Gene detail

Detailed information of XP_066917996.1 in Clytia hemisphaerica

Genomic Location: NW_027103283.1:292509...335223
NR annotation: XP_047144483.1, arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 1 [Hydra vulgaris]
Species Clytia hemisphaerica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_066917996.1

ATGTCTGTGACAGTCAACACATTCATAGAAGATTGCAAAAAAGACCTATCTGGTCAGCGCCATATCTTTCCAAGAAATATGGCAATGTACAAAAATATGGTTTTTGCTCAAGATGAGATACTTGAGGCCGACAAGACTTCAACACACAAATTAAAGAAGGCTATGAAGACTTTGCAAACTGCTGCTCAAGGAAATGTTCAAAATGAGGTGACATATGCAGAAAGTATGGAAAAGCTAGGGTCTGTTGCACTCTCCAGAGAAGCTGAAACTGGCATTGGAACTGCATTTCTGAAGCTCTCAGTAATTACAAAGGAGCTGGCCAACCATAGGAAAATCTTGTGTGAAAATTTCAATAACATGGTGCTGTTCCCAATCAACTCATTGCTGAAAGGAGATATGAATAAAATTGGGGATATGAAAAGGCCGGTGGATGATGCTTGGAAAGAATACAAATCTAAAGGTATAAAGAAAGAGCAGCGCAAAAAGACATCAGAAATCATTCTTTATCGCATTGACCAACCTGAGCAAACTGCAGAAGGGTCAGAACGTGAAAGAAGAACATTTATGTACCATACTAGTGAGTATTTGAGTAAAGCGAACGACATCAAAATGAAGAAAGGTGTGGAGCTGGTTCAACATCTTATCGAACACTATCATGCACAACTAAGGTATTTCAACAGCGGTATCAAGCTATTAGAAGGAATGAGAAGTTATTTCGAAGGGCTAGCAGACGAACTACAAAAGAGGAAATTGGAGAAAGAGGAGGAAAAGAAGGAGCTTAGTGACATAAAGTCCAATCTAAAAACTATTCTTCAGTTGGACTCAAAAGAGGTTGATAAAAGCAGTGGACGTCAGAACTACAAGATTCATGGCCAACAAGGAGATAAAGTTTTCGGTGGTTCCAAATCAGGACATCTTCACAAACGATCTGAAGGTGTACGGAAACAATGGCAGAAGCGGTATTGCGTCATCAGCAATGGTCTATTCACACTGGCACATAATCAGCAAAGTGCACCGACGGCAACACTACCACTGCTCACCTGCCAAGTCAAGCCAATGGCTGAAAAGGACAAAAAGCTACAATTCGCTTTGGTAGCACACAACAGAACGTATTTGTTCCAAGCTGAAGATGAAGCAGATTATGAAGCTTGGATTTCAGTATTGAGCAACGCGAGGGAAGAAGCACTAAATAAAGCTTTCGGTGAAGGCGAAGACGCGCTGTCCAAAGAACCAGTGAGCAGTATACAAGAGTTAACGCAAGGTATCATATCGGAGGTGCGAAGGCTGCCGGGAAATAATCAATGTATCGACTGTAACGCTTATGATCCGACCTGGTTATCAACGAATCTTGGTGTGGTAGTATGTATCGAATGTTCTGGTATTCATCGTGAGTTAGGTGTTCATGTCTCAAGAATTCGATCCTTGACGCTGGACAGACTGGGAACGGCTGAACTACTGCTGGCGCGAGCAGTAGGGAACAGTGACTTCAACGAAATTATGGAAGCTAGCCTGGATCCTTCTCTCAAACCTACTGCTGGCAGTAATATGGATCAACGAAAAGAGTTTATCACGCAGAAGTATGTTCAGAAAGCCTTCATCAATCCATCTGGCCACCAGCCCAACATTCTCATCGAGGATTTACAACGGGCGATCAACCATCATGATATTCTTGCCGTTCTTCAACTATATGCAGATGGCGTGGATTTCAACTCTTCCCTTCCTGATTCTAATCTCAACGATACGTCGTTACATTATTGCGTTGAGAAAGAAGACCTGACAAGCTTACATATTGTCGACTTTATCACTCAAAACTGTAAAAACGTGAACGCGATGAACACAGAGGGTAACACAGCACTTCACATAGCTGCCATGCATGACAAACCTGAGTGCACTAAACTTCTCGTCAGATATGGTGCTAATCTACAAGCCCTAAATCGACAAGGAAAATCTGCATTGGAGATCGCAAAACACAACAAATTCACTGAAATCATTGAGCTGCTATCTGATGATGGGAAGACTGGCAAATTCGATCATGTTAAGATCGACTGGGGTCTTCACGAGACGGAAGACATATATGCGACACCACTCGATTTGATCAACACCTCTGATCGTCCTGAGGACCCACCCAAAGATTATGACCAAAAGTCAACACCAGTAGCACAAGACACTACGATTTCACCTTCCGTCAAGCAGCCACTACCGCAACATGGAGGATTGGCAACCCAGGGCCCAATACAACGTTCGATGACGTCACCGAAATCGCGCAGCACGGTGAACACACCAGTGGTGAGCACGACAACAGACATCACAACACTTACCACAGCTAACACTTCTTCACAACAAGCACGTCACAGCATCGCATTACCTCATAATTATCAAGTTCTTCCTTCAGCAGGACAGACAGATGGCAAGTTTCCTCCCCCACTGCCTCCTTCAAGAAGACCAACCACCAAACAGAAAGGCCCAGTGCCGCCACCTAAACCTGACACGGCGCCAAAACCAACAGACGTTAACGCCACCACCTCCTCCACTGGTCCCACAGTAGCCATCATCAACACGACATCATCGGGCGTGACGCAACCGAAAGAAACGATGACCAACCTTACAGCTTCTAGTGTCCCTCTCTCCCTCTCCACCTTTACTGCAAAGCAATCAGCTTCCGCAGCGGCCAACAAAAACAATCCCTCCACTCAACCACATCCTACACTCGTGGATAAAAGCTCCTTGCCACCTGCACCACCCACTCGCTCGTCTTCTTTTCTACCACGTGGAAGTACAGAAGAAATGCTACCACGCCCTGATCGCCCTCCCCCGCCTGTTCCTTCAGTGGGTGCTGGTCATAATCGTAATCGTTCAGAAGGCGGCATGTTGTTCAACCAGCAAGACTTCTTAGATGACATTGCTGCTGCTACAAGGAATCGCACCAATTCTCTAGTGACGCCTAAACCGGGGGCCATCGAATTTCCTATACCACTTGATCCAGACGCCCCGCCCTTACCGCCACCTCGTCCGAAAAACAACGAACCACCAAGTCCAAACAATCATATGCAAGTTCCTGCAAGTCCACCTGCCACAAGCCACACGCCGTTGAGGAGCTCCTCGATTTCTAGGAAGGAGCCGAAGACAAAATTCCGTCGTGCGAAAGCGTTATACGATTGCGAGGCTGATCATTCAGATGAGTTGACGTTCGTGGAAGGGGAAATTATCATCATGAAGGGTGAAGCCGATCCTGATTGGTGGTTTGGTGAGATTGAAGGTGATCCGACACGTCGTGGTGTGTTTCCAATCAGTTTCGTGCACGTGTTGAATGATTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O97902	Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 1 OS=Bos taurus OX=9913 GN=ASAP1 PE=1 SV=1
Q9ULH1	Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 1 OS=Homo sapiens OX=9606 GN=ASAP1 PE=1 SV=4
Q1AAU6	Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Asap1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003082 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14604 all species →	SH3_9	Variant SH3 domain	Domain	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF01412 all species →	ArfGap	Putative GTPase activating protein for Arf	Domain	Interproscan
PF16746 all species →	BAR_3	BAR domain of APPL family	Domain	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR043593 all species →	Family	Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein	Interproscan
IPR001164 all species →	Domain	Arf GTPase activating protein	Interproscan
IPR038508 all species →	Homologous_superfamily	ArfGAP domain superfamily	Interproscan
IPR004148 all species →	Domain	BAR domain	Interproscan
IPR035836 all species →	Domain	ASAP1-like, SH3 domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR037278 all species →	Homologous_superfamily	ARFGAP/RecO-like zinc finger	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45854 all species →	ASAP FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0043547 all species →	Biological Process	positive regulation of GTPase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K12488	ASAP; Arf-GAP with SH3 domain, ANK repeat and PH domain-containing protein	-	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_066917996.1 across 40 RNA-seq samples of Clytia hemisphaerica. 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.

40Samples

40TPM > 0

16Conditions

58.5Max TPM

28.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Mature medusa	5	5	25.83	29.21
medusa · Experiment Condition A1	4	4	16.49	17.95
medusa · Experiment Condition A2	4	4	32.24	34.99
medusa · Experiment Condition A3	4	4	54.77	58.48
Early gastrula	2	2	26.12	27.83
Planula 24hpf	2	2	31.36	32.54
Planula 48hpf	2	2	23.53	27.37
Planula 72hpf	2	2	18.83	21.15
Primary polyp	2	2	23.80	24.10
Gastrozooid	2	2	27.94	29.64
Gonozooid	2	2	29.92	31.03
Stolon	2	2	23.75	25.08
Baby medusa	2	2	26.37	28.27
medusa · Experiment Condition B1	2	2	29.30	29.93
medusa · Experiment Condition B2	2	2	23.47	24.23
Mixed	1	1	31.75	31.75

Per sample · hover a bar for the full sample record

Show the sample table (40 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
ERR2862245	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	29.21
ERR2816248	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	26.51
ERR2816249	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	26.09
ERR2816250	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	23.95
ERR2816251	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	23.39
ERR3299475	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	17.95
ERR3299477	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	16.60
ERR3299476	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	16.45
ERR3299478	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	14.94
ERR3299480	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	34.99
ERR3299482	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	32.18
ERR3299479	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	31.63
ERR3299481	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	30.18
ERR3299485	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	58.48
ERR3299486	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	58.02
ERR3299484	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	52.70
ERR3299483	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	49.88
ERR2816230	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164	27.83
ERR2816231	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164	24.40
ERR2816233	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164	32.54
ERR2816232	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164	30.19
ERR2816235	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164	27.37
ERR2816234	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164	19.70
ERR2816236	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164	21.15
ERR2816237	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164	16.52
ERR2816238	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164	24.10
ERR2816239	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164	23.51
ERR2816241	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164	29.64
ERR2816240	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164	26.24
ERR2816242	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164	31.03
ERR2816243	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164	28.81
ERR2816245	Stolon	not recorded	Stolon	not recorded	ERP110164	25.08
ERR2816244	Stolon	not recorded	Stolon	not recorded	ERP110164	22.41
ERR2816247	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164	28.27
ERR2816246	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164	24.48
ERR3299472	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020	29.93
ERR3299471	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020	28.67
ERR3299473	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020	24.23
ERR3299474	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020	22.71
ERR2862244	Mixed	not recorded	Mixed	not recorded	ERP110164	31.75

Source: CnidoSite RNA-seq expression matrices (CHEMI_TPM, StringTie quantification over 40 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 Clytia hemisphaerica 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	8	XP_066926081.1	0.940889423381679
Negatively correlated	15	XP_066921671.1	-0.909849905870879

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 Clytia hemisphaerica, 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 →