Gene detail

Detailed information of evm.model.Ap8.1109 in Astrangia poculata

Genomic Location: Ap8:12336555...12337514
NR annotation: CAC5424190.1, unnamed protein product [Mytilus coruscus]
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)

UniProt accession	Description
P08548	LINE-1 reverse transcriptase homolog OS=Nycticebus coucang OX=9470 PE=4 SV=1

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
IPR005135 all species →	Domain	Endonuclease/exonuclease/phosphatase	Interproscan
IPR036691 all species →	Homologous_superfamily	Endonuclease/exonuclease/phosphatase superfamily	Interproscan
IPR004808 all species →	Family	AP endonuclease 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22748 all species →	AP ENDONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
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

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.Ap8.1109.

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.Ap8.1109 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

38TPM > 0

4Conditions

1,028.0Max TPM

176.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organism · cold control	14	10	189.92	1,028.03
whole organism · heat control	12	12	212.97	516.71
whole organism · cold challenge	12	7	79.69	247.39
whole organism · heat challenge	11	9	224.83	668.13

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	1,028.03
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	472.82
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	319.64
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	313.08
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	135.60
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	93.30
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	89.28
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	76.54
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	66.16
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	64.37
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674735	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
SRR10674748	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	516.71
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	381.85
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	280.00
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	231.24
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	195.64
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	194.86
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	181.87
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	169.80
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	164.19
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	121.08
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	77.48
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	40.88
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	247.39
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	221.00
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	145.36
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	119.96
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	87.44
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	85.30
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	49.84
SRR10674711	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
SRR10674745	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	668.13
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	576.56
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	281.09
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	263.75
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	191.89
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	185.17
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	110.16
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	108.49
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	87.94
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674728	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.