Gene detail

Detailed information of FUN_001656-T1 in Siderastrea siderea

Genomic Location: contig_1:23939574...23965239
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_001656-T1

ATGTTTGTTACGTCAACTCAGAAACCTAGTATGAATGGCCAGCAGCAAAATGCTGAAACTGAACGACAGCATCTTCTTGACAGATTACTCGACGCTGTAAAACAGTGTCAGGTGAGATTTGGTGGCAAAACAGAACTTGCAACTGATGGAGACAGCAGagttgtttgtttattgacTCAACTTGAAGCAGTGTTTCAACATGGCTTTAGAAGAACAAGAGTCAGTGCATTTAGGCAAGTTGGTCAAGTAGCAGGAATAGTGAAGTTAGATTCTGAGTCAGTGTTTTGGAGCTTTGTGAAAGTTCATGTGGGAAAATTAGAGGAAGAGAGATTTCTTTCCCTTCAGAAAGCAACAACGGATGCCGGACGAGGGCGTGCTTGGCTGAGGAGTTCACTAAATGAACACTCATTAGAGCGAACCTTCCATCACATGCTGGGAAACAAATCACTATTAAGTCAGTTTTATGATAAGGAAGCTTTCCTTTTGGATGAAGAACATGCCAGCATGCTTCCCATGATAGCTGCAGGACTCAGCTCTATTCTGTTTGCTCTTACTGTTGATAGTGAAGAACTGAACATTGTGCGTCAGCAACTGCCAGCATTGACAATCAACAAAGAAGTATTGACCAGCATTTTGCCATCTTTTCCACAAAAACATGTTGTGGAACCCTCACCTGTGTATTCTGCTGTACTTACTGATGAATctaaacaagagaaaaagaaaaagaagaagaaaaagaaacgaaacgCTGCTATTGTGTCCATTGAGGAAGGTGACAGCCTTCAGGATATCACAAATGATGCAAAGGATTTCCCACTCAATGATTCATCAGTGACAGAGACTCTAAATTCAAATTCTGAGTCAACATCCTTAAGCTTGGGACACACTCGCTCCTCGTCCTACCCCGGTAACATCACTGTAGTTTCAGAAGGATCAGCAGCAAAATCTTCATGTGTAAATGGACAAGAGATTGTCTTCACTGAAATAGCAAAATCTGTTTCCTTGCCTGATAACTCTGTGGCTGTAGAAAACACCACAGAAAGCAAGCCAACAAAGGGTAAAAGTAGCAGTTTTGATCTTGAAGATTTCTTACAAAATGTGATAGTGGAACCCAGATATGATACTGTAGGAGAGGCTGTAGAGGAAGCACCGACAGAAAAGGATACTGAGAATTTTGTCTTTGGAACTGCGGATTTATTTCTCAAACGGCTGCAAGCAGACCAAGAGAAGACAAACTCTTGGCAGTCCCAAAATAACAGTGAGACGTTATCAGCAACATCATCTGGCTCTGAAATAACTGGTGATGCTGTGCATCTAATCCAAGAAAGtagtaaaataaaagaaacagaaaaggaaaatgaTTCTGGTAGCGAAAGTTTTGAGGCAAATTTTTCAAGTACAATGGTGTCACAATATTCTAAAGATGGAAATGAAGATTTGTCTCAGAGAAAGCCAAACTTAGATTCCTGCCACGTGTATAGCGTTAAAGAGGATGAAGAAAAAGAATCATTGACAAACTTTTCAATCGCGCAAATGCAAAGTCCTAAAGCTCTCGAGGAAAGAGCGATTGATCATGGCATGGAAGCCTTAAGTGAGTCACTGGACCCTAACCCTATAAACCTTACCAATCGTCAAATCAGTCCAGTGGATGCACAGGAACACCAAGATTACAGGGCTAGACCTTCTGAGGACACAAGTCAACGCGAAAGACTAACAGAAACTGAAGAACTCCATGAAAACACCAGCAATGAATTAGAAGATTTTGAATCAGCAAGAAGCCGTGAATCACAGCTAGGTGCAAATGATGGTAAGGTTGAGCCCGTTGTGTTGTTGGACAGTGGAGAATTTCTTGTACCTGTGGCAGAAGGCGACATGACATCAAAAACTGGTGCGCAGTCCACTTTTTATTACGCTCCTGATGTTTCATCTGAAAATGACCGGGATTCAATGTCAAGCACTAGCTGGTCCTACGTTGAAGATGCTGAAGATCTCTCTCAACACAAAGATGATTCGCTATTAAACACCAGCGCCAGGTCAGTTGCCATGGTATCAGACGCTTCTACTGCGGCTGCGCTGGCAGCTTGTTCTGATGCTCAAAGAGGAATGGATCACATGGCCAGTGCGTTTATCTCCATGGAAGGAACTGCAGGAGATCAAAGTGTTCGTCGAGACTACTCTAAGAAACATGATAGCATGAGCACAGGTGAACTGAAGCAAGCTATAGTATCCATGATGTTGAAAAAAGATGAGATTGAAGAGCAAAACAGGATTTTGCAGAGACAGCTCGATGAAGAGCGCCAGAAATCACAGCAACTTGACACCAAGAATGAACAGCTTCGAgaggaaataaaacaaaaagagaacTTTAACGCAGCGAAGATAGCGTCTCTATCAAGAGAAAATGAAGTGTTGAAGCATCAGCTGAAGAAATACGTAGGAGCCGTGCAGGCGATGAGGAGCGGTCTACAAAGCAAGTCCTTTGAAACAGCGGAAGTTTTGTCAGGAATTAGACAAGATGAGATTCTGCCTCCTCTACCCCCAGAACAAGCCACGGAACAAGCTCAACTTAGTGAAGAGGCTGAAGAATACAAAAGAAAGTTAATTCAGGTTGCCGATTTGCATGGTGAACTCTTGGAATTCAATGAGCGACTTCACAAGCAAGTTAATTATTATCAGTTTCAAGTCAGAAGATTGCGAGAAGAGCTCGTCAACCTCAGGGGACCGCTTCCTGAAGACGCAGAGAGTCTAGATGATGACACAAGTCTTTTGGATTTTGACCCAGCGGTGATGTCAGTCGGCACCAGACCCCTGGTGAATGTATGGATACCATCTGTGTTTCTGCGTGGCCGCTCGTCGAGTGTACATCACGTGTATCAGGTGTACGTGAGAATAAAAGATGATGAGTGGAACATTTATCGAAGATATTCGCAGTTTTTTGAAATGCATAAAATTTTACGTCGAAAATTTCATGTAGTAGATAGCTTCAAATTTCCACCCAAGAAGACACTGGGCAACAAAGATTCTCAATTTGTGGAGGATCGTAGAAGGCTGTTGCAAGATTACCTACGAAGAGTAGTGAACTTGTACGTGACAACAGATCGAGGATTGCGTGACAACACCACAAAAGCAGCTATTCTTCAAGTCCTTCCTTTCTTTGCCAAgcggtttcttcttcttcgtctcaaaGAGCTTGTTCAAAAGAACTATGAGCTTCTTAATCATTTACCTCAGTCACCAACAGCTACAGATGAAGAAGAACCGCATGCTAGTGATAATGAAGAGGACCTTTCAATTGTGTTGACTGGTGATGAAGCAGAAGAGGACTCGCACCACTGGCAATGTGACTCGTTCAAGGCCTCAAATGTACGCTTCGCGATTGAAAATCCCTGGTGCCCAGCGACATTTGACAGTGACAATGAGTATGTCACTGTAGACCTTCAGTGCGCACGCTCTGTGTGTCAGGTGGAGGGAAAAGATCCACACCTGCTGTTCTACAACGGAGAGTATTCTAACGACAACGTTAATTGGGAAAAACTGGAATCTGAAGACGAAACGCATTATAGTCCGTATTTAGGGTTTGAGGCAAACAACAGAGCAGTGATTACACCACCAGTACGAGCTCGCTACTTCAGGTTTCGACTTTCTATGTACGCCGGGGGATTTGACAAGCCATGTTTCAAAGTGGAGCTTTATGGCAAAAATGATGATTCCGTGGAGCCACTTGGATGCTTCAACGAAAAGGGCAGGACAAAATATCGAGCCATGCCAGTTACTTTCCACAGAGTCCAAGACGTAGACACGAATTTTCCTGACATTTTGGCAATTTACGAGGAATGCAGACAAAAGGCTGCAGAATACTCAAAATTCGAGATCGAAGTTTTCGGAATCAAGAACTATAGAAAATGTGTAACAACCGCGACAGGAAAAGAAGAGCAGTATTCTAAACACGGTAAATCTTCGAAATGTGCAGTTTGTGGCGGAAAAGGCATCGGCACTCGAAGAACGAGCATGTTTGTATACcagaaaaaattataa

Transcript

FUN_001656-T1

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00787 all species →	PX	PX domain	Domain	Interproscan
PF02759 all species →	RUN	RUN domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037213 all species →	Homologous_superfamily	RUN domain superfamily	Interproscan
IPR001683 all species →	Domain	Phox homology	Interproscan
IPR047329 all species →	Domain	Sorting nexin-29, RUN domain	Interproscan
IPR004012 all species →	Domain	RUN domain	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR036871 all species →	Homologous_superfamily	PX domain superfamily	Interproscan
IPR000421 all species →	Domain	Coagulation factor 5/8 C-terminal domain	Interproscan
IPR037916 all species →	Domain	SNX29, PX domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47194 all species →	SORTING NEXIN-29-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	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_001656-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_001656-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

77TPM > 0

7Conditions

663.0Max TPM

292.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	18	347.86	662.97
holobiont · low.pH Control.temp	20	17	263.25	475.85
holobiont · control.pH_high.temp	20	20	350.09	585.09
holobiont · control.pH Control.temp	19	16	290.14	622.18
Whole organism	4	4	19.11	23.26
unannotated	1	1	11.89	11.89
live coral tissue/skeleton	1	1	16.42	16.42

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	662.97
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	623.36
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	562.16
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	559.34
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	515.96
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	489.28
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	408.28
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	397.97
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	385.44
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	385.06
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	358.26
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	301.11
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	289.62
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	265.78
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	253.53
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	207.40
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	151.21
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	140.49
SRR22214416	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
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	475.85
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	459.30
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	458.32
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	411.26
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	375.22
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	363.25
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	321.79
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	315.53
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	310.53
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	285.58
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	282.06
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	239.21
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	217.52
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	210.63
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	203.10
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	177.17
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	158.71
SRR22214432	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
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	585.09
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	534.72
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	532.98
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	503.39
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	488.65
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	487.84
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	476.95
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	473.07
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	444.95
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	392.57
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	348.15
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	332.86
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	325.30
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	289.19
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	255.96
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	236.71
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	135.52
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	89.77
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	45.42
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	22.77
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	622.18
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	489.47
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	481.14
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	470.67
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	467.26
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	444.77
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	426.86
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	398.40
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	376.84
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	340.46
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	246.58
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	227.76
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	171.70
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	166.03
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	106.30
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	76.31
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
SRR22214546	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	23.26
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	19.47
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	18.20
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	15.52
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	11.89
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	16.42

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.