Gene detail

Detailed information of HSymV2.0_g05.09647_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_5:27290812...27304977
NR annotation: XP_002163509.3, DNA-directed RNA polymerase II subunit RPB2 [Hydra vulgaris]
Species Hydractinia symbiolongicarpus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

HSymV2.0_g05.09647_t1

ATGTACGACCCTATAGACGAAGAGGATCAATATGATGATCAGGAAGAAGATGATGAGATCACTTCTGACTTGTGGCAGGAGGCCTGCTGGACAGTTATTAGTTCATATTTTGAAGAAAAGGGTCTTGTGCGACAACAACTTGACTCTTTTGATGAGTTTATTCAGATGTCTGTACAAAGAATAGTAGAGGAGTCACCACCTATTGAATTGCAAGCAGAAGTTCAGTACACTGAAGCAGATATTGAGGAGCCGACACGTTATCAACTTAAATTTGAACAGATTTATTTGTCAAAACCAACTCATTGGGAAAAAGATGGTGCACCAAAGCCTATGATGCCTAATGAAGCAAGACTTCGAAACTTAACTTATTCATCACCACTTTATGTCGACGTTTCCAAAACAGTCACAAGAAGCGGACAAGAGCCAGAAACTGAAGAACATGGAAAAATATATATCGGAAAAATACCTATTATGTTGCGATCCACATATTGCGTCTTAAATGGATTGCTAGATCGTGACTTAACTGAATTGAATGAATGCCCACTTGACCCTGGTGGTTACTTTATTATCAATGGCTCTGAAAAAGTTTTAATTGCACAAGAAAAAATGGCAACAAATACTGTTTATGTATTTCAGAAAAAAGACTCAAAATACGCTTATACATGTGAAATACGTTCCTGTCTTGAACAGTCATCAAGACCAACAAGTACAATGTTTATTTCTATGTTAGCTAGAGGTGGTGGTGGTGCTAAAAAAGGAGCCATTGGTCAAAGAATTATAGCAACCATTCCTTATATACGTCAAGAAATACCCATCATGATTGTTTTCAGAGCCTTAGGTTTTGTGTCAGATCGTGACATTTTAGAACATATTATTTACGACTTTGATGATCAGGAGATGATGGAAATGGTCAAGCCTTCCTTGGATGAAGCTTTTGTTGTGCAAGAGCAAAATGTTGCTTTAAATTTTATTGGTACTCGTGGTGCTAAACCTGGTGTAACCAAAGAGAAGAGAATTAAATATGCAAGAGAGATTTTGCAGAAAGAGATGTTACCTCATGTTGGTACCAGTGATTTTTGTGAAACAAAGAAAGCTTATTTTCTGGGATATATGGTTCACAGAATTCTTCTGGCTGCTCTGGGGCGCCGTGAACTTGATGATCGTGATCACTATGGCAACAAACGTCTAGATCTTGCAGGGCCATTGCTGGCGTTTTTGTTTAGAGGATTGTTTAAGAATCTCATGAAAGAAGTAAGGTTATATGCACAAAAATTCATCGACAAAGGAAAAGATTTCAAAATTGAACTTGCCATAAAAACTAAAACAATAACAGATGGTTTGCGTTATTCGTTAGCTACAGGTAATTGGGGTGACCAGAAGAAAGCGCATCAAGCAAGAGCAGGTGTATCACAAGTGTTGAACCGATTGACGTTCGCTTCTACGTTATCACATCTACGACGTTTAAATTCACCTATTGGAAGAGATGGCAAGTTGGCACGGCCAAGACAGCTTCATAACACTCATTGGGGAATGATCTGTCCTGCTGAGACACCTGAGGGGCAAGCTGTTGGTCTTGTAAAGAATCTTGCATTAATGGCATACATTTCTGTCGGTTCCCAACCAAGTCCAATTTTAGAGTTTTTAGAAGAATGGGCTATGGAGAACTTGGAAGAAATTAGTCCATCTGCTATCAAAGATTCAACGAAAATTTTTGTCAACGGTTGTTGGGTGGGCATACATCGAGATCCCGAGCAGTTGATATTAACATTGCGAAGGTTGAGAAGATTGATGGATATTATTGTATCAGAGGTCTCAATGGTCCGTGATATTCGTGACAAAGAAATTCGAATTTACACTGATGCTGGAAGAGTTTGTCGTCCACTTCTAATTGTGGAAAATCAAAAATTATTGCTCAAGAAAAGCCATATCGATCAATTAAAAGAGAGAGAATACAATGACTTCGGTTGGCAAGATCTAGTAGGCAACGGTGTTGTTGAATATGTTGATGTAAATGAAGAGGAGACGTCGATGATTGCCATGAATCCTGAAGATTTAGAGGATCGAGAACAGTCGTATTGTTCCACCTACACGCATTGTGAGATTCACCCTGCTATGATTCTTGGAGTGTGTGCGTCTATTATCCCTTTTCCAGATCACAACCAGTCTCCTCGTAATACATATCAATCTGCTATGGGTAAGCAAGCCATGGGTGTGTACATCACCAACTTTCATGTACGTATGGATACTTTAGCACATGTGTTGTATTATCCACAGAAGCCACTGGTAACCACACGATCGATGGACTTCTTGAAATTTCGTGAATTGCCGGCAGGAATCAATTCAATCGTTGCTATCGCTTCGTATACTGGTTATAATCAGGAAGATTCTGTGTTGTTGAATGCTTCAGCGATAAACAGAGGCTTATATCGGTCTGTGTTTTACCGGTCGTATCGTGATGAAGAGTCTAGGAAAGGGCTGGACCAAGAAGAAAGATTTGAAAGACCGCGTCGAGATGAATGCACAGGTATGCGTAACGCTATATACGACAAACTGGATGAAGACGGATTGATTCCTCCTGGTTCTCGAGTAAGTGGTGACGACGTAATTATCGGTAAAACCGTCACTGTTCCTGACGACGATGACGAACTTGAGGGACAGACGCGTCACTACACGAAACGTGACTCAAGCACGTTCTTAAGAGCAAGTGAAACTGGTATTGTTGATCAGGTCATGTTGACTATCAACGAAGAAGGATATAAATTCTGCAAGATTAAGGTACGTTCTGTACGGATCCCACAAATTGGTGATAAATTTGCCAGTCGTCATGGTCAGAAAGGTACATGCGGAATCACATATCGACAAGAGGACATGCCTTTCACATGCGAAGGGATTTCACCAGATATTGTTATTAATCCTCATGCCATCCCGTCTCGTATGACAATTGGTCATTTAATCGAATGCTTGCAAGGGAAGGTTTCTGCAAACAAAGGCGAAATTGGCGATGCCACGCCCTTCAATGACGCAGTGAATGTGCAGAAGGTTTCTAGTTTGTTACAAGAATATGGCTATCATTTAAGAGGGAATGAGGTTTTATTTAATGGATTTACTGGTCGTAAGTTAAACGCTCAAGTATTTCTTGGTCCCACATACTATCAACGCTTAAAACATATGGTCGACGATAAAATCCATTCACGTGCTCGAGGTCCCGTCCAGATTTTAACCAGACAACCTATGGAGGGCCGATCTAGGGACGGTGGTCTTCGATTTGGTGAAATGGAACGTGATTGCCAAATCTCTCATGGCGCAGCGCAATTTTTAAATGAGCGTTTATTCGAAGCGTCAGACGCGTACAGAGTTCATGTGTGCAACATCTGTGGTTTAATCGCGATCGCAAACCTCCGCAACAACACGTTCGAATGCCGTGGCTGTAAGAATAAAACACAGatttCACAAATTCGCATACCTTACGCATGTAAATTACTTTTCCAAGAATTAATGTCAATGAGCATAGCGCCAAGATTAATGGTAGATGCTCCTAAAGTTTAG

Transcript

HSymV2.0_g05.09647_t1

TACTATTTCGATACCGGCAACATAAGCTTGGTATAAATGGCCTAGCTTTACTCGCATTGTCCACTCCACACGGCTCTGGAGAGAATCCCCCAAATCTGAACATTATCACCTCACTAACTTATCAAATCAAAGTTTGATTCCAGTTCTGAAAGAATGTACGACCCTATAGACGAAGAGGATCAATATGATGATCAGGAAGAAGATGATGAGATCACTTCTGACTTGTGGCAGGAGGCCTGCTGGACAGTTATTAGTTCATATTTTGAAGAAAAGGGTCTTGTGCGACAACAACTTGACTCTTTTGATGAGTTTATTCAGATGTCTGTACAAAGAATAGTAGAGGAGTCACCACCTATTGAATTGCAAGCAGAAGTTCAGTACACTGAAGCAGATATTGAGGAGCCGACACGTTATCAACTTAAATTTGAACAGATTTATTTGTCAAAACCAACTCATTGGGAAAAAGATGGTGCACCAAAGCCTATGATGCCTAATGAAGCAAGACTTCGAAACTTAACTTATTCATCACCACTTTATGTCGACGTTTCCAAAACAGTCACAAGAAGCGGACAAGAGCCAGAAACTGAAGAACATGGAAAAATATATATCGGAAAAATACCTATTATGTTGCGATCCACATATTGCGTCTTAAATGGATTGCTAGATCGTGACTTAACTGAATTGAATGAATGCCCACTTGACCCTGGTGGTTACTTTATTATCAATGGCTCTGAAAAAGTTTTAATTGCACAAGAAAAAATGGCAACAAATACTGTTTATGTATTTCAGAAAAAAGACTCAAAATACGCTTATACATGTGAAATACGTTCCTGTCTTGAACAGTCATCAAGACCAACAAGTACAATGTTTATTTCTATGTTAGCTAGAGGTGGTGGTGGTGCTAAAAAAGGAGCCATTGGTCAAAGAATTATAGCAACCATTCCTTATATACGTCAAGAAATACCCATCATGATTGTTTTCAGAGCCTTAGGTTTTGTGTCAGATCGTGACATTTTAGAACATATTATTTACGACTTTGATGATCAGGAGATGATGGAAATGGTCAAGCCTTCCTTGGATGAAGCTTTTGTTGTGCAAGAGCAAAATGTTGCTTTAAATTTTATTGGTACTCGTGGTGCTAAACCTGGTGTAACCAAAGAGAAGAGAATTAAATATGCAAGAGAGATTTTGCAGAAAGAGATGTTACCTCATGTTGGTACCAGTGATTTTTGTGAAACAAAGAAAGCTTATTTTCTGGGATATATGGTTCACAGAATTCTTCTGGCTGCTCTGGGGCGCCGTGAACTTGATGATCGTGATCACTATGGCAACAAACGTCTAGATCTTGCAGGGCCATTGCTGGCGTTTTTGTTTAGAGGATTGTTTAAGAATCTCATGAAAGAAGTAAGGTTATATGCACAAAAATTCATCGACAAAGGAAAAGATTTCAAAATTGAACTTGCCATAAAAACTAAAACAATAACAGATGGTTTGCGTTATTCGTTAGCTACAGGTAATTGGGGTGACCAGAAGAAAGCGCATCAAGCAAGAGCAGGTGTATCACAAGTGTTGAACCGATTGACGTTCGCTTCTACGTTATCACATCTACGACGTTTAAATTCACCTATTGGAAGAGATGGCAAGTTGGCACGGCCAAGACAGCTTCATAACACTCATTGGGGAATGATCTGTCCTGCTGAGACACCTGAGGGGCAAGCTGTTGGTCTTGTAAAGAATCTTGCATTAATGGCATACATTTCTGTCGGTTCCCAACCAAGTCCAATTTTAGAGTTTTTAGAAGAATGGGCTATGGAGAACTTGGAAGAAATTAGTCCATCTGCTATCAAAGATTCAACGAAAATTTTTGTCAACGGTTGTTGGGTGGGCATACATCGAGATCCCGAGCAGTTGATATTAACATTGCGAAGGTTGAGAAGATTGATGGATATTATTGTATCAGAGGTCTCAATGGTCCGTGATATTCGTGACAAAGAAATTCGAATTTACACTGATGCTGGAAGAGTTTGTCGTCCACTTCTAATTGTGGAAAATCAAAAATTATTGCTCAAGAAAAGCCATATCGATCAATTAAAAGAGAGAGAATACAATGACTTCGGTTGGCAAGATCTAGTAGGCAACGGTGTTGTTGAATATGTTGATGTAAATGAAGAGGAGACGTCGATGATTGCCATGAATCCTGAAGATTTAGAGGATCGAGAACAGTCGTATTGTTCCACCTACACGCATTGTGAGATTCACCCTGCTATGATTCTTGGAGTGTGTGCGTCTATTATCCCTTTTCCAGATCACAACCAGTCTCCTCGTAATACATATCAATCTGCTATGGGTAAGCAAGCCATGGGTGTGTACATCACCAACTTTCATGTACGTATGGATACTTTAGCACATGTGTTGTATTATCCACAGAAGCCACTGGTAACCACACGATCGATGGACTTCTTGAAATTTCGTGAATTGCCGGCAGGAATCAATTCAATCGTTGCTATCGCTTCGTATACTGGTTATAATCAGGAAGATTCTGTGTTGTTGAATGCTTCAGCGATAAACAGAGGCTTATATCGGTCTGTGTTTTACCGGTCGTATCGTGATGAAGAGTCTAGGAAAGGGCTGGACCAAGAAGAAAGATTTGAAAGACCGCGTCGAGATGAATGCACAGGTATGCGTAACGCTATATACGACAAACTGGATGAAGACGGATTGATTCCTCCTGGTTCTCGAGTAAGTGGTGACGACGTAATTATCGGTAAAACCGTCACTGTTCCTGACGACGATGACGAACTTGAGGGACAGACGCGTCACTACACGAAACGTGACTCAAGCACGTTCTTAAGAGCAAGTGAAACTGGTATTGTTGATCAGGTCATGTTGACTATCAACGAAGAAGGATATAAATTCTGCAAGATTAAGGTACGTTCTGTACGGATCCCACAAATTGGTGATAAATTTGCCAGTCGTCATGGTCAGAAAGGTACATGCGGAATCACATATCGACAAGAGGACATGCCTTTCACATGCGAAGGGATTTCACCAGATATTGTTATTAATCCTCATGCCATCCCGTCTCGTATGACAATTGGTCATTTAATCGAATGCTTGCAAGGGAAGGTTTCTGCAAACAAAGGCGAAATTGGCGATGCCACGCCCTTCAATGACGCAGTGAATGTGCAGAAGGTTTCTAGTTTGTTACAAGAATATGGCTATCATTTAAGAGGGAATGAGGTTTTATTTAATGGATTTACTGGTCGTAAGTTAAACGCTCAAGTATTTCTTGGTCCCACATACTATCAACGCTTAAAACATATGGTCGACGATAAAATCCATTCACGTGCTCGAGGTCCCGTCCAGATTTTAACCAGACAACCTATGGAGGGCCGATCTAGGGACGGTGGTCTTCGATTTGGTGAAATGGAACGTGATTGCCAAATCTCTCATGGCGCAGCGCAATTTTTAAATGAGCGTTTATTCGAAGCGTCAGACGCGTACAGAGTTCATGTGTGCAACATCTGTGGTTTAATCGCGATCGCAAACCTCCGCAACAACACGTTCGAATGCCGTGGCTGTAAGAATAAAACACAGatttCACAAATTCGCATACCTTACGCATGTAAATTACTTTTCCAAGAATTAATGTCAATGAGCATAGCGCCAAGATTAATGGTAGATGCTCCTAAAGTTTAGTTACGAAGAATAACTGGCATGATGGAGAGTGCTCTCCGCCGTTTATAAAAAAATCGCTCAACGAACCTCATAACAAAAGGACAACGAGGAATTGTTATAATATTTCTTAACCTTTTTAATTTGATTGCTAAAAAACAGAAACAAAAAGGTTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A5PJW8	DNA-directed RNA polymerase II subunit RPB2 OS=Bos taurus OX=9913 GN=POLR2B PE=1 SV=1
P30876	DNA-directed RNA polymerase II subunit RPB2 OS=Homo sapiens OX=9606 GN=POLR2B PE=1 SV=1
Q8CFI7	DNA-directed RNA polymerase II subunit RPB2 OS=Mus musculus OX=10090 GN=Polr2b PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001356 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04561 all species →	RNA_pol_Rpb2_2	RNA polymerase Rpb2, domain 2	Domain	Interproscan
PF00562 all species →	RNA_pol_Rpb2_6	RNA polymerase Rpb2, domain 6	Domain	Interproscan
PF04566 all species →	RNA_pol_Rpb2_4	RNA polymerase Rpb2, domain 4	Domain	Interproscan
PF04565 all species →	RNA_pol_Rpb2_3	RNA polymerase Rpb2, domain 3	Domain	Interproscan
PF04563 all species →	RNA_pol_Rpb2_1	RNA polymerase beta subunit	Family	Interproscan
PF04567 all species →	RNA_pol_Rpb2_5	RNA polymerase Rpb2, domain 5	Domain	Interproscan
PF04560 all species →	RNA_pol_Rpb2_7	RNA polymerase Rpb2, domain 7	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007642 all species →	Domain	RNA polymerase Rpb2, domain 2	Interproscan
IPR007121 all species →	Conserved_site	RNA polymerase, beta subunit, conserved site	Interproscan
IPR007120 all species →	Domain	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Interproscan
IPR015712 all species →	Family	DNA-directed RNA polymerase, subunit 2	Interproscan
IPR037033 all species →	Homologous_superfamily	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Interproscan
IPR007646 all species →	Domain	RNA polymerase Rpb2, domain 4	Interproscan
IPR014724 all species →	Homologous_superfamily	RNA polymerase Rpb2, OB-fold	Interproscan
IPR007645 all species →	Domain	RNA polymerase Rpb2, domain 3	Interproscan
IPR007644 all species →	Domain	RNA polymerase, beta subunit, protrusion	Interproscan
IPR037034 all species →	Homologous_superfamily	RNA polymerase Rpb2, domain 2 superfamily	Interproscan
IPR007647 all species →	Domain	RNA polymerase Rpb2, domain 5	Interproscan
IPR007641 all species →	Domain	RNA polymerase Rpb2, domain 7	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20856 all species →	DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003899 all species →	Molecular Function	DNA-directed 5'-3' RNA polymerase activity	Interproscan
GO:0006351 all species →	Biological Process	DNA-templated transcription	Interproscan
GO:0032549 all species →	Molecular Function	ribonucleoside binding	Interproscan
GO:0001055 all species →	Molecular Function	RNA polymerase II activity	Interproscan
GO:0005665 all species →	Cellular Component	RNA polymerase II, core complex	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
K03010	RPB2, POLR2B; DNA-directed RNA polymerase II subunit RPB2	EC:2.7.7.6	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_g05.09647_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

198.7Max TPM

130.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	122.19	171.91
Whole embryo · Triptolide 20 uM	4	4	176.07	198.73
Whole embryo · DMSO 0.5%	4	4	157.12	186.23

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
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	171.91
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	170.87
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	170.76
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	170.71
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	169.22
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	167.35
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	167.03
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	166.33
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	165.12
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	158.90
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	158.90
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	158.61
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	158.09
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	154.48
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	152.79
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	135.03
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	134.73
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	126.97
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	123.84
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	121.85
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	119.53
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	118.12
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	117.24
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	116.80
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	113.38
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	112.88
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	111.92
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	110.86
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	98.79
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	93.17
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	39.35
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	38.99
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	36.93
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	29.68
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	27.61
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	10.15
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	198.73
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	197.55
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	154.15
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	153.84
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	186.23
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	177.75
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	138.38
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	126.13

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	42	HSymV2.0_g11.19881_t1	0.979848196162688
Negatively correlated	15	HSymV2.0_g03.04471_t1	-0.924696623118901

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 →