Gene detail

Detailed information of FUN_014563-T1 in Siderastrea siderea

Genomic Location: contig_11:13200265...13225858
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_014563-T1

atggcggctacacCTTCTCCACGTAGTCCGAAATCTCCTAAGACACCGTCAATGTCTCCTTTGCCACGTCAAAGCAATTCGGGGTCGGTTTGTTGGGATGCCGAAATGGACACTGATGCACTATTTTCGAGTCACACTGTCGAAGAGATCCGAGCTGTGGAGCACAAAACAAGGGGTGACattgaaaggaaaaaagaagatTTACGCTTGATGGTTGGGGAAAGATATCGTGATCTTATTGATGCAGCTGATACAGTTACTGAGATGAAAACATGTGCTAGCAAGGTGACAAACTTTGTGCATGATATTCAGAAGCAGTGTAAGGAGCTTCACTTATCTCACAAATGTCATGGTGTCGGTGGCATCCAGTCAGCAGCTCATAAGGGACTTACTTCACAGTCTAAAAGTGGTTTTTATGCGATTGCATCTCAAATGAAACTATTGGTAGATACTCCAGAGAAGATATGGAGTGCATTAGAAAGAAAGCAGTATCTTAAGGCAGCTCAGTTGTACCTTTTTTCACATCACATTGTCAGCATCCTTCACATTGATACAGGAGACTCCTCTGCACCCAAGTTACTGTCCTCTTTCCCCATCTTACCAAAACAATGGGCAGCTATTAGCCACTTCAAGGAATCGATTCTTCAGGGAAGCCGCGCTCTGTTAAAGGATGCAGCTCAAACTGAAGAGATGCTTGCAGAGTCACTGTGCTCAATTCTTCTGTTGGAGGAGAGCTCACCTCGTCAGGTCTTTACTGAGTTTATCTTAGCAAGAAAGGCTGCCTTACAAGAGATCTTTCATCCTTGTCAACATGcaACGAGTATCAAGTCTCAAGTTTGTGAAGTTGTGCGAATCATTCGAAGCAGTCTTTATCAAATCCATGCTCTGTTCTACTGTCATGATGAAAGAGAAACAAATGAAATCAAAGACTCTCCTGCACTTGTATTCAAAACTCTTGCTGATGTCATCAAACGGGAAACTTATCCAAACAGTGATGAGGAATCTTTGGAGGCATTGTTTGGTCCTGACTTTGACCTGGTAACCAGTGCAAGATTTCTTCCCAAGACTGTGTTAGGGTACAGGCCACAAGTGAGGGCATTTCCGTCTGTGATATCAAGACAAAACATTCATCATAACTGTACAGAATGGATCTCAATGTGTGTTAAGGACGTCACCACTGGGGTAAGCAGTCTCCTCAAATATATTGGGACTCTCAAAGGACTGGCCTCTATAAGGGATGCTGTGTGGGACCTTCTCAAACAGGCAGAGATGGAAGCTGGTTGTAGTGAGCATACTCTAGACTGGTCAACTCTTTGTAACAGGGTACTAGGGCGTGACCTGTCCATTTGGGCCGAGTTTCTTCAGCCTCTCTTTCTCTCCAGAGCCAAGACTATTCTGAAAGGTCTGTTTGATGCCACAGTGTCATCTTGTGAAAACATGATAACCAAATCACAAGATGACATCTCTGACCGTCATACAACTGACCACAGCGCTCTCTGGGAAAGGGACATTGCCATGTATGTGTGGCACGAAAGTCCAAATGACGTCCATAGAACTGAGAGCACCGAGCAGAATAGTGGACTTGCACTGAAGGCACGTGCCTGCACTCCTGCTGTACAGAGATTGTGCAAAGAAGTTGATGACAAATTAGCAGCAACTCTCGAAGATGGTCAATATTTCATTTTGGATGCACAAAAGAATAAAGATGCTGAGTTGTCCAAAAGAGCTTCAGTGAACAGAAACCCGGATTTAAGCTTTCTTACTGGAAACAAGTCAGTCAGCCACGAATCAGACCCGTTTGACCGATTTGGTGATTCTCGTCAAATCCAGTCCCACCTTCAAGAAACCTGTTTTTCTGCTTTTAATCAGTTGTTACAGTACATTGACGACATAATAAGTAGCCACAAAGACAAATTATTGTTGAATTCAGACGAAGTAGTTGTTGGCCAAACACAGTGGTTGTTCGATACAGTCTGCATTGATAGAGTGCTGTTTGTTGGTCGACTGTGTCACTCATTTGTTGAGCAGTGTCCTCATATCAAACTTGTCATGGATGGTGTTGAAGCAGAGTACAAATTCCGAGGAACACCAAGAACGCCTAAGTCTTCAAGCTCTCTGCgaaagaagGACGAGCAAGACAAAGGCAACAAAATGATGGAACTTGCTAAACATTTCAAAGAGAGATACTTCGCCGCATACAGGTTGTGGAAAGATTGGATTTCTGTGCTGTTCCTGTCTTCATTAGAAGCGACATTATTACATGGTGGCAAAACTACGTGTTTGTTGTCAATGACTAACTGGGAGGAAATCAAGATTGAAGAAGAAACGGAGGAAGGAAACAAGGTGGAGTCCATTATACGAGTCCCTGCCCAGGTTTCGTCGCACGTAACCTCTTTGCTGTTCAGTCTTTGCCAAGAACTCAACAGAACTGGGGTCCACGCCTTAGACAGAAAACTGTTGCATGAGCTTGTCACGAGCCTGTCACGTGGAGTGCTGTCAACGCACGAGAAACTCATTCGGGAACAGAGGTCGATTCTGACTCAAACCCAGGCCCTGCAGATCATGTTCGACCTAAAGTTCCTCACCACCATCCTGTTGGGGCGTGGCGAGGAAGAGGCTTCTGAGTTTTCAGACCGCCGCGAGCAACTTGTGGACGCTCTGGAAAATCGTGTTGACCCTTTTGACTTGGATGtattttctccttatatggcaACAAACCTGAACAGGCAACTTCAGAGATGCGGGgTTTTGTTTGGCGTCTTAGCTAGTCTGGACAAGCATTCGACTCATTCCTTTGGAGTAACACAGCGCCCTTCCCCAGGCTCTCACGATCAACACAACGTTATGCCGTTAGCTCCCAATCCACCACGATTCACCCTTTTGCCTCTCAGTTCTCATTCAAGCGCGGAACCCGGCTCCCACACCGCAGATCACATAGATAAAAAGgGATCTTTGCgaacaagaaatgaaaaaagtgTTGTTAGTAGGACCGCATTCTTCAATCATCACCAGTTTTTTAACACGAACGTGAGCATGCGCCAAGGGCTAACAGTAACGTGA

Transcript

FUN_014563-T1

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08700 all species →	VPS51_Exo84_N	Vps51/EXO84/COG1 N-terminal	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033370 all species →	Family	Conserved oligomeric Golgi complex subunit 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31658 all species →	CONSERVED OLIGOMERIC GOLGI COMPLEX SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0017119 all species →	Cellular Component	Golgi transport complex	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
K20288	COG1; conserved oligomeric Golgi complex subunit 1	-	Membrane trafficking	ko04131	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_014563-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

81TPM > 0

7Conditions

851.2Max TPM

399.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	19	412.34	752.11
holobiont · low.pH Control.temp	20	17	383.53	842.95
holobiont · control.pH_high.temp	20	20	397.82	825.51
holobiont · control.pH Control.temp	19	19	511.21	851.22
Whole organism	4	4	68.81	76.04
unannotated	1	1	41.18	41.18
live coral tissue/skeleton	1	1	45.19	45.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	752.11
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	592.26
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	555.77
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	550.14
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	519.68
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	499.23
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	496.46
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	484.68
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	475.63
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	419.40
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	386.54
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	383.91
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	383.37
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	370.90
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	341.40
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	313.28
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	301.86
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	238.29
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	181.97
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	842.95
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	596.41
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	588.84
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	557.78
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	548.66
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	535.80
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	495.98
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	457.78
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	455.66
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	421.82
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	405.36
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	392.94
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	346.53
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	280.65
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	272.42
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	242.77
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	228.33
SRR22214427	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
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	825.51
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	772.03
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	481.29
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	439.58
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	429.51
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	426.28
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	420.27
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	416.64
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	415.49
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	408.12
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	392.58
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	374.96
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	371.06
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	370.29
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	339.04
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	316.58
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	294.83
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	237.72
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	167.77
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	56.95
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	851.22
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	696.21
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	642.22
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	624.16
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	613.44
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	598.95
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	528.01
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	526.34
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	517.36
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	513.32
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	483.38
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	474.43
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	471.83
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	436.89
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	403.33
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	399.64
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	353.90
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	303.20
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	275.18
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	76.04
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	74.41
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	63.69
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	61.09
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	41.18
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	45.19

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.