCM6	EC:5.6.2.3	DNA replication proteins	ko03032	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000003377.1 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

36.4Max TPM

19.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	20.62	30.19
polyp and skeleton · 31C, 3week	6	6	19.98	36.39
polyp and skeleton · 28C, 3week	6	5	12.68	20.69
polyp and skeleton · 26C, 3week	4	4	24.17	31.19
polyp and skeleton · 28C, 24hr	2	2	13.12	14.11
polyp and skeleton · 31C, 24hr	2	2	20.45	20.63

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
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	30.19
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	29.67
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	23.08
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	22.96
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	22.94
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	22.17
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	21.98
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	20.64
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	20.42
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	19.95
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	19.77
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	19.48
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	17.98
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	17.42
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	16.43
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	13.43
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	11.99
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	36.39
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	19.16
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	19.09
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	16.96
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	16.51
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	11.79
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	20.69
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	15.60
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	15.53
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	14.89
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	9.39
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	0.00
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	31.19
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	24.49
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	22.37
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	18.65
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	14.11
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	12.14
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	20.63
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	20.27

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	0	not in this network	-
Negatively correlated	37	ENSBQFP00000011865	-0.651406246862194

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. Partner counts were matched on ENSBQFP00000003377, the spelling this network uses.

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 →