Gene detail

Detailed information of evm.model.Ap4.3916 in Astrangia poculata

Genomic Location: Ap4:28919786...28920598
NR annotation: CAH3142873.1, unnamed protein product [Pocillopora meandrina]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000039 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03372 all species →	Exo_endo_phos	Endonuclease/Exonuclease/phosphatase family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004808 all species →	Family	AP endonuclease 1	Interproscan
IPR036691 all species →	Homologous_superfamily	Endonuclease/exonuclease/phosphatase superfamily	Interproscan
IPR005135 all species →	Domain	Endonuclease/exonuclease/phosphatase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22748 all species →	AP ENDONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003906 all species →	Molecular Function	DNA-(apurinic or apyrimidinic site) endonuclease activity	Interproscan
GO:0004518 all species →	Molecular Function	nuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006284 all species →	Biological Process	base-excision repair	Interproscan
GO:0008081 all species →	Molecular Function	phosphoric diester hydrolase activity	Interproscan
GO:0008311 all species →	Molecular Function	double-stranded DNA 3'-5' DNA exonuclease activity	Interproscan
GO:0003824 all species →	Molecular Function	catalytic 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

No KEGG orthology assignment for evm.model.Ap4.3916.

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

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap4.3916 across 49 RNA-seq samples of Astrangia poculata. 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.

49Samples

33TPM > 0

4Conditions

910.5Max TPM

141.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organism · cold control	14	10	117.73	222.83
whole organism · heat control	12	10	147.70	347.15
whole organism · cold challenge	12	7	114.15	344.92
whole organism · heat challenge	11	6	196.66	910.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	222.83
SRR10674748	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	215.48
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	198.59
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	181.91
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	174.59
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	160.11
SRR10674735	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	151.09
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	134.80
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	121.41
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	87.40
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674747	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674725	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	347.15
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	328.50
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	247.97
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	163.46
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	152.94
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	143.17
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	109.41
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	103.35
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	103.31
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	73.11
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	344.92
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	307.15
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	232.29
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	188.30
SRR10674745	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	114.05
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	96.21
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	86.89
SRR10674711	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674713	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674730	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674740	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674716	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	910.53
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	410.02
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	280.85
SRR10674728	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	246.55
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	211.00
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	104.35
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00

Source: CnidoSite RNA-seq expression matrices (APOCU_TPM, StringTie quantification over 49 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.