Gene detail

Detailed information of alvinactis_v1_g14165 in Alvinactis idsseensis sp. Nov.

Genomic Location: chr_7:3950956...3964315
NR annotation: XP_020896725.1, poly [ADP-ribose] polymerase 1 [Exaiptasia diaphana]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

alvinactis_v1_g14165

ATGGCGGAAGATCTTCCCTTCAAGGCAGAATATGCCAAATCTAACAGATCCTCTTGTAAACTTTGTAAATGTAATATTGGTAAAGATTCACTACGCCTTGCTAAAATGGTTCAGTCTCCACATTTTGATGGAAAGGTTCCAAATTGGTTCCATTATTCATGCTTCTTCAAGAAAATCAAACCAGGTGGTGTTAGTGACGTGGGTGGAGTGGAATCACTTCGCTGGGAGGACCAAGAGAAGATACGAAATAGCATGGGTGGTTCAAGTCAAAAAGCTGCATCAACATCAAAGTCTTCAACAACTTCCACTGTTAAAGAAGACAAAGAATTGATAGCAGAATATGCCAAGTCAAGTAGAAGTTCTTGTAAAGGCTGTGATGGAAAAATTGAAAAGGGAGAGCTTCGTCTTGCTAAGATGATGGAACCATCACCTGATTCTCATGCACCAGTAGGCATAGGACTCGTACCAAGGTGGCATCATGTTAACTGTTTTGTAGCTGAGCGTGACAACCTGGAAATTGAGTCTAGTATCACAGCAGAGTATTTCACTGGATTCAGTAAGCTAGAGAAAGGAGACCAGGCAACACTCAAGAAGAAACTTGGAGCAAGCAAGGCAGCAAAAGCTGTAAAAGGgaagaaaagaagagtggaagatgaggaacagccacagaaaaagcaaaaaactgcagaagaagaagcagaagaaAATGGATTGAAGGAGCAAAGTAAACTTCTTTGGAAGATCAGAGATGACCTGAGTGCAAATGTGCCACTAACAACACTGAGAGAAATGCTTGAAGACAATGGTCTTAGTTCTCAGGGTGGAGAAACATCGTTACTTGATCGCTGTACAGACGGCATTGCTTTTGGGCAACTTTTACCATGTACAGAATGTAAAGACGGCAGACTTGTTTTCAGACATGACTGTTATGTGTGTACTGGTAACATGTCGGAATGGACAAAATGTACTTTCACAACACAAGATCCAAGAAGAGGAGACTGGATAATATCTGAAGAACTAAAGGATGAATTGAAATTCCTGAAAAAGTTAAAAGTTAAACGACAAAAGAGACTCTTTCCTAAAGCTGCAGTTGATAAAGTATCTCAAGCAAGTGCCGTTTCTTCAGTGCCTCCACCAGGCAAGCCATTATTCAATCAGAAGTTTGCCATAATTGGAAAGCTCAAGAGAAGCCAGGCTGAACTAAGTACTGTAATAGAAGACCTTGGAGGAAAAGTTGTAGAAAAAGTGAATACTAGAGTTACATGCTGCATCAGTTCTGTTGCTGAAGTAGACAAAAAAAGTAAGAAGATGAAAGATGCAGAATCATTGACGTCCCTGTGGTATCAGAAGACTTTCTTGAGGCCGTCAAAGATGGGATTGAGTTGTGTAGATGGACCAACTGCCAAAGGGAAAACGTCAGCTTCTAGATTCACATCAGGTATACATGAGAAGAAAGTCACGTTATCAGTAAAAGGAGGTGCTGTGGTTGACCCTGAATCAGGCCTAGAGAACAGCTGTCATGTGTTGGAGGTGAAAGGTGCCATTTACAATGCTATATTAGGACTAGTGGACATTGTGAGAGGCACAAATTCTTACTATAAGCTACAAGTATTGAAGAAAGATCATGGAAACAGTTGTTATTTATTCCGTTCATGGGGACGTGTTGGGACTACCATTGGAGGCAATAAACTAGAGAAATGCGCCTCGCAGGAGGATGCTCTTTTACGTTTTTGTGATTTATATGCGGAGAAAACAGGAAATAGTTGGAGCAATAGAACGTCATTTGTCAAGCATCCTAATCGATTTTACCCTCTTGAGATTGACTATGGACAGGATGACGTAGATTTAAAGAAGCACTCCATCGAGCCAGGAAGTCAATCTAAACTAGCTAAACCAGTGCAGAATGTAATCAAGATGATCTTTGATGTAGAATCAATGAAGCAAGCCATGGTGGAATTTGAGATTGACCTAAAGAAAATGCCTTTAGGTAAACTAACCCGCCGTCAAATAGAACGAGCCTACAGCACTCTTGGTGAAGCACAAAGGCTGGTTTCAAAAGGTGGCAGCACAAATGGCATACTTGATGCGTCTAATCGTTTCTACACGTTGATACCACACGACTTTGGGATGCGCAAACCACCAATGCTCGACAACATGGACCTGATTAATtctAAAGTGATTATGCTCGACAATCTTTTGGAAATCGAAGTCGCTTACAGCCTGCTGAAGAGTGGTGGCGATGATGAAAAAGATCCAATCGATGTCAACTATGAGAAGCTGAACACAAATCTCGAGGTTTTGGAACATTCATCGTCCGAGTTTGCGATGTTGACAGAATATGTGAAGAATACTCACGCCTCGACTCATCAACAATATGAACTGGAAGTGACGGACATCTTTAAGGTGGAGCGCCACGGCGAAGCCTCCATGTACAAGCCATTCAAAGAGCTTCACAATCGCCAGTTACTGTGGCATGGTTCATCGAACACCAACTACGCTGGAATTCTGTCTCAGGGGCTGCGAATTGCACCTTCCGAGGCTCCTACGACTGGGTACATGTTTGGTAAAGGTGTCTATTTTGCAGATATGGCGTCTAAGTCTGCAAACTACTGCCGCACAACACCTTCAAACAACGTTGGTTTTCTTCTACTTTGTGAAGTTGCTCTTGGAAACATGCATGAGTTAAAGAATGCTAGTTATATCAATAAACCACCCAAGGGAAAGCACAGCGTTAAAGGTATCGGTAGAACCCATCCTGACCCCAGTGGCACCCATGTACTGGGTGACGGGACTGTTGTACCCAAAGGAAAGGGCATTACCTCGGACGTTACGAACACTAGCTTACTCTATAATGAGTATCCTTTTGAATGTTGA

Transcript

alvinactis_v1_g14165

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P26446	Poly [ADP-ribose] polymerase 1 OS=Gallus gallus OX=9031 GN=PARP1 PE=1 SV=2
Q5RHR0	Poly [ADP-ribose] polymerase 1 OS=Danio rerio OX=7955 GN=parp1 PE=2 SV=1
P09874	Poly [ADP-ribose] polymerase 1 OS=Homo sapiens OX=9606 GN=PARP1 PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001312 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02877 all species →	PARP_reg	Poly(ADP-ribose) polymerase, regulatory domain	Domain	Interproscan
PF00645 all species →	zf-PARP	Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region	Domain	Interproscan
PF05406 all species →	WGR	WGR domain	Domain	Interproscan
PF21728 all species →	PADR1_N	PADR1, N-terminal helical domain	Domain	Interproscan
PF08063 all species →	PADR1_Zn_ribbon	PADR1 domain, zinc ribbon fold	Domain	Interproscan
PF00644 all species →	PARP	Poly(ADP-ribose) polymerase catalytic domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012317 all species →	Domain	Poly(ADP-ribose) polymerase, catalytic domain	Interproscan
IPR036616 all species →	Homologous_superfamily	Poly(ADP-ribose) polymerase, regulatory domain superfamily	Interproscan
IPR008893 all species →	Domain	WGR domain	Interproscan
IPR004102 all species →	Domain	Poly(ADP-ribose) polymerase, regulatory domain	Interproscan
IPR038650 all species →	Homologous_superfamily	PADR1, C-terminal domain superfamily	Interproscan
IPR001510 all species →	Domain	Zinc finger, PARP-type	Interproscan
IPR003034 all species →	Domain	SAP domain	Interproscan
IPR036420 all species →	Homologous_superfamily	BRCT domain superfamily	Interproscan
IPR008288 all species →	Family	Poly [ADP-ribose] polymerase	Interproscan
IPR036957 all species →	Homologous_superfamily	Zinc finger, PARP-type superfamily	Interproscan
IPR049296 all species →	Domain	PARP1-like, PADR1 domain, N-terminal helical subdomain	Interproscan
IPR036930 all species →	Homologous_superfamily	WGR domain superfamily	Interproscan
IPR050800 all species →	Family	ADP-ribosyltransferase diphtheria toxin-like	Interproscan
IPR012982 all species →	Domain	PARP1-like, PADR1 domain, zinc ribbon fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10459 all species →	DNA LIGASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003950 all species →	Molecular Function	NAD+-protein poly-ADP-ribosyltransferase activity	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0051287 all species →	Molecular Function	NAD binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0070212 all species →	Biological Process	protein poly-ADP-ribosylation	Interproscan
GO:1990404 all species →	Molecular Function	NAD+-protein ADP-ribosyltransferase 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
K24070	PARP1; poly [ADP-ribose] polymerase 1	EC:2.4.2.30	DNA repair and recombination proteins	ko03400	deepkoala

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

Co-expression network

Genes whose expression across the transcriptome samples of Alvinactis idsseensis sp. Nov. 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.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Alvinactis idsseensis sp. Nov., 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.	no expression matrix	–
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 →