Gene detail

Detailed information of FUN_054485-T1 in Siderastrea siderea

Genomic Location: contig_95:606566...621262
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_054485-T1

ATGGAAGGCGCTCAGACTGCAGAAAGAGCAGAAAGATTTGAAAATCCGATGGATTCTGGCGCAACTACGAACAAACCTTCGGAAACAAGCGACGTGCCTTCTCTTCGTTTCTGTGTTAACCAAGTGAATTTAGATCCAAATGACGCGGGGGAAAACAGCACCGACGATCACAGTCCTAGAATGGACTTCGCCGATTCACAGTTACCCAGACCGCTTTCTGTTCACGATGCCACAACGACCATCGGATACGCCACACACGATGCTGTTCCAATGACCGTCTTTTACAGAAATGAGAATTCCCACTCAAATCCTACGAAAAAGTCTCGGCCAACACTGCAAGAGCTGAGAAAAGGGTTCGAGGAAGACCACGAGCAACAGCCCTTGGAAGTTCCCCAAAATGTGGATAATGTTGAAAATGGTCACCTCAGCAGTGGAGAAATCGTCATTCATACCAAGAAAGACAAGAAAGCCAAGGTTGCACCCAAGTTTGGTTGGATTAAGGGAGTCATGCTGCGATGTCTGCTTAACATCTGGGGTGTCATGTTGTACCTGCGTCTCACTTGGGTGACAGGACAGGCAGGCATTGGATGGTCAACTGTCATCATTGTACTTTCTGCTGTGGTCACAATGTTTACGACATTGTCTATGTCAGCTGTTTGTACAAATGGTGAAGTCAAAGGAGGTGGTGCATATTATTTGATATCTCGCAGCCTTGGCCCAGAGTTTGGCGGCTCCATCGGGTTAATCTTCTCTGTGGCCAATGCTGTAGCTGTTGCATTGTACGTTGTCGGCTTTGCTGAGACTGTCAAAGACCTGATTAAAGAACATGGCAGCGGCGTCGAGGTGATTGGCGAGCTCAACATAATACGCATTGTTGGTATTGGAACAGTGATATTGTTGCTTGGCGTAACTCTGATTGGTTTGGAGTGGGTTGTACGCACTCAGATGTTTCTTCTTTGCATCTTGGTTGTCTCCATTGTTGATGTCATGGTTGGAACTGGCATTGGACCCCTTAATGAAGAAAGTAAAGCAAGAGGCTTTGTTGGATTAAATCTTACTCTCTTCAAAGAGAACTTTGGACCGGCATATCGAGGTGGTGAGAATTTCTTCTCTGTGTTTGCAGTCTTTTTTCCAGCGGCAACTGGCATCTTGGCAGGGGTTAACATCTCAGGTGATCTCAAAGATGCACAAAAAGGCATTCCTAAGGGGACTCTGTGGGCTATCTTGATCAGCACAATAGTGTATGTCGCGCTTGCCTGGCTGGCTGCAGCTTGCGTATTCCGAGATGCTTCTGGAGTGATTGCAGTGGCTGTCAATCATACAATAGTGAATGCTTCAAGTGCACCTTTACTGGATTGTACCATTGACAACACCTGCAAATATGGATTAATGAATGATTTCCAGGTAATGGAGAAAGTTGCAGCATGGGGGCCTATAGTGACTGGTGGAATCTTTGCAGCCACACTGTCGTCTGCCTTGGCAAGTTTAGTTGGAGCTCCAAAAACATTTCAGGCACTTTGCAAGGACAACATCTTTCCAGGAATCCACTATTTTGGTGTTGGGGTGGGTCCTGGTGACGAGCCTCGTAGAGGATACATTCTGACATTTTTGATTGCTGGTGGTTTTGTGGCCATTGGAGAGCTGAATGTCATTGCTCCAGTCATTTCAAACTTCtttctcatgtcatatgcactCATTAACTATGCTGTGTTCGCTGCTTCACTTGGCAAGTCCCCTGGATGGCGGCCTTCTTTCAAGTACTATAACATGTGGGTGTCCTTGGTAGGGGCTATGGTGTGTATTGTGATTATGTTCCTTATCAACTGGTGGGCCGCTCTTGTAaccattgtcatcatcatcgcGTTGTACAAGTATGTGGACTACAAGAAACCGGAAGTCAACTGGGGTTCTTCTGCGCAAGCCTATACGTACATCCGGGCCCTTCGTTTCACTTACCGTCTCAACGCCGTGGAAGATCACGTGAAGAACTTTCGTCCTCAGTGCCTTGTTTTGACGGGTACTCCCTCGTCCCGTCCCGACCTTGTTCACCTCGTTTCTCAGATCACGCGTAACAGAGGATTAATGGTTTGTGGTCAAGTCAAGATTGGTCCTTTTGGTAGTGTCTCAGGTTATGAGGATAGCTGGTTAAAACAGCGCAAAATCCGATCGTTCCATACTATTTGTTCAGCGCCTAGTTTCAGAGAAGGTGTGCGAATCATGCTTCAGACGGTGGGTTTAGGGAAATTAAAACCCAATACAGTCGTGCTGGGGTACAAGCGAGACTGGAAGAAGCTGTGGAAAGACCCCTCAGGAAGGTCTGTGGTGGAAGAATATGTTAACGTGGTTCACGATGCTTTTGAACTGGACTACAGCGTTGCGATCTTACGCTTAAGAGGGGAACTCGACTTGCAGGAGCTGGCGAAATGCGAAGAAGAGGACTGGCTGGCTGAAGAAGACGAGGGAACGATGGAACAGATTGTTCCCGAGGTGGAAGGTAATGAGAGGATAGGTGACTTGGATGTTTTCTCTTCTGAGGATCAGAGCGAGAGTAGTGGGCGAGTTTTCCAGGTTGAGAAGTCAAGTTCACCCGATCAAGAGGTCGTTCTGACGTCATTCAGAACCAAGAGTCCTGATCACGAAGAATACGTGTTAGACGCCGTCAAGCCAAGACCTGAATTGGGGGAGGAAGAGAATTTCACCAACAACGAAACTGAGAACTTGGTAGCGGAAAAGGACAAGGCTGAAGACATCGCGAAGAAAGGCGAAGAAGAAAGTCCAAACGTTGTGAAGAAAGGGAAATTTAAAGTGACAGTCAGCAAAACGCCAGATGAAGACATCGAGAATGAAGATAAAGTTGACGAGACAACAAAACTGACAGATCCTGTTGAGCCACCAAAACCAGTGGAAGAAGTTGAAGTTGCTTTCAAAGAAAAACCCAAAGGAACCATTGATGTGTGGTGGCTGTTTGATGATGGTGGACTGACAATTCTCATCCCATACTTGCTCTCCATTCACAGCTACTGGAAAGACTGCAAGCTGAGAATCTTCACGCCAGCCTCCACCCACGCACTCAAGAGCAACGAGCTAAGAATGGCCAACCTCCTGAAGAGATTTCGCATCGATTTCTCAAGCGTCGTCGAGGTGGAGGGAATCAACAGACAGCCCTCCAGCACAAGCATTCAGAACTTCATGAAACTGCCGGTGAAAGATGAATTTGCAGATTTGAGGACTTTGGAGAAAGACCGCAAAACCTTGCGTAACATTCGCCTTGGGGAGCTCATCCGGGAACATTCAAACGATGCCAAGTTGATTGTCATCTCCCTCCCTGTCCCCAAGGTAGATATGACGTCACCACTGTTGTACATGAGCTGGATGGAAGTGTTGTCAGCAGCTTCACCCCCGGTGCTGATGGTCCGTGGTAACCAACAAAGTGTGTTAACGTTTTACAGTTAG

Transcript

FUN_054485-T1

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03522 all species →	SLC12	Solute carrier family 12	Family	Interproscan
PF08403 all species →	AA_permease_N	Amino acid permease N-terminal	Family	Interproscan
PF00324 all species →	AA_permease	Amino acid permease	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018491 all species →	Domain	SLC12A transporter, C-terminal	Interproscan
IPR004842 all species →	Family	SLC12A transporter family	Interproscan
IPR013612 all species →	Domain	Amino acid permease, N-terminal	Interproscan
IPR002443 all species →	Family	Solute carrier family 12 member 1/2	Interproscan
IPR004841 all species →	Domain	Amino acid permease/ SLC12A domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11827 all species →	SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0006884 all species →	Biological Process	cell volume homeostasis	Interproscan
GO:0008511 all species →	Molecular Function	sodium:potassium:chloride symporter activity	Interproscan
GO:0015377 all species →	Molecular Function	chloride:monoatomic cation symporter activity	Interproscan
GO:0015379 all species →	Molecular Function	potassium:chloride symporter activity	Interproscan
GO:0035725 all species →	Biological Process	sodium ion transmembrane transport	Interproscan
GO:0055064 all species →	Biological Process	chloride ion homeostasis	Interproscan
GO:0055075 all species →	Biological Process	potassium ion homeostasis	Interproscan
GO:0055078 all species →	Biological Process	sodium ion homeostasis	Interproscan
GO:1902476 all species →	Biological Process	chloride transmembrane transport	Interproscan
GO:1990573 all species →	Biological Process	potassium ion import across plasma membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	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
K10951	SLC12A2, NKCC1; solute carrier family 12 (sodium/potassium/chloride transporter), member 2	-	Transporters	ko02000	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_054485-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

24TPM > 0

7Conditions

116.8Max TPM

10.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	6	14.52	116.76
holobiont · low.pH Control.temp	20	2	2.44	31.89
holobiont · control.pH_high.temp	20	5	11.98	73.96
holobiont · control.pH Control.temp	19	5	7.50	49.60
Whole organism	4	4	34.99	39.00
unannotated	1	1	13.79	13.79
live coral tissue/skeleton	1	1	55.25	55.25

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	116.76
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	57.79
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	49.16
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	29.52
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	20.72
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	16.44
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
SRR22214410	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
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
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
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	31.89
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	16.89
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
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
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
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	73.96
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	58.40
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	54.86
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	32.34
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	20.01
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
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
SRR22214465	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	49.60
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	34.75
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	27.84
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	18.04
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	12.34
SRR22214400	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
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
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
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
SRR22214547	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
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	39.00
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	35.14
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	34.61
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	31.21
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	13.79
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	55.25

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.