Gene detail

Detailed information of XP_032242818.2 in Nematostella vectensis

Genomic Location: NC_064036.1:1534683...1543588
NR annotation: XP_032242818.2, prolyl 3-hydroxylase 2 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC5517048

ATGGCTGGCCAGTTGATCATTTCTCTATCTTTTGTAGCGTCTCTCAACTTCTTTGTCCAGGCTGATCTATTGGATAACTTGAATTTCACAAGGACAAAAACAGCGCAATACGACGAGTTGTATAACGATGGCTTGTACGCTTACAATTTGAAGAACTATTCAGCTGCCGTAAAATACTTCGAACAAGCGATAGCTGACTACAGACAGCAAAACGAAGTCAAACTTCACTGTCGCTCAACTTGCGCAGAAAAGTTTCGTAAATCGCTAGGTTTCCGTAATGTCGGGGCTGTCTTAAAGGACATTGAGTTAGAATATTTTAGATTCACTATTTTTTCGCGAAAATGCACGCAAGTATGTCGTGAGAAATACTTGGGCAAGAGGGCTGCCGTGAGTCCACGCGTGGACGAAGATTTCAAGTTCAGGAGGGCATATTCCTATCTGCATTTCGCGTATTACAAGACTGGCCAGATCATCAAAGGTGCCCGGGCTGCATACACCTTCCTGGAAACATCCCCAGATGACCAGTTCATGCTCGATAACATGAAATACTATAAGTCACTCCCCATTGTCACAGACGACCTTATGATCTCTTTTGAGCCAATGCTACACCAAGAGAAATACTTCAAGGCTGTTAAATTCTATGAAGAGCAAAAGTTTGAGCTGGCAGTTGAGGGCTTTGAGGAAACACTAAAGGAGTATTATAAGGCGTATGAGAGATGTAAGCTGATGTGTGAGGAGAAGAGGGAGAGCAACAAGATGCTTGGACGAAGCGGACTTTATGGAGTGTATGTGGATGTGTTGAGCTGTCGGGCTCAGTGTCCGATAGAACTGGCAACAGTCAAGGGGCACACAGTTGACAAATATCTGGCCAGACACTATAATTATCTGCAGATGAGTTACTGGAAAGCTGGTCAAACTCTCAAAGCTGCCGAATGTGCAACCACTTACCTCCTGCTTGATCCAGATGATGACAATATGATTGACAACCTTAAGTACTTCAGATGGTATTCCAAGGCTAATGGAGAGCAGATCCAGGCAAGAAAGGAAGTAATTGACTATTACCGTGAGGTCACCTTAGAAAGCAGGCTTCTACACCTTGCCGTGATGTACACAGATGAGGACAATATGGCTTTCTCAGACGAATTGTTTGAAGATGCTGATGCACCTGACAGTGAGGAGGACAAGAAGGATAAAGGTTTACAAATAGCAGAGGATCTCGTAGAAGGAGAGGACTCAGATTACTCAGCCATCCGTCTATCTGGCCTTGGACCTGCCAGGAGTCCAAGTGAAATCAGACCCATCCAGGAAAAACTTAAGGAAGGAAAATATCAGAATGCTGTTGTAACAATGACAGAGGACAAGCTCAATGGGAGCAATAGATTTGTTGCAGATCAGTTCATTTCTGAGGAGGAATGTAAAACTCTTATGGACCTCGCAAGGAAGACTGCCAAACTAGGAGATGGCTACAATGACCGGAGCATGCCGGATGGGAAACCTTTCTCGTTCACGGAGCAGGAGACTTTTGAAGGAGTTACTCCAGTGTCAGCGGCAAAGGCCATAATGCAAGGAAAAGTGGATATTGAGCCAGTCGATCTGTACTTAAACTCCAGCGAGAGGATGCGGGATTTCGTGGAGGATTATTTCCAACTGGAAACACCTCTGTACTTCTCATACAGCCATCTGGTCTGCAGAACGTCACTACCAGGGTCCAAGGAGAAGCAGCACATCAGTCACCCTGTGCACTCAGATAACTGTCTGTTGCACCATGACGGACCGGGCACGTGTCCCAAGCGATCGCCTGCATTCACGTGGAGAGATTATAGTGCCCTTCTGTATCTGAACGAAGACTTCGAGGGTGGCGAATTCATCTTCACACACCCCAACGAGACAATTCAGGCGGCAGTAAAACCCAAGTGTGGCCGAATGGTTGGCTTCTCGGCCGGTGTTGAGAATCTCCATGGAGTCCTCGGCGTGGAAGGTCGAAGGTGCGCGGTCGCATTGTGGTTCACGATGCGCGTCAAGCATGACGAGATGTCGCGATGGGAAGCCAAGAAACTCGTGCGCCAGGCCAAGGAAAAGATGGTAGGCAAGGAAAATCTGCAACAGCAGTTTGCCAAGCCCGATATCCAGAGCCATGCCGAGTTATAG

Transcript

rna-XM_032386927.2

GTCTCAATAGACGAGAGCACTTCATTGACTCTTGAACGAGAAACATGGCTGGCCAGTTGATCATTTCTCTATCTTTTGTAGCGTCTCTCAACTTCTTTGTCCAGGCTGATCTATTGGATAACTTGAATTTCACAAGGACAAAAACAGCGCAATACGACGAGTTGTATAACGATGGCTTGTACGCTTACAATTTGAAGAACTATTCAGCTGCCGTAAAATACTTCGAACAAGCGATAGCTGACTACAGACAGCAAAACGAAGTCAAACTTCACTGTCGCTCAACTTGCGCAGAAAAGTTTCGTAAATCGCTAGGTTTCCGTAATGTCGGGGCTGTCTTAAAGGACATTGAGTTAGAATATTTTAGATTCACTATTTTTTCGCGAAAATGCACGCAAGTATGTCGTGAGAAATACTTGGGCAAGAGGGCTGCCGTGAGTCCACGCGTGGACGAAGATTTCAAGTTCAGGAGGGCATATTCCTATCTGCATTTCGCGTATTACAAGACTGGCCAGATCATCAAAGGTGCCCGGGCTGCATACACCTTCCTGGAAACATCCCCAGATGACCAGTTCATGCTCGATAACATGAAATACTATAAGTCACTCCCCATTGTCACAGACGACCTTATGATCTCTTTTGAGCCAATGCTACACCAAGAGAAATACTTCAAGGCTGTTAAATTCTATGAAGAGCAAAAGTTTGAGCTGGCAGTTGAGGGCTTTGAGGAAACACTAAAGGAGTATTATAAGGCGTATGAGAGATGTAAGCTGATGTGTGAGGAGAAGAGGGAGAGCAACAAGATGCTTGGACGAAGCGGACTTTATGGAGTGTATGTGGATGTGTTGAGCTGTCGGGCTCAGTGTCCGATAGAACTGGCAACAGTCAAGGGGCACACAGTTGACAAATATCTGGCCAGACACTATAATTATCTGCAGATGAGTTACTGGAAAGCTGGTCAAACTCTCAAAGCTGCCGAATGTGCAACCACTTACCTCCTGCTTGATCCAGATGATGACAATATGATTGACAACCTTAAGTACTTCAGATGGTATTCCAAGGCTAATGGAGAGCAGATCCAGGCAAGAAAGGAAGTAATTGACTATTACCGTGAGGTCACCTTAGAAAGCAGGCTTCTACACCTTGCCGTGATGTACACAGATGAGGACAATATGGCTTTCTCAGACGAATTGTTTGAAGATGCTGATGCACCTGACAGTGAGGAGGACAAGAAGGATAAAGGTTTACAAATAGCAGAGGATCTCGTAGAAGGAGAGGACTCAGATTACTCAGCCATCCGTCTATCTGGCCTTGGACCTGCCAGGAGTCCAAGTGAAATCAGACCCATCCAGGAAAAACTTAAGGAAGGAAAATATCAGAATGCTGTTGTAACAATGACAGAGGACAAGCTCAATGGGAGCAATAGATTTGTTGCAGATCAGTTCATTTCTGAGGAGGAATGTAAAACTCTTATGGACCTCGCAAGGAAGACTGCCAAACTAGGAGATGGCTACAATGACCGGAGCATGCCGGATGGGAAACCTTTCTCGTTCACGGAGCAGGAGACTTTTGAAGGAGTTACTCCAGTGTCAGCGGCAAAGGCCATAATGCAAGGAAAAGTGGATATTGAGCCAGTCGATCTGTACTTAAACTCCAGCGAGAGGATGCGGGATTTCGTGGAGGATTATTTCCAACTGGAAACACCTCTGTACTTCTCATACAGCCATCTGGTCTGCAGAACGTCACTACCAGGGTCCAAGGAGAAGCAGCACATCAGTCACCCTGTGCACTCAGATAACTGTCTGTTGCACCATGACGGACCGGGCACGTGTCCCAAGCGATCGCCTGCATTCACGTGGAGAGATTATAGTGCCCTTCTGTATCTGAACGAAGACTTCGAGGGTGGCGAATTCATCTTCACACACCCCAACGAGACAATTCAGGCGGCAGTAAAACCCAAGTGTGGCCGAATGGTTGGCTTCTCGGCCGGTGTTGAGAATCTCCATGGAGTCCTCGGCGTGGAAGGTCGAAGGTGCGCGGTCGCATTGTGGTTCACGATGCGCGTCAAGCATGACGAGATGTCGCGATGGGAAGCCAAGAAACTCGTGCGCCAGGCCAAGGAAAAGATGGTAGGCAAGGAAAATCTGCAACAGCAGTTTGCCAAGCCCGATATCCAGAGCCATGCCGAGTTATAGGCGTCTAGTACAGAGGCAATTGAGTCCTCCATATTACTGCTGGTAGGCGGAGtagaaaaacataaaacaagAGCGATGTGGCGCCAAGACCGAGGTTGGTAGACGAGTTAGTGTTAGCAAGCTGACAAGCCTAGAAGCATGTAGTAATAGAGGTGAGATAGAGGTAAGAGTTGACCACACACCTCTACATAATGTGTGTGTGCTTAAATATTCGGGGCGCATATTTTTAACCACCGAAATGCTCCAGAAACTGTGTTTCGTATATCCCCCCGTATTTTTAATTCCCCTGAATagggtattccttggtgttacggagggCTTTGTTTAAtagtgctgtaggcatttgtACTCTctttcattgtctcgttctaaggtctttgtttttggcttttgttctattgtgtttttggtgctggtgctccgtaacaccaagaaactacccATAAATCATACCAACGACGAATCATTGTAAGACAGCAGTGTTCTCTTGCAAATACTCTACCGAGTGTGTTGAATGCATTTGGCAAGAGATAACAGATAGTTCGCTGTTATGACCAAGTAATTGGTTTAGAATGACAGACGTACCTTCACTCTTAGTCACTAAAGATACAAATACGGCGTGTGCTGTTATGTTAGATAggccatttaaaaaaaagaagatagGATAAAAAGCCTTCCGTGCTATATTGCGACAGATGAAGACCAGAAGAGTTTATATAAGGGTAAGGATGTGACCACGTGCTGAAAGTAACTTACAAAGAAGCTATATCGAGAGCTTTTTATAACGACTGCCCTCGTTCTGTGAGGCAGTGAGGATTGCTTTACAATTTTCTGAATTTAAAAAgataatatattataatatatagaAATTATGTATTATAAATGACCACATTTTATAGAGTTTTATATAAAAAGAGATCTTGTTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8IVL5	Prolyl 3-hydroxylase 2 OS=Homo sapiens OX=9606 GN=P3H2 PE=1 SV=1
Q4KLM6	Prolyl 3-hydroxylase 2 OS=Rattus norvegicus OX=10116 GN=P3h2 PE=1 SV=1
Q8CG71	Prolyl 3-hydroxylase 2 OS=Mus musculus OX=10090 GN=P3h2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003865 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13640 all species →	2OG-FeII_Oxy_3	2OG-Fe(II) oxygenase superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006620 all species →	Domain	Prolyl 4-hydroxylase, alpha subunit	Interproscan
IPR005123 all species →	Domain	Oxoglutarate/iron-dependent dioxygenase	Interproscan
IPR039575 all species →	Family	Prolyl 3-hydroxylase	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR044862 all species →	Domain	Prolyl 4-hydroxylase alpha subunit, Fe(2+) 2OG dioxygenase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14049 all species →	LEPRECAN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005506 all species →	Molecular Function	iron ion binding	Interproscan
GO:0016705 all species →	Molecular Function	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	Interproscan
GO:0031418 all species →	Molecular Function	L-ascorbic acid binding	Interproscan
GO:0032963 all species →	Biological Process	collagen metabolic process	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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

No KEGG orthology assignment for XP_032242818.2.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_032242818.2 across 48 RNA-seq samples of Nematostella vectensis. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

48Samples

0TPM > 0

16Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole 6 week old aboral regenerate · regenerate 96hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 144hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 0hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 2hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate uncut	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 4hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 120hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 36hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 24hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 20hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 16hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 72hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 60hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 48hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 8hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 12hpa	3	0	0.00	0.00

Per sample · hover a bar for the full sample record

Show the sample table (48 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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 Nematostella vectensis 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	none	-
Negatively correlated	0	none	-

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 Nematostella vectensis, 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.

Dataset	Tissue / stage	Cells	Cell types	This gene	Marker of
NVECT_2month	2 month animal · Adult tissues/organs	1,614	23	unmapped	–
NVECT_bodywall	body wall with mesenteries · 6-8 weeks adults	11,742	13	unmapped	–
NVECT_embryo	embryos · 8, 10 and 12 h after fertilisation (deposit labels 8h/10h/12h)	9,711	17	unmapped	–
NVECT_gastrula	Blastula-gastrula intermediate · Developmental stages	49,166	27	unmapped	–
NVECT_gastruloid	dissociated and reaggregated embryos · 4-48 hpa	36,550	8	unmapped	–
NVECT_neoplasm	neoplasm · Adult tissues/organs	2,532	16	unmapped	–
NVECT_nervous	Gastrula Cells · nervous system	16,590	27	unmapped	–
NVECT_notch48h	embryos treated 24-48 hpf (DMSO vs LY411575) · 48 hpf	19,044	7	unmapped	–
NVECT_tentacle	tentacle · Adult tissues/organs	7,977	19	unmapped	–

A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it. unmapped means the dataset has no gene-ID table on CnidoSite, so no claim is made either way. Marker statistics: log2 fold change and the percentage of cells in that type with the gene detected.

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.

Peak calls overlapping this gene

Assay	Sample	Peaks	Region

No called peak overlaps this gene in 2 available assays. Either the gene is not near an accessible or marked region in those samples, or it is not represented in the peak caller’s annotation.

Browse the full epigenomic landscape of this species: ChIP-seq · ATAC-seq.

DNA methylation (bisulphite samples)

Sample	Methylation profile
Whole_adults	open

The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.

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.	not in the sequence table	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.	not in the sequence table	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.	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 →