Gene detail

Detailed information of FUN_047917-T1 in Siderastrea siderea

Genomic Location: contig_68:3178594...3187581
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_047917-T1

ggggggggggggtggatattaaatggaatggcccgtTTTTAGGGGCTACTTCCTGGCCTTTGATAAACAAACGACAATGACTTTCTTACCTGCCATTAAGACTCATCGGCCATTGAGTATTTAAAAAACTTGCCGTTTCCTCCAACAGCTCTGGATGTTTTCGCAAGGGAACAAACGTAAGGTCTTCATTTCGCATGATTTTCTCCGACAGATTGGATTCCTAGCTATAGGACCGAAAATGTCCCGGGACGAGCTACCCTCTCTCCAGTCTCTCACGCCTACATATATTGAAGCTCTTCGTTCGGTCCTTCGTTCGTGTAAGCAAACGTGTTATGTCCTTGCAGTAGGAAGGAGCAACGTTTTCTACCGGCGTTTGACTTCACGTGTGGGTTCCAAGGTGTCAACAGATAGCATATTAAATATGGATGTGGTCAAACAAAGACCAGAACCTTTATCAGGAAAGGATGAAGGGTCATTTGCTTACCTCACTATTCGTGACAGATTACCAGTCATTTTGACAAAAGTTATTGATTTGGTGCACAGAAGAGCTTCCGCATACTTTCACCAAAATCAAAAGGAACAAACTGAGGATAGTAAAGTTGTGTTAGCCAAACTTAGTAAATTGAGATACGAGATGAAAACCAACAAACCATTACTGCCAATGGAAGACGATCGGCCAGATGTGGGCATCTGGAATGATACCATCAAGAACAGTAAATCACTGGTTGATGAAAACAAGGTTGCATCATCCTTCACTGGGGCTTGGCTTCTTGTTGAGTGCTACATGTATCGCAAGATTTATGAGGCCTTTGCTTTAAGcAATCACCACCAGAGCTTTGATCCTTTCCAGGGGCAGAAGGAAAGTTCATTTGAAGGACTTCAGGATTCAGCTGTCTCTCTGGCTCAGTTCCTTTGTCACGCAATAGACACACCTGCTGATGATGAAGGAACTCTGAGAAATGTCTTTGACACTTTGCTTCAGTTTTGTTTGTGGGGAAACCGCTGTGATCTTTCCATATCAAGTGGCGAAATACAAGCAGAACAAGGAGCTTCCCAGACATCCCATCTTCAACACatgaaagaaaacattattgTTGACAATTCTGAGGATGTGTGGATTGCAATTCACAAGAATGAAAACACTAGAATTGACTTTATCCTTGACAACTCCGGCTTTGAACTTTTCACAGATCTGTGTTTTGCAGAATTCCTGTTACATTCAAAGTTAGCTGAAAAGATTTACCTTCATACTAAGCAAATTCCTTGGTTTGTTTCTGATGCAAGCAGCAAGGACCTTCTTTGGATGGTAGAACAGACGAAGTCGTCTTCAAACAAGTTTTTATCACGGCTTGGAGAACGCTGGCTTCAGCGCTTCGAAGATGGATCATTTGTCTTACAAAGCCACCAGTTTTGGACACTAGCTCAAGATTTTAGTGAAATGAACACCATTGCCCCTGATTTGTATGAGGATttgtcaaaagccaaaattgtGTTTTTTAAAGGAGATCTGAATTATCGTAAGTTGGTTGGTGATCGCAAGTGGCCTCATACGACTCCTTTTACAGAAGCATTGTGGGGATTCTTGCCTGCACCTTTATGTTCATTGAGAACACTCAAGGCAGATGTCCAAGTGGGCTTAGCCCTAGGTCAGGATGGTAGGATTGAGGCATTCAATAAAGACTGGATGACATCAGGCAGTTATGCTGTCATCCAGCATGCTCATCCTTTGAAATaacatttttcaaaacaatccAATAACAAGTCAAGAGGCATACATGTGTAAAGCCCTATTTACAAGCCTCATGGGCTTAAAGTTAATTTCCTGTTTGTTTGGTTGGGAGAAGGATTACTTCTTGTTGAAGACAATTATGCATCTTGCAAAAAAATTTGCCTTTACAACAATAAAGGATTTTGCCTTTAAAATAATAGATGTATAGTATAAGAACCAGTATTTCATTATTTATTTCAAATGAATGAGGTAGACTATCATCCTTttgagttagctacatgtagtAACAATCCTATAGTGTTGTTTTTACTGTAATTTTCAGAATGCTGACAGTATTCTAATAAAATTTTATAGGTAGCCTAATTTTGCATAAATTTACCCTAATTATTTTAGTTGGGATTTAGTACAGGTAAAAACTAGCAATAGAAATACAATAAAAACACAGGGATACAAAAATAGGGAGTCTGCTTTCTTAGTATTGAAGTAGTTAAATTAATAACCAGCAGAAACCATTTTCATGTTGCTATGGAGTAACTGATGTTTTTGACAAAGTGAAAAAAGATTGGAAGTCTGGAAGAATATGAACTGCTGTAAATTATCAACCAAACTGCTAGTTGAGTGTTTCTGTTGGAAgtgttaaaattaatttaactCTATAGAAACATGTGCAAAAAATGTGTGAACTTACCTCCTACACAATATTTTTTGTATAatccttttttgttgttgttgttgttgtttttttttttttttt

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01937 all species →	ARMT1-like_dom	Damage-control phosphatase ARMT1-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002791 all species →	Domain	Damage-control phosphatase ARMT1-like, metal-binding domain	Interproscan
IPR039763 all species →	Family	Damage-control phosphatase ARMT1	Interproscan
IPR036075 all species →	Homologous_superfamily	Damage-control phosphatase ARMT1-like, metal-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12260 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0016791 all species →	Molecular Function	phosphatase activity	Interproscan
GO:2001020 all species →	Biological Process	obsolete regulation of response to DNA damage stimulus	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
K23114	ARMT1; damage-control phosphatase, subfamily III	EC:3.1.3.-	Enzymes with EC numbers	-	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_047917-T1 across 85 RNA-seq samples of Siderastrea siderea. 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.

85Samples

64TPM > 0

7Conditions

831.3Max TPM

180.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	12	122.07	478.36
holobiont · low.pH Control.temp	20	15	281.07	831.31
holobiont · control.pH_high.temp	20	15	178.58	501.11
holobiont · control.pH Control.temp	19	16	190.09	695.80
Whole organism	4	4	13.86	17.30
unannotated	1	1	6.81	6.81
live coral tissue/skeleton	1	1	14.10	14.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	478.36
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	407.34
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	346.97
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	321.22
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	281.35
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	171.14
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	138.31
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	105.33
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	86.90
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	67.57
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	25.48
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	11.45
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	831.31
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	821.65
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	706.03
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	569.61
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	565.78
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	481.38
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	309.78
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	299.95
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	279.13
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	177.01
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	167.25
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	159.28
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	103.22
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	79.21
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	70.77
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	501.11
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	448.13
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	441.30
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	333.28
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	316.63
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	316.32
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	284.49
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	261.05
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	225.07
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	168.66
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	132.28
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	48.50
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	33.88
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	31.33
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	29.52
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	695.80
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	464.28
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	435.07
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	433.32
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	307.37
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	248.05
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	227.22
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	190.80
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	158.31
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	111.52
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	101.86
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	99.11
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	48.46
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	34.09
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	33.70
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	22.78
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	17.30
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	15.94
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	14.15
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	8.06
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	6.81
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	14.10

Source: CnidoSite RNA-seq expression matrices (SSIDE_TPM, StringTie quantification over 85 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.