Gene detail

Detailed information of FUN_011943-T1 in Siderastrea siderea

Genomic Location: contig_9:7803500...7828151
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_011943-T1

ATGATCTCCAACGGTTCAAAACCAACCAATTCAAGATGGAGAAAGATATCTCGAGAAAACAAGGACGTCCCTTCGGTTCTTAGTGGACTAATAGCGGATGCAGATCCCGAATTGTGCGTCAAACTCTTAAAAACTCCTTCGTTGAAGAATTTTTCCGGTATTCGGCCGCGTTTGGAGAAGCCTGCGAGCAAAGAATGGCTAAGTGAATTTCTTATTCTTGGAGGACTGAACTGTTTGCTCGACGGACTGTCTTCTCTGTCGGCGGGAAGCGGACAAAGTCGCTTCACCGAAGCCCTTGAGCAAATCGAGTGTGTAAGATGTATTAAGGCAGTTATGAATTCTCCTGTTGGCTTGGAGTTAATGACGCGAAGCAACGAGTTAACTAGATCCCTGATAAAAGctCTGGACACAAACAACACTATGATCAAGAAACAAGTGTTTGAACTTCTCTCCGCCTTGTGTCTTTATTCCAGTCAAGGACATCAACTGGCTATTGATGCACTCGAGAATTACAAGCTCACCAAGGGACAAAGGTATAGATTTAGCCTGATCATTAACGAGCTGAAAAATGCTGAAGTTGTACCGTATATGACGACTTGCCTGGCTTTTATAAACACTATACTAATCGCCACAGAAGACTTCGAAGAACGCGTCAGACTGCGAAACGAGTTTGCAGGTTTAGGACTGCTGGATATTCTGAGCAATTTGAGACATAACGACGATGAAGATTTGTTGGTTCAACTTGACGTGTTTGAAGAGCAAAGATTAGAAGATGAAGAAGACCTCAGCTCCCCTGAAGGAGTAAATCTCACTTCACACCTGGACGTCTTTCACGCCCTCTTTAAAAAGGTGAGCAACAAACCACAAGGAGTAAACTTGTTAAGCATCTTGCAAAATTTACTTCTGATAGAAGACGATTCACCTGTGTCAGACTCAGTATGGGAGGTGATAGAGAAACTTGTAAAGCGAGCTGTGAACATTGAAAGTGCCCCTCGTGTAGATTCGCTATTAGAAGCCGGCGAGAAAGAACTGATCTCCTTACAAAGTGGAGTCTCGGGGAGAAACCAGAACAAAAAAGCGCGAAGTGGCTCTCAGGATGATAACTTGGATGAACATCGAATGTCTGTTGCCGAGCAGTCTTCGGAAGATGTGCGATCAGCTTGTTTGTTGTCTGTTCCCAATGATAGGCATAATTCCACTACAAACACAAACAAGATTTTCGAAGAAATCCAAGCGTCTTCAACTGATACTGTGTTGGAAAAAGCGTGTCCAGTGAATTTTCTTGAAGAAGCACCATCTTCATCCTCGGTTCAAGTCCTTGAAGGTATCttacaaaataacaaagaaacgGAAAGAAGAACCTCACAAAACAACAAGGAAAAGGATGCTCGGACATCCAGTCCCAGTGAACTACTTGACCTTGAAAGTGTGGCGATCGAACTTGGCGCGTCTAAGCCTCCCCCACCACCTCCCCCTCCGCCGCTGCCTGGACAGTCCActgatgatgaagctgaaatAATGATGAATCATGCTGCTTCAGTTCAAGCCGGACAAGCCCCTCccccaccgccaccaccacctcctTTACCTGGACAAGATGTCAGTATTTCGTATGGTATACCACTTGCTCCTACTCCACCGCCGGGCCCGGGGGTTCCTCCTCCGCCGCCGCCACCACCCGTACCAGGAATCAGTGGGATTCCGCCACCACCTCCACTCCCGGGAGCTAGCAATATCCCTCTTCCTCCTCCGCTCCCTGGTATGGGTGGGATACCCCCACCACCTCCTCTCCCTGGGTTGGGAGGGGTGCCCCCACCGCCTCCTTTACCAGGGATGGGCGGTGTACCCCCACCACCTCCTCTTCCCGGGATGGGAGGTGTGCCTCCGCCTCCTCCTCTTCCAGGGATGGGGGGAGTGCCTCCACCTCCCCCGTTACCTGGAATGGGAGGTGTTCCTCCTCCGCCGCCACCCCCAGGAATAGGAGGAGTACCCCCTCCTCCACCCGGTGGTGTTCCACCCCCGCCTCCTCCTGGTGGATTTGCAGTCACTCGAGGCTTCCAGCACAATGTTCAGCGGAGTGTCAGCTGCCCGCTCGCCCCTGCGGTGAAACCTAAAAGCAAGATGAGAAGCCTGGCTTGGCAGAAGCTACCTCCCCACGTGATACAAAGAAGCAAGACATGTGTGTGGGCACGGGTACTAGCCCTGGAAGTAGTGCAGCCTGATTTTCATCTTGAGGAGGAGTGGTTTTGTCAGAAGAAAGCTGCGGCTAAGAAGACGGAGTCTAAAAAGAAGGAATCTTCAGAGGTTAGTCTTCTTGACCCAAAGAGGAGTCTAAACGTGAACATTTTCATCAAGCAGTTTAAGAAATCCAATGAACAAATCGTTGAGTTGATAAACAAAGGAGATAGCAAGGCGTTCGACGTAGACGTTCTGAAAGCGTTCATTAAGCTTCTCCCAGATAATACTgagAAGGAAATGCTCAAAGGGTTTTCTGGAGACAAGACACAGCTTGGATCTGCCGAGAAGTTTCTACTGGCCTTGATATCCATTCCAGGGTACAGTCTTCGCCTTGAAGCTATgctgcaaaaagaagaatttcaATTGACACTTGAAACCATTGAGCCAAGCATTGAAGCCTTGAAAGGAGCGATACAagATATTCTTCAAAGTGAGATTCTCCCTGAAGTTCTTCAGTTGATATTGATCATCGGCAATTTCTTAAACTCTGGTGGATATGCAGGAAATGCCGTCGCCTTTAAGATCAACTCGCTTCTAAAGATCGTGGATACGCGAGCCAACAAACCGCGTATGAACCTGATGCATTTCTTAGTTCACGTTGCTGAAGAAAAACGCGAGAAGGTGCTGAAGTTCCCAGACGACATGAAACATCTAGACAAGGCAGTAAAATTATCTGTTGACAACATCTCAGAAGAAGTGAAGACCCTCAAGTCCAAGCTGAAAGAACTGAAAAAGGCGATGAAAGATGGGCCAAAAGACAtctcaaaacagttttctgaTTTTATTGAGACTGCCGTACAAAAGGCCAAAGAACTCGAGGACGGGCTCACTGAGATTCACAACCTTACCAAACAGTTGGCGCTGTATTTCTGTGAGGACGAGGGCAAGTTAAAACTGCAGGAACTGTTGTCGTTGTTCAAGACCTTCTGCGATCAACTGGTCACTGCTAAGAAGGAAAACGAGCAATTCCGTATCCAAGAAGAGAGACGAAAGGCACGCGAGAAAAAACGCCAGGAAGAAGCAGAGCGAAACGCCAAGGCAGGCGGAGTAGTAAAGAAAGGAAAACCACGCCCATTAGACGAGGAACAAGAGGGATGCATTGTCGACCGGCTTCTCAGTGACATCCGGAAGGGTTTCCCCCTACGGAAGAGCTGTAGGAACACCCCCTCCGCAGTAAAGTCAGCATCTCCCAGGGCGAAGTTGAGTCGTGAAGAAGGAGGTAATGCTAAAAGAGAAAAGGATGGGTTCCGAAAGTACTCGGGTCCAGACAAGATCCGCTCTAAGTTAGACTACGCGGACGGGGAGGACAAAGAGAACGTGTTGAAGAGAAATCTAGACGGGCCTTCCCTTCCGATCGCGTAG

Transcript

FUN_011943-T1

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06371 all species →	Drf_GBD	Diaphanous GTPase-binding Domain	Repeat	Interproscan
PF06367 all species →	Drf_FH3	Diaphanous FH3 Domain	Repeat	Interproscan
PF02181 all species →	FH2	Formin Homology 2 Domain	Family	Interproscan
PF06346 all species →	Drf_FH1	Formin Homology Region 1	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010473 all species →	Domain	Formin, GTPase-binding domain	Interproscan
IPR010472 all species →	Domain	Formin, FH3 domain	Interproscan
IPR015425 all species →	Domain	Formin, FH2 domain	Interproscan
IPR027649 all species →	Family	Inverted formin-2	Interproscan
IPR014768 all species →	Domain	Rho GTPase-binding/formin homology 3 (GBD/FH3) domain	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR042201 all species →	Homologous_superfamily	Formin, FH2 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46345 all species →	INVERTED FORMIN-2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0030036 all species →	Biological Process	actin cytoskeleton organization	Interproscan
GO:0031267 all species →	Molecular Function	small GTPase binding	Interproscan
GO:0016043 all species →	Biological Process	cellular component organization	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
K23958	INF2; inverted formin-2	-	Cytoskeleton proteins	ko04812	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_011943-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

66TPM > 0

7Conditions

292.1Max TPM

78.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	15	71.44	203.68
holobiont · low.pH Control.temp	20	12	65.62	292.09
holobiont · control.pH_high.temp	20	17	94.69	228.32
holobiont · control.pH Control.temp	19	16	94.96	220.80
Whole organism	4	4	51.62	87.76
unannotated	1	1	34.00	34.00
live coral tissue/skeleton	1	1	27.61	27.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	203.68
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	166.79
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	165.24
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	133.60
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	121.40
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	87.54
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	78.26
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	72.27
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	70.01
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	66.29
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	56.56
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	54.76
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	54.08
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	53.92
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	44.43
SRR22214409	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
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
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	292.09
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	173.66
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	137.52
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	127.51
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	112.78
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	106.97
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	102.00
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	99.17
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	57.97
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	52.25
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	27.04
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	23.38
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
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
SRR22214435	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
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	228.32
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	181.89
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	141.34
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	139.45
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	139.21
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	137.29
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	126.87
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	117.64
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	117.37
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	113.48
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	85.23
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	81.45
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	74.80
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	65.12
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	60.97
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	46.94
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	36.51
SRR22214446	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
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	220.80
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	211.04
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	155.73
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	147.41
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	134.65
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	109.30
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	107.56
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	103.05
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	101.95
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	92.67
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	91.27
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	85.16
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	75.50
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	67.72
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	54.95
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	45.40
SRR22214433	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
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	87.76
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	48.38
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	36.86
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	33.50
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	34.00
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	27.61

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.