Gene detail

Detailed information of FUN_057468-T1 in Siderastrea siderea

Genomic Location: contig_123:650343...682980
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

FUN_057468-T1

ATGTCGGCGAAGGCTATTTACGAAACTGACGGGAAATCTTTACTCGCAAAATGGTTGCAAAACTCCAACTACACCAAGAATAAGTTTGCTATTGTTGTCCACGATACAAACTGGGACGAACTTGTAAAGGAAAATCCATGGATTCAAAATGAGAAGCTTGTAGTGAAGCCAGATCAACTTATTAAGCGTCGAGGTAAGCTTGGTCTCATCAAGGTGAATGCGGATTTACAGCAAGCCAAGCAATGGATCAATGAAAGAATGGGCAAAGATATACAGGTTGGAGCTGCAAGTGGACCCCTGAAAAGATTCATCATTGAACCATTTCTACCACACCAACAGAGTGAAGAGTTTTATGTGTGCATCTATGCTCAGCGGAACTGTGacacaattttatttcatcACGAGGGTGGGGTGGAAATTGGAGATGTGGAAAGCAAGGCTGTTAAACTAGAAGTTGGCCTTGAAGATAAAGTTACAATTGAGCTGATCAAGAATAAGCTCATGCAAAATGTCCCACAACAAAAGAAAGAATTTCTTGCCACATTCATCCATGACTTGTTTCAAGTTTACACAAACTTGTTCTTTACGTACCTTGAAATAAATCCCCTAGtGGTTGTAGGTGAGTCTGTCCATGTGCTTGACCTTGCTGCGAAGTTGGATCAGACTGCAGAGTTCATCTGTAAAACAAAATGGGGAGATGTTGACTTCCCTCCTCCATTTGGAAGAGAAGCATATGCCGAGGAAGCGTACATTGCTGAATTAGATGCAAAGAGTGGAGCATCTCTAAAACTAACAATCCTGAACAGCAAAGGACGCATATGGACAATGGTGGCTGGTGGAGGAGCATCTGTAGTGTACAGTGACACTGTTTGTGATCTGGGTGGTGCGTTAGAGCTGGCTAACTACGGAGAGTACTCTGGTGCTCCCTCGGAGTCTCAGACTTATGAATATGCTAAGACAATCATCAAAATGATGACTGAGGGCCCACCAAGACCTGATGGAAAGATCCTTATCATTGGTGGTGGTATTGCCAACTTCACCAATGTTTCAGCAACATTCAAGGGAATAGTGAAAGCTTTGCAGGAATACCAGAAGAAGCTGTTGGAACATAAGGTAAACATCTTTGTCAGAAGAGGAGGACCGAACTACCAGGAGGGGCTGCGAGTTATGAGGGAAATAGGATCCAGTTTAGGGCTGTCCATGCATGTGTTTGGAACAGAGACCCACATGACAGCTATTGTTGGTATGGCTCTTGGAAAGAGAGAAGTTCCTAAACAGGTTGGCTTTGACTCCAATGCTGCAGCAAACATGTTCTTCACAGCTCAGGACAAGGGTTCTGCTAGTGGTGGCAAACACACAGTGTACATGTCAGAGAATTCAGAGAAAACACCTGATGAGAAGCCATCACCAGAACAAATCCGCAAGGCAGCAAGAGGATCAAAGGCACCTCTGTTTACAAAGGACACAAGGGCCATCATCTGGGGTCTGCAAGCAAGAGCTGTGCAGGGCATGTTAGATTTCGATTATGTTTGTGAGAGAAAGAGACCCTCAGTTGCCGCCATGGTGTACCCTTTCAGTGGAAATCACCGTCAGAAGTTTTATTATGGACACAAAGAAATCATGATTCCAGTGTACAAAGACATGTCTGAAGCAATGAGCAAACATCCTGAAGCTGATGTAATGATCAACTTTGCTTCGCTGCGTTCAGCCTATGATGCTACAATGGAAGCTATGCAGTTCCCACAAATTCGCACAATCGCTATCATCGCTGAAGGAATTCCAGAGGCAAAAACAAGACAGCTGAACAAGAAAGCTAAAGATTTGGGAGTAACTATCATCGGTCCGGCAACAGTTGGTGGTATTAAGCCTGGCTGTTTTAAGATCGGTAATACAGGTGGCATGTTGGATAACATTTTGGCTTCAAAGCTTTACCGCCCAGGAAGTGTTGCTTACGTGTCTCGTTCTGGTGGCATGTCCAATGAACTCAACAACATCATCTCACGCACTACAGACGGGGTGTACGAGGGCGTGGCTATTGGGGGAGACAGGTATCCTGGCACAACATTCATGGACCACGTGATGAGATATCAAGAAAACCCGGATGTCAAAATGATCGTGGTACTTGGAGAGGTTGGTGGCACTGAGGAATACAAGATCTGTGAAGCCATCGAGAGTGGTGTGGTTACCAAGCCCGTTGTGGTCTGGTGTATTGGCACATGCGCAGGAATGTTCACCTCAGAGGTTCAGTTCGGTCACGCTGGGGCGAGTGCCCATGGGGACAACGAGACAGCAATTGCCAAGAACAAGGCTCTGAAAGAAGCCGGTGCTTATGTTCCAGACAGTTTCGATTCGCTCTTTGATCAGATCAAGGAAGTTTATGATGTGCTTGTGAAAGATGGTACAATTGTTCCCAAACCTGAGAAGAATCCCCCCACTGTTCCAATGGATTACTCTTGGGCTCAGGAGCTTGGTTTGATCCGCAAACCGTCATCGTTTATGTCCAGCATCTGTGATGAGAGAGGCGCAGAGCTGTTGTACGCCGGTATGCCCATCACAGAGGTGTTCAAGGAGAACATCGGTGTTGGAGGAGTCTTAGGTCTTTTATGGTTCCAAAGAAGATTACCCGAATACGCCAGTGAATTTATTGAGATGTGCCTCATGATAACCGCTGACCACGGACCTGCTGTTTCAGGTGCGCATAACACAATCGTGACAGCTAGAGCTGGAAAGGACCTCATATCATCCCTGGTGTCTGGTCTCCTCACAATCGGTGACAGATTCGGTGGCGCGTTAGATGCAGCCGCTCGGATGTTTTCTCAGGGATTAGACAGTGGACAGGCGCCCATGGAATTCGTAAATGACATGAGAAAGAAGGGACAGCTCATCATGGGCATCGGACACCGCGTTAAATCTCTGAACAATCCCGACATGAGAGTGGTTCTGCTTAAAGATTTTGTAAAGAAGCACTTTCCCGCCACTTCTGTCTTGGATTACGCCATTGAAGTTGAAAAGATCACCACTTCCAAGAAGCCTAACCTTATTCTCAATGTTGATGGTTGTATCGGAGCCGCCTTTGTGGATCTACTGCGTCACTGCGGAGCGTTTACAAGAGAGGAAGCAGATGAATTTGTGGAGATTGGAGCGCTTAATGGATTGTTTGTTTTAGGAAGATCAATTGGTTTCATCGGTCATTACTTGGATCAAAAGCGTTTAAAGATGGGACTGTACCGTCATCCCTGGGATGACATTACCTACATCATGCCCGACCATCTTCAGCACCTCCGCCCAGCCAGCTTTGAATAA

Transcript

FUN_057468-T1

ATGAGGCGTCACATGTCCGCGCACTTCAAGCGATCGGTCAAGTGTCTACTTATTGAGCAAGATACCGCGGAATAAATCCCTGGTACATATTTCATTACCGCATTTCGTCGTCGAGAACGTGGTAAAGGTTCTGTTCTCTCTTCATCGCTTCTGATTTAGTGCTTTCAACATGTCGGCGAAGGCTATTTACGAAACTGACGGGAAATCTTTACTCGCAAAATGGTTGCAAAACTCCAACTACACCAAGAATAAGTTTGCTATTGTTGTCCACGATACAAACTGGGACGAACTTGTAAAGGAAAATCCATGGATTCAAAATGAGAAGCTTGTAGTGAAGCCAGATCAACTTATTAAGCGTCGAGGTAAGCTTGGTCTCATCAAGGTGAATGCGGATTTACAGCAAGCCAAGCAATGGATCAATGAAAGAATGGGCAAAGATATACAGGTTGGAGCTGCAAGTGGACCCCTGAAAAGATTCATCATTGAACCATTTCTACCACACCAACAGAGTGAAGAGTTTTATGTGTGCATCTATGCTCAGCGGAACTGTGacacaattttatttcatcACGAGGGTGGGGTGGAAATTGGAGATGTGGAAAGCAAGGCTGTTAAACTAGAAGTTGGCCTTGAAGATAAAGTTACAATTGAGCTGATCAAGAATAAGCTCATGCAAAATGTCCCACAACAAAAGAAAGAATTTCTTGCCACATTCATCCATGACTTGTTTCAAGTTTACACAAACTTGTTCTTTACGTACCTTGAAATAAATCCCCTAGtGGTTGTAGGTGAGTCTGTCCATGTGCTTGACCTTGCTGCGAAGTTGGATCAGACTGCAGAGTTCATCTGTAAAACAAAATGGGGAGATGTTGACTTCCCTCCTCCATTTGGAAGAGAAGCATATGCCGAGGAAGCGTACATTGCTGAATTAGATGCAAAGAGTGGAGCATCTCTAAAACTAACAATCCTGAACAGCAAAGGACGCATATGGACAATGGTGGCTGGTGGAGGAGCATCTGTAGTGTACAGTGACACTGTTTGTGATCTGGGTGGTGCGTTAGAGCTGGCTAACTACGGAGAGTACTCTGGTGCTCCCTCGGAGTCTCAGACTTATGAATATGCTAAGACAATCATCAAAATGATGACTGAGGGCCCACCAAGACCTGATGGAAAGATCCTTATCATTGGTGGTGGTATTGCCAACTTCACCAATGTTTCAGCAACATTCAAGGGAATAGTGAAAGCTTTGCAGGAATACCAGAAGAAGCTGTTGGAACATAAGGTAAACATCTTTGTCAGAAGAGGAGGACCGAACTACCAGGAGGGGCTGCGAGTTATGAGGGAAATAGGATCCAGTTTAGGGCTGTCCATGCATGTGTTTGGAACAGAGACCCACATGACAGCTATTGTTGGTATGGCTCTTGGAAAGAGAGAAGTTCCTAAACAGGTTGGCTTTGACTCCAATGCTGCAGCAAACATGTTCTTCACAGCTCAGGACAAGGGTTCTGCTAGTGGTGGCAAACACACAGTGTACATGTCAGAGAATTCAGAGAAAACACCTGATGAGAAGCCATCACCAGAACAAATCCGCAAGGCAGCAAGAGGATCAAAGGCACCTCTGTTTACAAAGGACACAAGGGCCATCATCTGGGGTCTGCAAGCAAGAGCTGTGCAGGGCATGTTAGATTTCGATTATGTTTGTGAGAGAAAGAGACCCTCAGTTGCCGCCATGGTGTACCCTTTCAGTGGAAATCACCGTCAGAAGTTTTATTATGGACACAAAGAAATCATGATTCCAGTGTACAAAGACATGTCTGAAGCAATGAGCAAACATCCTGAAGCTGATGTAATGATCAACTTTGCTTCGCTGCGTTCAGCCTATGATGCTACAATGGAAGCTATGCAGTTCCCACAAATTCGCACAATCGCTATCATCGCTGAAGGAATTCCAGAGGCAAAAACAAGACAGCTGAACAAGAAAGCTAAAGATTTGGGAGTAACTATCATCGGTCCGGCAACAGTTGGTGGTATTAAGCCTGGCTGTTTTAAGATCGGTAATACAGGTGGCATGTTGGATAACATTTTGGCTTCAAAGCTTTACCGCCCAGGAAGTGTTGCTTACGTGTCTCGTTCTGGTGGCATGTCCAATGAACTCAACAACATCATCTCACGCACTACAGACGGGGTGTACGAGGGCGTGGCTATTGGGGGAGACAGGTATCCTGGCACAACATTCATGGACCACGTGATGAGATATCAAGAAAACCCGGATGTCAAAATGATCGTGGTACTTGGAGAGGTTGGTGGCACTGAGGAATACAAGATCTGTGAAGCCATCGAGAGTGGTGTGGTTACCAAGCCCGTTGTGGTCTGGTGTATTGGCACATGCGCAGGAATGTTCACCTCAGAGGTTCAGTTCGGTCACGCTGGGGCGAGTGCCCATGGGGACAACGAGACAGCAATTGCCAAGAACAAGGCTCTGAAAGAAGCCGGTGCTTATGTTCCAGACAGTTTCGATTCGCTCTTTGATCAGATCAAGGAAGTTTATGATGTGCTTGTGAAAGATGGTACAATTGTTCCCAAACCTGAGAAGAATCCCCCCACTGTTCCAATGGATTACTCTTGGGCTCAGGAGCTTGGTTTGATCCGCAAACCGTCATCGTTTATGTCCAGCATCTGTGATGAGAGAGGCGCAGAGCTGTTGTACGCCGGTATGCCCATCACAGAGGTGTTCAAGGAGAACATCGGTGTTGGAGGAGTCTTAGGTCTTTTATGGTTCCAAAGAAGATTACCCGAATACGCCAGTGAATTTATTGAGATGTGCCTCATGATAACCGCTGACCACGGACCTGCTGTTTCAGGTGCGCATAACACAATCGTGACAGCTAGAGCTGGAAAGGACCTCATATCATCCCTGGTGTCTGGTCTCCTCACAATCGGTGACAGATTCGGTGGCGCGTTAGATGCAGCCGCTCGGATGTTTTCTCAGGGATTAGACAGTGGACAGGCGCCCATGGAATTCGTAAATGACATGAGAAAGAAGGGACAGCTCATCATGGGCATCGGACACCGCGTTAAATCTCTGAACAATCCCGACATGAGAGTGGTTCTGCTTAAAGATTTTGTAAAGAAGCACTTTCCCGCCACTTCTGTCTTGGATTACGCCATTGAAGTTGAAAAGATCACCACTTCCAAGAAGCCTAACCTTATTCTCAATGTTGATGGTTGTATCGGAGCCGCCTTTGTGGATCTACTGCGTCACTGCGGAGCGTTTACAAGAGAGGAAGCAGATGAATTTGTGGAGATTGGAGCGCTTAATGGATTGTTTGTTTTAGGAAGATCAATTGGTTTCATCGGTCATTACTTGGATCAAAAGCGTTTAAAGATGGGACTGTACCGTCATCCCTGGGATGACATTACCTACATCATGCCCGACCATCTTCAGCACCTCCGCCCAGCCAGCTTTGAATAAAGGCGTGACAGTCTCGCCATATTGTTGCGTGACAATCAGGTTTTGCaaattggaaattttcactCCATCGAGAGCTCCCCATATAGGAAAACTGAAGCCGGTGAACGAGCGGGAAAATTATGTTGCAGGAACGTTTGAAAAGTGGAGTGCATTGTTGAAGCTGTAATGTTTTTGTGGTCGGGGATGTATAACAGCTGTTGAAAAATAGGTTCTTTGGATCTAATTCAGGGGGCCTGGGATGGGTTGTGTTATAGAAAAATTACTTAAAAGTAACAAAGCTAAATGTGAtgagataattttaaaaataaataatcatTGCGATGCGTTTTAGTTAATACTATAATCAgttcaaaatgaaataaaatattcttaCGTG

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005029 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00285 all species →	Citrate_synt	Citrate synthase, C-terminal domain	Domain	Interproscan
PF16114 all species →	Citrate_bind	ATP citrate lyase citrate-binding	Domain	Interproscan
PF08442 all species →	ATP-grasp_2	ATP-grasp domain	Domain	Interproscan
PF02629 all species →	CoA_binding	CoA binding domain	Domain	Interproscan
PF00549 all species →	Ligase_CoA	CoA-ligase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036969 all species →	Homologous_superfamily	Citrate synthase superfamily	Interproscan
IPR016143 all species →	Homologous_superfamily	Citrate synthase-like, small alpha subdomain	Interproscan
IPR016102 all species →	Homologous_superfamily	Succinyl-CoA synthetase-like	Interproscan
IPR033847 all species →	Conserved_site	ATP-citrate lyase/succinyl-CoA ligase, conserved site	Interproscan
IPR017440 all species →	Active_site	ATP-citrate lyase/succinyl-CoA ligase, active site	Interproscan
IPR002020 all species →	Family	Citrate synthase	Interproscan
IPR032263 all species →	Domain	ATP-citrate synthase, citrate-binding domain	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR013650 all species →	Domain	ATP-grasp fold, succinyl-CoA synthetase-type	Interproscan
IPR003781 all species →	Domain	CoA-binding	Interproscan
IPR017866 all species →	Conserved_site	Succinyl-CoA synthetase, beta subunit, conserved site	Interproscan
IPR005811 all species →	Domain	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Interproscan
IPR014608 all species →	Family	ATP-citrate synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23118 all species →	ATP-CITRATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046912 all species →	Molecular Function	acyltransferase activity, acyl groups converted into alkyl on transfer	Interproscan
GO:0003878 all species →	Molecular Function	ATP citrate synthase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006085 all species →	Biological Process	acetyl-CoA biosynthetic process	Interproscan
GO:0006633 all species →	Biological Process	fatty acid biosynthetic process	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006101 all species →	Biological Process	citrate metabolic process	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
K01648	ACLY; ATP citrate (pro-S)-lyase	EC:2.3.3.8	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 FUN_057468-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

11TPM > 0

7Conditions

39.5Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	4	4.53	32.15
holobiont · low.pH Control.temp	20	0	0.00	0.00
holobiont · control.pH_high.temp	20	0	0.00	0.00
holobiont · control.pH Control.temp	19	1	2.08	39.52
Whole organism	4	4	14.42	23.81
unannotated	1	1	31.63	31.63
live coral tissue/skeleton	1	1	33.82	33.82

Per sample · hover a bar for the full sample record

Show the sample table (85 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	32.15
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	23.87
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	23.39
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	11.28
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214413	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
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214418	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
SRR22214421	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
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214428	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
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214432	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
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214436	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
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214443	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
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214450	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
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214457	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
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	39.52
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214422	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
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214481	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
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214548	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	23.81
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	13.52
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	13.04
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	7.32
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	31.63
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	33.82

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.

Co-expression network

Genes whose expression across the transcriptome samples of Siderastrea siderea 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	0	not in this network	-
Negatively correlated	3	FUN_006331-T1	-0.475616599441176

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 Siderastrea siderea, 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.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

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.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

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 →