Gene detail

Detailed information of HSymV2.0_g06.10732_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_6:19546881...19580044
NR annotation: XP_047145190.1, DNA mismatch repair protein Msh6-like [Hydra vulgaris]
Species Hydractinia symbiolongicarpus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

HSymV2.0_g06.10732_t1

ATGAAGAATTTATTAAATTACTTCAAGAAGTCTCCAAAATCTGTTCCTAACAGAGCTGTTTGTACCAACAATGTCAAAGATAACAGTACGACATTGCAATATGTCGCTGGTGAAATCGTATGGGCAAAATTTGAGGGATTTCCATATTGGCCTGGCATGATATGCGAGGACCCTAATAGTAAGTCATGCAAACAAGTAAAGGAAAATGTGGCGATGTTCCATGTTCAATTTTTTGGTGAGGAACCAACACATGAATGGGTTATAAGAAGCAAAATTGAAGCATTTGATACGAGACAACCTACAGACAATGATGGGGACATGAAAATTGCTTATGATCAAGCTGTAGATGCCAGCAAGCAATCAACCAAAGAAAGAATTGATAACTTCTATGCATGTGTAGTGTCTGATGATGACGATACAAAAGAAAACAACAATACCAGTATGGAAATTAAAAATTCAATCAATGGAAAGTCAAAAAAGAGGACTATATCAGATTCAACTTCAAAATCACGAAAACGCATCAAAATGTCTATAGAATCAGAGAGTGAGGATATGGAAAGTGAAGACGAAGACAGTTCCTATGAACCTGATTCTGATGATGGAAAAAATGATGACGGGGATTATAAATCAGATGAGGTTGAAAGTGAAGTTGAAGAAGATGACGATGATGTGGCAGAAGACGAAGAGGTTAAATCAAAAAAGAGAAAAACCAGAAAGAGTGTTGGGACACCAACTTCCATCAAAAAAAGAAAAGAAGACAACAATAACAACAACAATGTCAAAAGAAAAAGTGTTTCGTCAAATAATTCATCATTTTTAACACCTGTCAAGCCAATAAATTTAAACAATTCCATATCAAAGGCTCAATCAACATTGGCTAAATTTTCGTCACCCTCTGTTGCATCAAGTCCTTCACAAAGTTTTGAATGTACCGAACAACAGTTCACGCATCTATCGCTAAAATTTTTATGGGATGGTCATCGAAAGGATAAAAATGGTAACTTGCACACACATTCAGAATATGATTCACGGACATTACATGTACCAGACAGCTATATAAACTCAAAAGAAGTAACTCCTGGTATGAAGCAGTGGTGGCAAATAAAGATTAACAACTATGATACCATCTTGTTTTTTAAGGTTGGAAAGTTCTATGAGCTATATCATATGGATGCAACTGTTGGTGTTAAAGAACTTGGTCTTATTTACATGAGGGGAAAATTTGCTCATTGTGGATTTCCAGAAATTGCTTTTTCACGGTACTCAGAAGTTCTGATCCAAAGAGGCTATAAGGTTGCAAGAGTTGAGCAAACAGAGACACCGCAATCACTCAGTGCAAGAGGGGGTGGCAAGGTTGTCCGAAGAGAAGTCTGTGCTGTCATCAGTAAAGGCACAAGGACCTTCAGTTTCATGGAAGGACAATCTGACTCCGACGTGTCATCATATCTTCTAGCTTTTATAGAAAAGCCATGCCAAGATGTTTGTCTTGGTGGCAGTGTCTTTGGTGTGTGTTTCGTAGATACGTCAATTGGTAAATTTCATCTCGGCCAGTTTAAAGATGATCGTCAGTGTTCCAGATTTTTAACAATGATATCTCAATTTCCTCCTGCACAGATTCTTTATGAAAGACACAATCTTTCACCAAAAGTAAAACATATATTGAATCACGAACTACTTCCAGCAATAAAGGACCCACTGACTCCAGGAACTGAATTTTGGAATGCATCAAAAACATTAAAACATTTATACGAAAAGAATTATTTCAACGATGAGGACAAAGCAGCTTCAATTGAATGGCCACCACTTTTGAAACAGATGTTGTCTAATGCCGATTCACTTGGATTAGAAGCTTCTGAAGATTACCAATATGCAATTAGTTCTCTTGGTGCTTGTACTTGGTATTTAAAGAAATGCTGTATTGATCAGGAGCTGTTGTCAATGTCACAGTTTGAGGAGTACGTTCCTGCAGATAATATCACGAAAAGAAAAATTGATCATTCAATGCCACAATATATGATTTTGGATGGAGTTACGCTAACAAATCTCGACATCGTTGTAAATACTGATGGAACAACTGAGGGTACCCTTTTGGAATTGCTTGATCACTGTGCAACACCTTTTGGAAAGAGATATTTTATCCAATGGCTTTGTTCACCTTCGTGCAGTAAGAAGTCAATTGAAAGCAGATTGGACGCGATAGAGAATTTAATGACAAATTCTTCTCTGATGCATGAAGTGAAAGAGATAATGAAAACGATGCCTGATCTAGAACGTATTTTGAGAAGAATTCACAGTCTTGGATCAGTGAGACGCAGTCAAGACCATCCAGATAGTAGGGCAGTGTTTTATAATGAAGAAACATATAGTAAAAAGAAAATAGGCGATTTGATATCTGCATTAGATGGTTTTACGAAAGCTTCGCAAGTGGTTGAGATTTTACAGGCTAATTTATCCTTGCTCAGCTCAACGTGGCTTAAATCGCTCTTGATAAAAGATGAAAATAATACTGTTGGCAAATATCCAGATATGTCTTCCACTTTAAAGTTTTTTCAGCATGCTTTTGATCATAAAAAGGCAAAAGAAACTGGAACCATACATCCTAAGAAAGGTGTCCATCCTGCGTATGATTCCGCCATGAATGAAATTAACTTGCTCAAGGATAAGTTGGATGATTATTTGAAACAACAACGAAAGAGGATGGGATGTTCAAGCATAAATTATTGGGGAACAGGAAAGAACCGATATCAACTTGAAATTCCTGAGTCAGCACTTCGCTCTTCCCCTCCGAATGATTACCATTTAAAATCTCAAAAGAAAGGATTTAAGCGATATAGCTCTGATAAAATTGATGAGTTGAATGAACAATTAACAGCCGCGGAGGAGAGTCGTGATGCTGCGTTGAAAGACACAATGCGGAACATCTTCAATCAATTCGATAAAGAGTATTCGAAGTGGGAAACGGCTGTGCGATGTTTGGCCACTTTGGACTGCTTGATGTCGTTAGCTTGTTACAGCAACAATATTGACGGAGTTTCGTGCCGTCCGGAAATTATTGATCCTATTGATGAAGAGGGGAATGAAATACAGCCATTTTTTGAACTATTGAATTGTCGTCATCCATGCATTAGTCAGAAGGCTTTGAATGGTGGCGATTTCATACCGAACGATATTGTGTTGGGAAAACAGGCTGGAAGTAGCAGCACTTCACCAAGTTGTGTGTTGATAACAGGTCCAAATATGGGCGGAAAATCAACTTTAATGCGCCAAGCGGGCGTTATACTTATCATGGCGCAACTTGGTTGTCACGTACCAGCAGAGGTGTGCAGATTCACTCCTGTGGATAGAGTATTCACAAGACTTGGTGCTAGGGACAGGATTCTTCATGGTGAAAGCACTTTCTTTGTGGAGCTGAGTGAAACATCAACAATATTCCAACATGCAACCAAGCATTCTTTAGTATTGCTGGACGAGCTTGGTCGCGGTACTGCGACGTACGATGGCACCGCTATCGCTTCCGCCGTCGTGCATGACTTAGCCAACAGAATCGGTTGTCGTACATTATTCTCTACTCATTACCATTCTTTGGTGGAAGAGTTTAGTCAAGATGTCAACATAAGTCTCGGACACATGGCTTGTATGGTAGAAAAGGATGAGGAAGACGACGACCCTACGAACGAAACAATCACCTTTCTTTATAAATTCACATCTGGAGCGTGTCCAAAAAGTTATGGTTTCAATGCTGCTAAGCTTGCTGGCTTGCCCCTATCTATAATAAAATCTGCACACGCGAAAGCAGCCTTGTTCGAAACTTCGACAAAAAACAGTCGTTTATTGAGGTCTGTGCTCAATTCGTCTGCTGAACAGTTGAGAGGTCGTCTGCAACAAGTAATCTGA

Transcript

HSymV2.0_g06.10732_t1

AATTGACTGTTTTTTGTTGTTTTCCTGGTTGTTCAGTTATTTGTCACTTTTCTATAGTTTAGGTAATGAAGAATTTATTAAATTACTTCAAGAAGTCTCCAAAATCTGTTCCTAACAGAGCTGTTTGTACCAACAATGTCAAAGATAACAGTACGACATTGCAATATGTCGCTGGTGAAATCGTATGGGCAAAATTTGAGGGATTTCCATATTGGCCTGGCATGATATGCGAGGACCCTAATAGTAAGTCATGCAAACAAGTAAAGGAAAATGTGGCGATGTTCCATGTTCAATTTTTTGGTGAGGAACCAACACATGAATGGGTTATAAGAAGCAAAATTGAAGCATTTGATACGAGACAACCTACAGACAATGATGGGGACATGAAAATTGCTTATGATCAAGCTGTAGATGCCAGCAAGCAATCAACCAAAGAAAGAATTGATAACTTCTATGCATGTGTAGTGTCTGATGATGACGATACAAAAGAAAACAACAATACCAGTATGGAAATTAAAAATTCAATCAATGGAAAGTCAAAAAAGAGGACTATATCAGATTCAACTTCAAAATCACGAAAACGCATCAAAATGTCTATAGAATCAGAGAGTGAGGATATGGAAAGTGAAGACGAAGACAGTTCCTATGAACCTGATTCTGATGATGGAAAAAATGATGACGGGGATTATAAATCAGATGAGGTTGAAAGTGAAGTTGAAGAAGATGACGATGATGTGGCAGAAGACGAAGAGGTTAAATCAAAAAAGAGAAAAACCAGAAAGAGTGTTGGGACACCAACTTCCATCAAAAAAAGAAAAGAAGACAACAATAACAACAACAATGTCAAAAGAAAAAGTGTTTCGTCAAATAATTCATCATTTTTAACACCTGTCAAGCCAATAAATTTAAACAATTCCATATCAAAGGCTCAATCAACATTGGCTAAATTTTCGTCACCCTCTGTTGCATCAAGTCCTTCACAAAGTTTTGAATGTACCGAACAACAGTTCACGCATCTATCGCTAAAATTTTTATGGGATGGTCATCGAAAGGATAAAAATGGTAACTTGCACACACATTCAGAATATGATTCACGGACATTACATGTACCAGACAGCTATATAAACTCAAAAGAAGTAACTCCTGGTATGAAGCAGTGGTGGCAAATAAAGATTAACAACTATGATACCATCTTGTTTTTTAAGGTTGGAAAGTTCTATGAGCTATATCATATGGATGCAACTGTTGGTGTTAAAGAACTTGGTCTTATTTACATGAGGGGAAAATTTGCTCATTGTGGATTTCCAGAAATTGCTTTTTCACGGTACTCAGAAGTTCTGATCCAAAGAGGCTATAAGGTTGCAAGAGTTGAGCAAACAGAGACACCGCAATCACTCAGTGCAAGAGGGGGTGGCAAGGTTGTCCGAAGAGAAGTCTGTGCTGTCATCAGTAAAGGCACAAGGACCTTCAGTTTCATGGAAGGACAATCTGACTCCGACGTGTCATCATATCTTCTAGCTTTTATAGAAAAGCCATGCCAAGATGTTTGTCTTGGTGGCAGTGTCTTTGGTGTGTGTTTCGTAGATACGTCAATTGGTAAATTTCATCTCGGCCAGTTTAAAGATGATCGTCAGTGTTCCAGATTTTTAACAATGATATCTCAATTTCCTCCTGCACAGATTCTTTATGAAAGACACAATCTTTCACCAAAAGTAAAACATATATTGAATCACGAACTACTTCCAGCAATAAAGGACCCACTGACTCCAGGAACTGAATTTTGGAATGCATCAAAAACATTAAAACATTTATACGAAAAGAATTATTTCAACGATGAGGACAAAGCAGCTTCAATTGAATGGCCACCACTTTTGAAACAGATGTTGTCTAATGCCGATTCACTTGGATTAGAAGCTTCTGAAGATTACCAATATGCAATTAGTTCTCTTGGTGCTTGTACTTGGTATTTAAAGAAATGCTGTATTGATCAGGAGCTGTTGTCAATGTCACAGTTTGAGGAGTACGTTCCTGCAGATAATATCACGAAAAGAAAAATTGATCATTCAATGCCACAATATATGATTTTGGATGGAGTTACGCTAACAAATCTCGACATCGTTGTAAATACTGATGGAACAACTGAGGGTACCCTTTTGGAATTGCTTGATCACTGTGCAACACCTTTTGGAAAGAGATATTTTATCCAATGGCTTTGTTCACCTTCGTGCAGTAAGAAGTCAATTGAAAGCAGATTGGACGCGATAGAGAATTTAATGACAAATTCTTCTCTGATGCATGAAGTGAAAGAGATAATGAAAACGATGCCTGATCTAGAACGTATTTTGAGAAGAATTCACAGTCTTGGATCAGTGAGACGCAGTCAAGACCATCCAGATAGTAGGGCAGTGTTTTATAATGAAGAAACATATAGTAAAAAGAAAATAGGCGATTTGATATCTGCATTAGATGGTTTTACGAAAGCTTCGCAAGTGGTTGAGATTTTACAGGCTAATTTATCCTTGCTCAGCTCAACGTGGCTTAAATCGCTCTTGATAAAAGATGAAAATAATACTGTTGGCAAATATCCAGATATGTCTTCCACTTTAAAGTTTTTTCAGCATGCTTTTGATCATAAAAAGGCAAAAGAAACTGGAACCATACATCCTAAGAAAGGTGTCCATCCTGCGTATGATTCCGCCATGAATGAAATTAACTTGCTCAAGGATAAGTTGGATGATTATTTGAAACAACAACGAAAGAGGATGGGATGTTCAAGCATAAATTATTGGGGAACAGGAAAGAACCGATATCAACTTGAAATTCCTGAGTCAGCACTTCGCTCTTCCCCTCCGAATGATTACCATTTAAAATCTCAAAAGAAAGGATTTAAGCGATATAGCTCTGATAAAATTGATGAGTTGAATGAACAATTAACAGCCGCGGAGGAGAGTCGTGATGCTGCGTTGAAAGACACAATGCGGAACATCTTCAATCAATTCGATAAAGAGTATTCGAAGTGGGAAACGGCTGTGCGATGTTTGGCCACTTTGGACTGCTTGATGTCGTTAGCTTGTTACAGCAACAATATTGACGGAGTTTCGTGCCGTCCGGAAATTATTGATCCTATTGATGAAGAGGGGAATGAAATACAGCCATTTTTTGAACTATTGAATTGTCGTCATCCATGCATTAGTCAGAAGGCTTTGAATGGTGGCGATTTCATACCGAACGATATTGTGTTGGGAAAACAGGCTGGAAGTAGCAGCACTTCACCAAGTTGTGTGTTGATAACAGGTCCAAATATGGGCGGAAAATCAACTTTAATGCGCCAAGCGGGCGTTATACTTATCATGGCGCAACTTGGTTGTCACGTACCAGCAGAGGTGTGCAGATTCACTCCTGTGGATAGAGTATTCACAAGACTTGGTGCTAGGGACAGGATTCTTCATGGTGAAAGCACTTTCTTTGTGGAGCTGAGTGAAACATCAACAATATTCCAACATGCAACCAAGCATTCTTTAGTATTGCTGGACGAGCTTGGTCGCGGTACTGCGACGTACGATGGCACCGCTATCGCTTCCGCCGTCGTGCATGACTTAGCCAACAGAATCGGTTGTCGTACATTATTCTCTACTCATTACCATTCTTTGGTGGAAGAGTTTAGTCAAGATGTCAACATAAGTCTCGGACACATGGCTTGTATGGTAGAAAAGGATGAGGAAGACGACGACCCTACGAACGAAACAATCACCTTTCTTTATAAATTCACATCTGGAGCGTGTCCAAAAAGTTATGGTTTCAATGCTGCTAAGCTTGCTGGCTTGCCCCTATCTATAATAAAATCTGCACACGCGAAAGCAGCCTTGTTCGAAACTTCGACAAAAAACAGTCGTTTATTGAGGTCTGTGCTCAATTCGTCTGCTGAACAGTTGAGAGGTCGTCTGCAACAAGTAATCTGACTTCACATGACGTGCATTGTTTAACTAAGCGCAGAGGCCTTTATGTGAGGAATCTTGGAGGCGTATTACATCCGACAGTGATGCAAAGATTAAAGAAACACTTGTACATAGGAAGAACTGGCTGCTTTAACTTGCAGTAGACC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
E1BYJ2	DNA mismatch repair protein Msh6 OS=Gallus gallus OX=9031 GN=MSH6 PE=3 SV=2
P52701	DNA mismatch repair protein Msh6 OS=Homo sapiens OX=9606 GN=MSH6 PE=1 SV=2
P54276	DNA mismatch repair protein Msh6 OS=Mus musculus OX=10090 GN=Msh6 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002965 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00855 all species →	PWWP	PWWP domain	Domain	Interproscan
PF05192 all species →	MutS_III	MutS domain III	Domain	Interproscan
PF00488 all species →	MutS_V	MutS domain V	Domain	Interproscan
PF01624 all species →	MutS_I	MutS domain I	Domain	Interproscan
PF05188 all species →	MutS_II	MutS domain II	Domain	Interproscan
PF05190 all species →	MutS_IV	MutS family domain IV	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007696 all species →	Domain	DNA mismatch repair protein MutS, core	Interproscan
IPR036678 all species →	Homologous_superfamily	MutS, connector domain superfamily	Interproscan
IPR017261 all species →	Family	DNA mismatch repair protein MutS/MSH	Interproscan
IPR016151 all species →	Homologous_superfamily	DNA mismatch repair protein MutS, N-terminal	Interproscan
IPR000313 all species →	Domain	PWWP domain	Interproscan
IPR000432 all species →	Domain	DNA mismatch repair protein MutS, C-terminal	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR007695 all species →	Domain	DNA mismatch repair protein MutS-like, N-terminal	Interproscan
IPR036187 all species →	Homologous_superfamily	DNA mismatch repair protein MutS, core domain superfamily	Interproscan
IPR045076 all species →	Family	DNA mismatch repair MutS family	Interproscan
IPR007860 all species →	Domain	DNA mismatch repair protein MutS, connector domain	Interproscan
IPR007861 all species →	Domain	DNA mismatch repair protein MutS, clamp	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11361 all species →	DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006298 all species →	Biological Process	mismatch repair	Interproscan
GO:0030983 all species →	Molecular Function	mismatched DNA binding	Interproscan
GO:0003690 all species →	Molecular Function	double-stranded DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0032301 all species →	Cellular Component	MutSalpha complex	Interproscan
GO:0140664 all species →	Molecular Function	ATP-dependent DNA damage sensor 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
K08737	MSH6; DNA mismatch repair protein MSH6	-	DNA repair and recombination proteins	ko03400	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_g06.10732_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

109.1Max TPM

50.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	56.07	109.13
Whole embryo · Triptolide 20 uM	4	4	29.04	49.97
Whole embryo · DMSO 0.5%	4	4	17.07	25.90

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
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	109.13
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	106.62
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	106.49
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	105.69
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	105.26
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	104.35
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	102.29
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	94.55
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	93.65
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	92.79
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	91.86
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	83.94
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	83.91
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	77.47
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	74.88
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	71.22
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	62.62
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	54.85
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	47.44
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	43.52
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	42.87
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	41.72
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	37.33
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	32.57
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	27.90
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	25.16
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	22.00
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	18.01
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	12.98
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	10.37
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	8.90
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	7.23
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	6.16
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	4.75
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	4.57
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	3.47
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	49.97
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	45.30
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	11.38
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	9.50
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	25.90
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	23.57
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	10.75
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	8.06

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	46	HSymV2.0_g11.19419_t1	0.987138769103993
Negatively correlated	7	HSymV2.0_g04.07015_t1	-0.909031686422552

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 →