Gene detail

Detailed information of XP_032222347.2 in Nematostella vectensis

Genomic Location: NC_064035.1:9436270...9442507
NR annotation: XP_032222347.2, homologous-pairing protein 2 homolog isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032366456.2

ACTCATCTGGGAATGCGCGTAGAGCGCCTGGTGAAATAAGTGTTCCCGCGtacttttgaaaacaattctaaaacaaaataacaaggTTTTGATGCCAAATCGCAGCTGTTTCACTGTAAAATGAGCAAGAAAAAGGATTCAGAAGCTGCCGATGCAGTGTTGTCATACCTTGTAAAAAATAACAGACCGTACAGTGCAGTTGATATATTTACAAATCTGCACAAAGAATATGGGAAAACGGCTGTCCAAAGATCATTGGAAAGCTTAGCATCAGAGGataaaatacaagaaaaagtTTATGGCAAACAGAAGGTTTATGCTCCCAAACAGGACCAGTTTTCAGATTATGATGAGggtgaaataaagaaaatggaTTCACAGATTGCTTCTTTGCAACAGAAGTTAAAAGAGCTTCAAGATAAATTCAATCAACAAGAAAatgAGCTGAAAAAACTAAATAGCAGTCTTACAACTGAGCAAGCTCAAACACAGTTAGATGAATTATCTAAAAAGTGTGACAACTACAAACAGCGATTAACCAAAATGAAATCAGccGACAATCATGTATCTCCTGAAGTGAAAGACCAGATCCACAAAAATCACAAGCAATCTGTAACAATGTggagaaagagaaagagaatGTGCACAGACATTTTGAACTCAATCTTGGAGGGATATCCCAAGCCTAAGAGACAGCTTATAGAAGATGTTGGTCTTGAGACAGACGAAGACTATGGCGTGGTCTTACCTAGCATCTAGCTAAAGCAGACAgaccattaccatcacataTAGGTCACGCAGATATTGCTAGTGGGGGCAGAAGCGGTCAGTAGGTTGAGAGAATGAAAAATGGTACTTTCTCTATTTTAGGCAGTCTAGCAGTCGTTACCCTGATCTTGGGTGAATAATCATTTAGTTAATTCCAAATCATtatgttagatatttcaccaCTAGGATCAAAACTGGCACATCAAATGTTACAATAGTCCAGATTAATGATCCAGATGGATAAAACAGATGGATTAGGATGCATGAATACAGTACAAGCCTTGGTCTGGGACAAATTCCATAATGCAAAAAATTGTGAATACTTCTATGATCTTCCTAAATTATTCCTGGTCTATTTGCAAACCGTTAACTCTAAGCAGAGGTTTGCACTGTATTTATACATCCTTAGGGACTATGACCAGCAGACATAGTGGCATTCTAACCTAGACTATATTCAGTTGGTATATTATCAGCATATTAGCCTGGCTGTTTTGTTATATAAATAAGCACACACCATGAGGGAAATAAACCTTATACatgtaaacaaacaataaGAAAGGAGACTTTTATAGTCTTTTTTTcctattaaataaaacattgcTTTGCAAAAACAGAAGGgacatttcttttaaaaaatcgTTTTAAAAGTTTGTTTGTTCATGTTGGTCATTAACAGAAATTAATATCTTTAGTTTAATATTTCTAACTTACTTTTTAGACCTTTATAAGCTATTTAGCTATTTGCATAATTAGGGTAGTCACAATtacctattttgtttttgcaaaCTAATAATTTCTTGTTCCATGAAAGTAATAATATTCGGCAGGATTAACTTTAATGTCAGTGTCACTGCGAAGATTGTGATCATGCCTAGTTTCCATGCCCCCCATGTCAGCCCCACGTAGAGCCTCTCAACgactgaaaacaaaaacaaaaaaattagcaATCTTCTTCTGTCAGAAAACGAAAAACAACCGGTTATGCCTTACCTATGCTATAAACTACAGGATTGTTAAGGCTGTCTAGACTGTTAGGATGTCCAGTCCGCACTGCTGTTACTTGAGCAAACATATTCTAGAGAGGCAATGTTTTAGATGGTGATCATTCAGAGTTAAGAGAATCAGCCCAGGCATATAGCCAGGATTTGTTAACGGGGGTATATTTTGTGAAAATGTGTAAATTGATGGTGATTCTTTAATAAGAAAAGACCCATTTTTAATGCCAAGCTAGGTGGGGTGTGCCAACGTAGGGGTCAACCCCTGGCTACGTATCTGCAGGCAAATGTCAAACAAGTGTATAGCTGGTGGTTCAGAAGATTCTTACTCCCTAGATATTTATTTGCCTGTAAAATAAAGTTATGTCAATACTAAAACTTACATATCCTTTATCTATCACAAATGATATCTTCTCAGTATTGAGAAGTCTTCTTTTGCTAGGAGGCGAGTGATCTTCATCATCAAGCAGTTTTATCAGGAATTCACTAGGAGTCTTAAAGACAAATAAATAGTCACATCTAAGATATAAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9P2W1	Homologous-pairing protein 2 homolog OS=Homo sapiens OX=9606 GN=PSMC3IP PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006543 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07106 all species →	TBPIP	TBPIP/Hop2 winged helix domain	Domain	Interproscan
PF18517 all species →	LZ3wCH	Leucine zipper with capping helix domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010776 all species →	Domain	Homologous-pairing protein 2, winged helix domain	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR040661 all species →	Domain	Leucine zipper with capping helix domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15938 all species →	TBP-1 INTERACTING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000709 all species →	Biological Process	meiotic joint molecule formation	Interproscan
GO:0000794 all species →	Cellular Component	condensed nuclear chromosome	Interproscan
GO:0003690 all species →	Molecular Function	double-stranded DNA binding	Interproscan
GO:0007129 all species →	Biological Process	homologous chromosome pairing at meiosis	Interproscan
GO:0010774 all species →	Biological Process	meiotic strand invasion involved in reciprocal meiotic recombination	Interproscan
GO:0120230 all species →	Molecular Function	recombinase activator activity	Interproscan
GO:0120231 all species →	Cellular Component	DNA recombinase auxiliary factor 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
K06695	PSMC3IP; 26S proteasome regulatory subunit, ATPase 3, interacting protein	-	Proteasome	ko03051	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_032222347.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

29TPM > 0

16Conditions

4.3Max TPM

0.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	1	0.66	1.97
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	1.45	1.72
whole 6 week old aboral regenerate · regenerate 0hpa	3	2	0.58	1.39
whole 6 week old aboral regenerate · regenerate 2hpa	3	2	0.30	0.47
whole 6 week old aboral regenerate · regenerate uncut	3	3	0.78	1.11
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	0.15	0.46
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	1.31	1.97
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	2.74	4.28
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	0.63	1.06
whole 6 week old aboral regenerate · regenerate 20hpa	3	1	0.22	0.65
whole 6 week old aboral regenerate · regenerate 16hpa	3	2	0.37	0.61
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	1.70	2.82
whole 6 week old aboral regenerate · regenerate 60hpa	3	2	1.56	2.70
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	0.75	2.25
whole 6 week old aboral regenerate · regenerate 8hpa	3	1	0.16	0.47
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	0.11	0.33

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	1.97
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	1.72
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	1.43
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	1.19
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	1.39
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	0.34
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	0.00
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.47
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.44
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.00
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	1.11
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	0.87
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	0.34
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.46
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	1.97
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	1.97
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	4.28
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.10
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	1.82
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	1.06
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.82
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.65
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	0.61
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	0.51
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	0.00
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	2.82
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	2.29
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	2.70
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	1.98
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.00
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	2.25
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.47
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.33
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.