Gene detail

Detailed information of HSymV2.0_g15.25535_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_15:9870167...9881921
NR annotation: XP_002162378.3, beta-hexosaminidase subunit alpha [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
Q5RC84	Beta-hexosaminidase subunit alpha OS=Pongo abelii OX=9601 GN=HEXA PE=3 SV=1
P06865	Beta-hexosaminidase subunit alpha OS=Homo sapiens OX=9606 GN=HEXA PE=1 SV=2
Q641X3	Beta-hexosaminidase subunit alpha OS=Rattus norvegicus OX=10116 GN=Hexa PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000994 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00728 all species →	Glyco_hydro_20	Glycosyl hydrolase family 20, catalytic domain	Domain	Interproscan
PF14845 all species →	Glycohydro_20b2	beta-acetyl hexosaminidase like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029018 all species →	Homologous_superfamily	Beta-hexosaminidase-like, domain 2	Interproscan
IPR025705 all species →	Family	Beta-hexosaminidase	Interproscan
IPR015883 all species →	Domain	Glycoside hydrolase family 20, catalytic domain	Interproscan
IPR029019 all species →	Domain	Beta-hexosaminidase, eukaryotic type, N-terminal	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22600 all species →	BETA-HEXOSAMINIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004563 all species →	Molecular Function	beta-N-acetylhexosaminidase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0006689 all species →	Biological Process	ganglioside catabolic process	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030203 all species →	Biological Process	glycosaminoglycan metabolic process	Interproscan
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	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
K12373	HEXA_B; hexosaminidase	EC:3.2.1.52	Chaperones and folding catalysts	ko03110	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_g15.25535_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

584.1Max TPM

360.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	337.22	513.06
Whole embryo · Triptolide 20 uM	4	4	479.63	584.11
Whole embryo · DMSO 0.5%	4	4	448.68	509.15

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
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	513.06
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	486.02
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	477.37
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	470.34
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	451.82
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	441.09
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	432.79
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	424.71
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	423.39
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	410.10
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	402.03
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	400.72
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	398.54
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	379.97
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	359.73
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	358.97
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	356.19
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	355.40
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	346.41
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	342.76
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	337.81
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	333.42
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	333.23
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	329.37
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	326.38
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	320.69
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	317.19
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	305.28
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	302.86
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	276.15
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	168.37
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	122.42
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	121.72
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	114.16
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	102.50
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	96.94
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	584.11
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	482.97
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	434.79
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	416.64
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	509.15
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	500.10
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	399.48
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	385.99

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	27	HSymV2.0_g09.15248_t1	0.985637391614378
Negatively correlated	6	HSymV2.0_g12.20973_t1	-0.891606507561779

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 →