Gene detail

Detailed information of FUN_015265-T1 in Siderastrea siderea

Genomic Location: contig_12:8844006...8857926
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_015265-T1

ATGATTGTCTTCCCTGATGTGTGGCTGTCACTTCTCACAAAGAAGCGTCCAGAAGATCAGCGAGACAAGATAAACCTATATATCTATGGTTGTCTGGTCGGTGCAGCTTTCGTTTTTGCCATCATGCGGGCGTATAGTTTCTTTGTAGTTTCTCTAAGATGTTCTGAGCGTCTTCATGATAAAATGGTTCTGGCCGTGTTACAAGCACCAGTCCTGTTCTTTGATTCAAATCCAGTGGGAAGAATCATAAATCGGTTCTCTAAAGATGTAGGCTGTTTGGATGAAGTATTGCCCAAGCCGTTCCTGATGGCAATCCAGCTGATCTTGCTTTTGTTCACAGGAATAATTGTACCAACCGTCACAAATCCTTGGCTTCTGTGTGTTGTTGTGCCATTGTCGCTCTTAGCTGTATTCATTTCAAGGTATTACTTGAAGACATCAAGGGAGCTCAAAAGGTTGGAATCTATTTGTCGCAGCCCTGTCTTTTCTCATATTTCGGAGACTCTGGATGGGCTGGACACGATTCGAACAAGAGGAAGACAAGGAGATTTCGTGGAGCGGTCGTACAGGTACCAAGATGTTCATAATCAGTCATTTATCATGATGATGGCCAGTGGGCGATGGCTTGGGGTTCGCTTGGATCTTCTCACTGCATCACTGATTGGTGCAGTGGCTCTTGCTGCAATTTTGGTGTCTCAAGATGCTGGCAAAATGGCATGCCCCGGAAACCGCCGGGCGCCCGAGTCGTATTCATTCTCGCTATTGAAGTATTATAATGACACACTTAAATTACCCTACTTAAAGTACTCACCCGTGGGCTGCTCCGCGGAACAGCATTTACACTCTGTGATTGGGGAGAATGAGCGTCAAGCGTGCTTCAGTTCCTTGAGGGTATACAAGGGGGTGCATGGGTATACAGGGGTGTGCAGGGGTACACAGAGGTATACAAGGCCATATCATTCGTCATTACAAGCGCCTAACTCCATAGGCAACATGGCGCTTCTTCCCATCAACACGAAGTTCAAAGGCCCAGCTCCGCCTGGAGATGGAAATAACGATATCGTCGACGAGGCAATCTACTACTTCAAAGCCAATGTGTTTTTTAAAAGCTATGAAATCAAGAGTCCGGCAGATCGTGTTTTGATTTATCTGACACTTTACATCTCAGAATGTTTGAAGAAGCTTCAAAGGTGCCAGTCCAAAGTGGATGGAAAAAAAGAGATGCAGACATTGGCAATTGCCAACTTCACTATTCCAGGAGACCCCAAGTTTCCACTGAATGCCATGTACCAAAAGCCAGCAAATAAGGCAGAAGCAGacTCTATGCGAGCTTACCTTACACAGTTAAGGCAAGAACTTGGCCAGAGAATTGTTGAAGCTGTATTTGATCCACAGACAGATAAGCCATCTAAAGTAAGTGAAACTGAAAGGAATTTACTGTATCAACACTTTTACATTTGTCACGGTGTAAAAACCTTGTAGTTTGATAGTAGTTTGATTACATATTAAGTGTAGTTTGATTGTGTTTTCAGTGGTGGATGTGTTTTGTGAAGAGGAAGTTTATGGACAAGTCTCTCTCAGCTCCTGGACAGTAGTGCCAAGAAGAGGTGTTCAAAGTTCCTGCTATGTGGAAAACTGGCAGCTTGTAAAGATGAAAACAGTGTAATTTGTGAATTTTTAggtttaaaataaaatgtttctacaaaaagttattttttgtgGTGTCTGTGTTTTCTTCTGTGGAAAGAATTGGTGGAATGTGCTGTCATTACCTGTTTAACTTTTTTCTGGGTTAAGTAAAGAATGAAAAAGGCAATACACacaatcaaaaaatcacttttattttttctttggattTCAAAACTTTGTGTACTAAACAACCCCCAAgcaaaattttaagccttaCTTTCAgcaagactgtttatttaaaatgcaattttccgatttaatggtctgccattattacaccagaaaggatacgaTGATGTCATTCACGCATGAGCTTTGGAATGCAGTGTATGCAAAAGTGGCTTATTTGGTATGCAGCACCAGGGTTTTGAGCTTTTAGACTCTCAAACTCTTGTTTTGCATAATTCATAAGCTTTGTACACACACTGTAAGTTTTAGCACTTTCATTATGTAACAATCAGTGAACAGACAGTTATGTGTATGGGAATGTTCTAACCTTTGACAACGCCACAATTTCGACACTGAGCCCAAATTTGCTGTAGGCAGGTACCGGTATTTTGACCAGCAGATTTTGA

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00664 all species →	ABC_membrane	ABC transporter transmembrane region	Family	Interproscan
PF04062 all species →	P21-Arc	ARP2/3 complex ARPC3 (21 kDa) subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050173 all species →	Family	ATP-binding cassette transporter C	Interproscan
IPR011527 all species →	Domain	ABC transporter type 1, transmembrane domain	Interproscan
IPR036753 all species →	Homologous_superfamily	Actin-related protein 2/3 complex subunit 3 superfamily	Interproscan
IPR044726 all species →	Domain	ABC transporter C family, six-transmembrane helical domain 2	Interproscan
IPR007204 all species →	Family	Actin-related protein 2/3 complex subunit 3	Interproscan
IPR036640 all species →	Homologous_superfamily	ABC transporter type 1, transmembrane domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24223 all species →	ATP-BINDING CASSETTE SUB-FAMILY C	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0042626 all species →	Molecular Function	ATPase-coupled transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0140359 all species →	Molecular Function	ABC-type transporter activity	Interproscan
GO:0005856 all species →	Cellular Component	cytoskeleton	Interproscan
GO:0005885 all species →	Cellular Component	Arp2/3 protein complex	Interproscan
GO:0030833 all species →	Biological Process	regulation of actin filament polymerization	Interproscan
GO:0034314 all species →	Biological Process	Arp2/3 complex-mediated actin nucleation	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 FUN_015265-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_015265-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

78TPM > 0

7Conditions

2,163.7Max TPM

689.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	18	721.11	1,329.55
holobiont · low.pH Control.temp	20	18	655.10	1,294.60
holobiont · control.pH_high.temp	20	18	693.27	1,094.30
holobiont · control.pH Control.temp	19	18	871.77	2,163.70
Whole organism	4	4	100.23	114.31
unannotated	1	1	143.51	143.51
live coral tissue/skeleton	1	1	137.09	137.09

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,329.55
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,138.51
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,129.41
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,050.64
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,045.52
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	1,031.87
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	960.05
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	885.89
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	807.90
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	644.91
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	641.91
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	629.08
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	627.19
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	598.53
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	582.36
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	539.72
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	486.29
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	292.89
SRR22214405	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
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,294.60
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,240.68
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,217.10
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	936.21
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	899.54
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	879.09
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	800.60
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	795.22
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	732.47
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	677.51
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	645.74
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	601.25
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	577.22
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	526.06
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	523.12
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	356.91
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	300.70
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	97.99
SRR22214431	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
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,094.30
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,092.26
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,090.74
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	995.75
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	901.37
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	847.97
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	838.75
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	837.57
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	775.57
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	763.75
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	733.31
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	700.27
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	698.05
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	631.29
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	539.15
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	517.19
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	409.86
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	398.16
SRR22214449	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
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	2,163.70
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,404.20
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,375.16
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,356.56
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,151.81
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,139.23
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,120.91
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	983.47
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	921.12
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	827.23
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	784.53
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	749.07
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	630.86
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	484.52
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	467.49
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	459.79
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	344.09
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	199.97
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	114.31
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	98.72
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	94.02
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	93.86
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	143.51
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	137.09

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.