Gene detail

Detailed information of HSymV2.0_g11.19348_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_11:6165353...6173900
NR annotation: XP_047131140.1, dnaJ homolog subfamily A member 2-like [Hydra vulgaris]
Species Hydractinia symbiolongicarpus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O60884	DnaJ homolog subfamily A member 2 OS=Homo sapiens OX=9606 GN=DNAJA2 PE=1 SV=1
Q2HJ94	DnaJ homolog subfamily A member 2 OS=Bos taurus OX=9913 GN=DNAJA2 PE=2 SV=1
Q9QYJ0	DnaJ homolog subfamily A member 2 OS=Mus musculus OX=10090 GN=Dnaja2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002385 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00226 all species →	DnaJ	DnaJ domain	Domain	Interproscan
PF00684 all species →	DnaJ_CXXCXGXG	DnaJ central domain	Domain	Interproscan
PF01556 all species →	DnaJ_C	DnaJ C terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036869 all species →	Homologous_superfamily	Chaperone J-domain superfamily	Interproscan
IPR001623 all species →	Domain	DnaJ domain	Interproscan
IPR036410 all species →	Homologous_superfamily	Heat shock protein DnaJ, cysteine-rich domain superfamily	Interproscan
IPR008971 all species →	Homologous_superfamily	HSP40/DnaJ peptide-binding	Interproscan
IPR018253 all species →	Conserved_site	DnaJ domain, conserved site	Interproscan
IPR001305 all species →	Domain	Heat shock protein DnaJ, cysteine-rich domain	Interproscan
IPR044713 all species →	Family	DnaJ homolog subfamily A member 1/2-like	Interproscan
IPR012724 all species →	Family	Chaperone DnaJ	Interproscan
IPR002939 all species →	Domain	Chaperone DnaJ, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43888 all species →	DNAJ-LIKE-2, ISOFORM A-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0031072 all species →	Molecular Function	heat shock protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0030544 all species →	Molecular Function	Hsp70 protein binding	Interproscan
GO:0042026 all species →	Biological Process	protein refolding	Interproscan
GO:0051087 all species →	Molecular Function	protein-folding chaperone binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0009408 all species →	Biological Process	response to heat	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
K09503	DNAJA2; DnaJ homolog subfamily A member 2	-	Mitochondrial biogenesis	ko03029	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of HSymV2.0_g11.19348_t1 across 44 RNA-seq samples of Hydractinia symbiolongicarpus. 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.

44Samples

44TPM > 0

3Conditions

979.8Max TPM

334.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	338.43	979.83
Whole embryo · Triptolide 20 uM	4	4	300.01	377.61
Whole embryo · DMSO 0.5%	4	4	330.17	398.49

Per sample · hover a bar for the full sample record

Show the sample table (44 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	979.83
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	891.83
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	761.72
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	703.18
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	495.72
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	402.50
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	391.94
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	386.25
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	379.33
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	346.87
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	330.75
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	322.23
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	319.62
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	307.95
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	297.26
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	296.71
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	296.37
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	284.28
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	275.82
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	274.67
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	274.34
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	255.45
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	235.55
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	227.75
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	226.80
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	225.51
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	224.70
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	222.52
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	221.28
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	213.19
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	208.01
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	199.94
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	184.88
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	184.60
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	175.71
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	158.44
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	377.61
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	334.87
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	253.64
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	233.93
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	398.49
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	385.45
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	279.13
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	257.62

Source: CnidoSite RNA-seq expression matrices (HSYMB_TPM, StringTie quantification over 44 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 Hydractinia symbiolongicarpus 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	18	HSymV2.0_g06.10131_t1	0.980848145557564
Negatively correlated	16	HSymV2.0_g08.13615_t1	-0.941502322310271

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 Hydractinia symbiolongicarpus, 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 →