Gene detail

Detailed information of XP_001638431.2 in Nematostella vectensis

Genomic Location: NC_064044.1:7425769...7433241
NR annotation: XP_001638431.2, adenylyl cyclase-associated protein 1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001638381.3

GTGTTAAGTCTTTTCTTTGCACTCCTCCCTCTAAACACAGCTTCGCGACATTCGCCGGCCaaaaacacccgagaattcacTCAAAAATCACCTCAGATTCAATATGGCTGGAAATCTAGACCCTCTGGTAGTTAGACTAGAAGCTGTGACTTCCAGGCTGGAAGCCATGGCTTCTAAATCTGGCTCCGGGGGGACGGAAGCCAACGAGGAAATTGTATCTTTTTATGACAAGTTTCTcagtgagaatgtcgccaaaTGTCTAAAGATTTCATCTGAAATAGGAGGCGATGTAGGTTCTCAGGCCAAGCTGGTAGACCAGGCATTCAAGGCCCAGAGGGACTTTCTGGTTTTGGTGTCTAAACACCAGTGCCCAAGTGCTAATGTGCTTCAGACACTTCTCACTAAGACGTCACAGGCCATTTTAGCTGTTCAGGAGTTCCGTGAGAAGAATCGGCGTAGCAACTATTTCAACCATTTGAGCTCCTGGAGTGAGGGTATTCCAGCTCTTGGTTGGGTAACAGTGGTCAAAGGAGCTAACTTTGTGAACGAGATGAATGGTTCGGCTGAGTTCTACCTCAACCGTGTTCTAAAGGACTTCAAAGAGAAGGATGCAAAGCATGTGGAGTGGGTCAAGTCAGTCAAGGCCATCTTTGTTGCACTGAAAGAGTACATCAATGAGTTCCACAAGTCTGGGTTAACTTGGAACCAAAGTGGTCCGCCAGCACCGACTTCTGTACCCTCAGGTCCACGTGCCCCCCCTGGTGGCCCAGGCGCACCtccaccacccccaccccctgctgtTGTACCCCCCTCAGCTGTGACAACTGACAGCAAACCTGCAACTGCTGCCCTCTTCAGTGAAATCAATATGGCTGGCACCAACATTGCCTCAGGGTTGCGTAAGGTGACGGATGACCAGAAGACCCACAAGAACCCTAACCTGAGAGCCTCAAGTGTGGTGAAGGACAAACCCAAGCCAACCATTGCTAAGAAACCTGTTGCTGTCACCAAGAAACCTCCTGTTTTTGAGCTCCAGGGCAAGAAGTGGATGGTGGAACATCAAGAGGGAAACAAGAATCTCACCATTGAGGGCTCCATGTCACAGGTGGTCTACATCTACTCCTGCAAAGACAGTGTGGTCATCATCAAGGGAAAAATCAACTCAATTACCCTTGATAACTGCAAGAAGTGTGCTGTTGTGTTCGATGATGCCATTGCTACTGTAGAATTCGTCAACTGCCAAAGTGTGCAATGCCAGGTTAATGGCAAGGTACCAACTGTCTCCATCGACAAGACAGACGGCTGCCAAGTGTACCTGAGTAAAGACTCCCTTCAGTCTGAGATCGTCACGGCCAAGTCTTCAGAGATGAACATACTGGTGCAACAGGCGGATGGGGATTATGTGGAGAACCCGCTCCCTGAGCAGTACAAGTCAGTATGGGATGGCAAAGCCTTCGTCACGACCCCCGTAGCATCACACGGATAGACTTTCTTCACAGACCTTTACCAGAACACTTAGAATCTAGCGAACGCGTAGTCCCTGAATTAATTCCCACAAACCTAGAAAAGGAATAATGTCCGAAGCGGAATTGTGACCACCTTACTGTCTCTAGATAAACTCAAGAGCGGATCGTAAATCAACTTTCGTAGTTCTTAGAATAGCGTTACTTTTATGTTTATGTCAAGCTTGCTTTATCTTGCACGGGTTTCAAGGGAGaggtttttggaaaaaaaagattgttAGCAAAAAACGGTAGAAGGACTCTTGCCTCTTCCTGATTGGCGCGAGCGCAATTTTTAGGGCTGTTGGTGAAAAGTAGAAATAACAGTAGTCTAGCATCAATTATCTACCCAGTTTTTATGCCTCCGCTAGAAGGAAAGCGCGAAGTGTGTTGTGGGAAGAGAGGAAGCGAATGGGTAGAAATGGCAGATTAATCTTGGTTAATCAAATTGGATCACTTTCCGCGTCAGTTAAATTCCTTATCCGTTAAATAGTATTTGCCATGGAAGCTATTTTCGTACTGGGATAAAAAGTATCCTGTATTTTTAAATGCAAAGACGTTTTTTGCACAGAGATGATAGAAGTTGATAAATAAAGCTAATTGTGCATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P40123	Adenylyl cyclase-associated protein 2 OS=Homo sapiens OX=9606 GN=CAP2 PE=1 SV=1
Q3SYV4	Adenylyl cyclase-associated protein 1 OS=Bos taurus OX=9913 GN=CAP1 PE=2 SV=3
Q5R5X8	Adenylyl cyclase-associated protein 2 OS=Pongo abelii OX=9601 GN=CAP2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002507 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08603 all species →	CAP_C	Adenylate cyclase associated (CAP) C terminal	Family	Interproscan
PF01213 all species →	CAP_N	Adenylate cyclase associated (CAP) N terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001837 all species →	Family	Adenylate cyclase-associated CAP	Interproscan
IPR036223 all species →	Homologous_superfamily	Adenylate cyclase-associated CAP, C-terminal superfamily	Interproscan
IPR016098 all species →	Homologous_superfamily	Cyclase-associated protein CAP/septum formation inhibitor MinC, C-terminal	Interproscan
IPR017901 all species →	Domain	C-CAP/cofactor C-like domain	Interproscan
IPR018106 all species →	Conserved_site	CAP, conserved site, N-terminal	Interproscan
IPR006599 all species →	Domain	CARP motif	Interproscan
IPR013912 all species →	Domain	Adenylate cyclase-associated CAP, C-terminal	Interproscan
IPR036222 all species →	Homologous_superfamily	Adenylate cyclase-associated CAP, N-terminal domain superfamily	Interproscan
IPR013992 all species →	Domain	Adenylate cyclase-associated CAP, N-terminal	Interproscan
IPR028417 all species →	Conserved_site	CAP, conserved site, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10652 all species →	ADENYLYL CYCLASE-ASSOCIATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000902 all species →	Biological Process	cell morphogenesis	Interproscan
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007010 all species →	Biological Process	cytoskeleton organization	Interproscan
GO:0007015 all species →	Biological Process	actin filament organization	Interproscan
GO:0008179 all species →	Molecular Function	adenylate cyclase binding	Interproscan
GO:0019933 all species →	Biological Process	cAMP-mediated signaling	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
K17261	CAP1_2, SRV2; adenylyl cyclase-associated protein	-	Exosome	ko04147	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_001638431.2 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

48TPM > 0

16Conditions

686.2Max TPM

441.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	329.06	372.44
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	337.07	406.83
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	608.72	638.16
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	588.71	603.35
whole 6 week old aboral regenerate · regenerate uncut	3	3	474.88	506.58
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	602.37	686.21
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	383.41	414.20
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	344.54	396.35
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	397.01	415.18
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	427.90	453.13
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	485.16	514.37
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	322.80	364.37
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	314.84	324.83
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	361.08	445.38
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	560.92	574.21
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	528.92	572.65

Per sample · hover a bar for the full sample record

Show the sample table (48 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	372.44
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	347.10
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	267.64
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	406.83
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	303.80
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	300.58
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	638.16
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	619.45
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	568.56
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	603.35
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	583.15
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	579.62
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	506.58
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	476.08
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	441.99
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	686.21
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	565.63
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	555.26
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	414.20
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	390.64
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	345.38
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	396.35
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	333.53
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	303.75
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	415.18
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	397.20
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	378.65
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	453.13
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	440.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	390.58
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	514.37
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	481.20
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	459.92
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	364.37
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	306.78
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	297.26
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	324.83
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	317.57
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	302.13
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	445.38
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	329.26
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	308.60
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	574.21
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	558.77
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	549.77
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	572.65
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	524.09
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	490.00

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.

Co-expression network

Genes whose expression across the transcriptome samples of Nematostella vectensis 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	55	XP_048584453.1	0.962681927667747
Negatively correlated	74	XP_048575804.1	-0.802261035580604

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 Nematostella vectensis, 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.

Dataset	Tissue / stage	Cells	Cell types	This gene	Marker of
NVECT_2month	2 month animal · Adult tissues/organs	1,614	23	not in this dataset	–
NVECT_bodywall	body wall with mesenteries · 6-8 weeks adults	11,742	13	not in this dataset	–
NVECT_embryo	embryos · 8, 10 and 12 h after fertilisation (deposit labels 8h/10h/12h)	9,711	17	not in this dataset	–
NVECT_gastrula	Blastula-gastrula intermediate · Developmental stages	49,166	27	not in this dataset	–
NVECT_gastruloid	dissociated and reaggregated embryos · 4-48 hpa	36,550	8	not in this dataset	–
NVECT_neoplasm	neoplasm · Adult tissues/organs	2,532	16	not in this dataset	–
NVECT_nervous	Gastrula Cells · nervous system	16,590	27	unmapped	–
NVECT_notch48h	embryos treated 24-48 hpf (DMSO vs LY411575) · 48 hpf	19,044	7	not in this dataset	–
NVECT_tentacle	tentacle · Adult tissues/organs	7,977	19	not in this dataset	–

A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it; not in this dataset means the dataset’s own gene-ID table does not list it, so no expression claim can be made for that dataset. unmapped is deliberately weaker still: the dataset has no gene-ID table on CnidoSite yet, so nothing is claimed in either direction. Where markers are listed, the numbers are log2 fold change and the percentage of cells of that type in which the gene was detected.

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.

Peak calls overlapping this gene

Assay	Sample	Peaks	Region
ChIP-seq	H3K27ac_gastrulae_24h	1	Promoter (<=1kb) 1
	H3K27ac_planulae_4days	1	Promoter (<=1kb) 1
	H3K4me2_gastrulae_24h	3	Promoter (<=1kb) 1 · 3' UTR 1 · Exon 1
	H3K4me2_planulae_4days	1	Promoter (<=1kb) 1
	H3K4me2_polyps	2	Promoter (<=1kb) 1 · 3' UTR 1
	H3K4me3_gastrulae_24h	1	Promoter (<=1kb) 1
	H3K4me3_planulae_4days	1	Promoter (<=1kb) 1
	H3K4me3_polyps	1	Promoter (<=1kb) 1
	H3K27ac_Ncol3_positive	1	Promoter (<=1kb) 1
	H3K36me3_planulae_4days	4	Exon 2 · Promoter (<=1kb) 1 · Promoter (1-2kb) 1
	H3K36me3_polyps	2	Promoter (<=1kb) 1 · Promoter (1-2kb) 1
	H3K4me1_gastrulae_24h	3	Promoter (<=1kb) 1 · Intron 1 · Exon 1
	H3K4me1_planulae_4days	6	Exon 2 · 3' UTR 2 · Promoter (<=1kb) 1 · Intron 1
	H3K4me2_neuronal_ELAV_cells	2	Promoter (<=1kb) 1 · 3' UTR 1
	late_gastrula	1	Promoter (<=1kb) 1

1 further sample(s) also have peaks at this gene; open the assay page below to see them all.

Browse the full epigenomic landscape of this species: ChIP-seq · ATAC-seq.

DNA methylation (bisulphite samples)

Sample	Methylation profile
Whole_adults	open

The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.

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 →