Gene detail

Detailed information of HSymV2.0_g11.20591_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_11:26280361...26295754
NR annotation: KAI0217609.1, Dynein regulatory complex subunit 4 [Lamellibrachia satsuma]
Species Hydractinia symbiolongicarpus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

HSymV2.0_g11.20591_t1

ATGCCGCCGAAAAAAGGAAAAAAGAAAAAATCAGCAAAAGCAAAAGCTCCAACTATTGTAGATGGAATCAGTACTGAGGAAATGAGTAAAGAGCAGCTTGAAGAGTATATTGTACGCCTCAGAGAAGAACTCGATCGAGAGCGGGAAGAGAGAAATTATTTTCAGCTTGAAAGAGATAAAGTCAACACATTTTGGGAAATTACCAAGCGACAATTAGATGAAAAAAAAGCTGATTTACGTAATAAAGAACGAGAAGAAGAAGAGGCTGAAGAGCGACATCAAGTGGAAATTAAAGTATATAAACAAAAAGTCAAACATCTCCTCTATGAGCATCAAAACAATATTACTGAACTAAAAGCAGAGAGTGCTGTTGCAATAAAACTTGCACAGGATGAACATAAAGGTAAAGAATCTGATCTTCGAAAAGATAAGCGAAGCCTTAAAGTAGAACTTAAAGAACAAGAACTTTCAAATGAAGATGTTATCAAGTCTTTACTGCGAGGTAAAGATGAAGAAATAACCACACTCAGAAACGACTTTGAAAGACAAGCAAACGAGATTGAGGCGAAGTATGAGAAAAAGATGAGAACTTTACGTGATGAACTTGAGTTGCGAAGGAAAACAGAAATTCATGAAATAGAGGAGAGGAAAAATGGCCAGATAAATACATTAATGAAGAATCATGAAAAGGCATTCAGTGATATAAAAAATTATTACAATGACATAACGTTGAATAATTTGGCACTTATCAATTCACTGAAGGAACAAGTTGAAGAGATGCGTAAAAAAGAAGAAAGGCTTGAGAAACAAATGAATGAAGTTATGGCAGAGAATCGTAAATTAATCGAACCTCTTCAAAAAGCTAAAGAAGAAGTACAGGAGTTACACAAACAACTATCAAACTATGAAAAAGACAAAGCTTCTTTGCAGAGTGCGAAAGCTCGACTGCGAGTACAAGAGGACGAACTAAAGAAATTACAGTGGGAACACGAAGTGTTGCGACAAAGATTTGAACAGACACAAAAAGAACGAGATGAACTGTACAATAAATTTGTCCGAGCTATTCACGAAGTTCAGCAGAAAGGAAATTTCAAAAATCTACTTCTTGAAAAGAAGTTGACAGTTATTACAGACACTCTTGAGAAAAAGGAGGCTCAATTAAATGAAGTTTTGTCTGCGTCCAATCTCGATCCTACAGCTTTGGTTGTTGTCACTAGAAAACTCGAGGACGTGTTGGATTCAAAGAACAGCGCTATAAAAGATTTACAATATGAACTTGCACGCGTGTGTAAGGCGCATAACGACTTGATACGAACATACGAAGCCAAACTTCGATCGTTTGGAGTCCCTACAGAAGAACTTGGTTTCCAGCCCCTCCAGAGTAACGTTACTGGACAACAGCTTGGAAAAGGAACAGCAGTTACACCTGGTCAACAAAAGATATGGTGCATTGTTACTCAAAGAAATGACATTTCTTTTTCTTTTAAATTTAAAGAAGATGCGAAAGGCCAGGACGTCATGGACGAGGTGTGCGATCGATTAGGTATAGTAGAAAAAGATTATTTTGGTCTTCAATACACCAATTCTAGAGGAGAAATACATTGGCTAAATATGCGTAATCGCATAAGTCGACAAATGAGTAAGCCTGAGCCCTACTCAATGTTGTTTTGTGTCAAATTCTATGTACCACTTCATCATTTGTTACAAGAATCATCAAGACATCAATTTTTCTTAAATGTGAAATATGATTTACTTTGTGGAAGGTATCACCCTCCTGAAGAGACATTAATTAGATTGCATGCTTTATTGGCTCAGGCTGAAGCTGGAAAATTTCGTGAAAATCATATTAGTTATAATCCCTCAAGGATGTCATGTTGGAGTCCTGAAACTCGATCAAAGATTATTCTTGAACACTGCAAATTAAATGACATGTCAACAGAGAATGCAGAGTATTACTGTCTAAAGGAAGTTGCTGACCTTGAAGATTATGGTATGGAGTATTATCATGTTAAATCAGAAGATAATACTAAATCTATGTTATTTGGCATTGGAATTGATTGCCTGAAAATTGAACGCAGCAATGATGTAATTCAAAGGGTTCCTTACACGTGTCTTCACATGGCTACACACTCTGGTAAAACTGTTAAAGTTGATATTTACATTACGGACATAGGTGATATTGACAGTGTAATATATAGATTGAATAGCAAAGAAGCTGCTTGTGCATTATATCGATCGATCACAGAACATCATGCATTTTATCGATGTGATAGTGTTCGACCTGCTGTAAAGGAACAAGTTGCAAGAGATTTCTTCGACACTGTTTTGTCTTGGTTTCATGATGATAACAATTTAGATCAGAACTATATTTTTGATACGGAAAGGACTTGTAGAGAAGCTTATGACAATGCAAGAAGGATTTTATATAACTTTGGTGCCACTACTGCTGCTGCTATGACTTGTCAAAGTGATAGCCATAATTCTAAAATCTTTTCTAAAGAGGAATCTGTTCTTGAAGACGAAATAACAAACTTAACAGATACACTACATTTGTATAAGGAATCGTTTAATTGCCCAGTGTGTCGTGACACAATTGTTGACACTGTACTGCAATGTGGGCATCTTGTTTGCTCTATGTGCAGCGGATATTGTGAAAAATGTCCACTATGCAGGGCACAGATAACTGCAAAAACGAAATGTTATTTACCAGTAAACCTTAATGGCGACACAGTTGAGAAGCTTGATGACGACACATGCGGAAAGAGTGAACAAAAAGTAGAAGTTTTGGAAAGTGCAATGTGA

Transcript

HSymV2.0_g11.20591_t1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q60779	Dynein regulatory complex subunit 4 OS=Mus musculus OX=10090 GN=Gas8 PE=1 SV=2
Q499U4	Dynein regulatory complex subunit 4 OS=Rattus norvegicus OX=10116 GN=Gas8 PE=2 SV=1
F1QNW4	Dynein regulatory complex subunit 4 OS=Danio rerio OX=7955 GN=gas8 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006929 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13851 all species →	GAS	Growth-arrest specific micro-tubule binding	Coiled-coil	Interproscan
PF00373 all species →	FERM_M	FERM central domain	Domain	Interproscan
PF09379 all species →	FERM_N	FERM N-terminal domain	Domain	Interproscan
PF13920 all species →	zf-C3HC4_3	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025593 all species →	Domain	Growth arrest-specific protein 8 domain	Interproscan
IPR019749 all species →	Domain	Band 4.1 domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR019748 all species →	Domain	FERM central domain	Interproscan
IPR019747 all species →	Conserved_site	FERM conserved site	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR035963 all species →	Homologous_superfamily	FERM superfamily, second domain	Interproscan
IPR018980 all species →	Domain	FERM, C-terminal PH-like domain	Interproscan
IPR014352 all species →	Homologous_superfamily	FERM/acyl-CoA-binding protein superfamily	Interproscan
IPR018979 all species →	Domain	FERM, N-terminal	Interproscan
IPR039308 all species →	Family	Growth arrest-specific protein 8	Interproscan
IPR000299 all species →	Domain	FERM domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31543 all species →	DYNEIN REGULATORY COMPLEX SUBUNIT 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0031514 all species →	Cellular Component	motile cilium	Interproscan
GO:0048870 all species →	Biological Process	cell motility	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0005874 all species →	Cellular Component	microtubule	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0031267 all species →	Molecular Function	small GTPase binding	Interproscan
GO:0005856 all species →	Cellular Component	cytoskeleton	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 HSymV2.0_g11.20591_t1.

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_g11.20591_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

332.8Max TPM

202.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	184.23	284.75
Whole embryo · Triptolide 20 uM	4	4	297.22	332.85
Whole embryo · DMSO 0.5%	4	4	267.87	276.80

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
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	284.75
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	271.41
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	266.30
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	260.65
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	257.08
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	243.33
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	241.79
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	230.65
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	230.28
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	223.17
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	214.57
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	214.36
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	210.74
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	210.64
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	201.21
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	199.08
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	198.38
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	193.67
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	192.52
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	190.94
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	190.15
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	189.84
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	186.17
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	184.36
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	182.62
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	178.52
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	162.51
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	162.29
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	160.09
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	153.40
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	80.07
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	79.00
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	52.62
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	48.34
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	46.54
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	40.41
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	332.85
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	303.13
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	277.58
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	275.34
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	276.80
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	276.28
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	271.13
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	247.27

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	32	HSymV2.0_g09.16480_t1	0.971297451294395
Negatively correlated	10	HSymV2.0_g08.14469_t1	-0.928527315038498

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 →