Gene detail

Detailed information of OS493_036267-T1 in Lophelia pertusa

Genomic Location: scaffold_356:227770...236178
NR annotation: KAJ7382234.1, hypothetical protein OS493_036267 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B2A2K2	Methionyl-tRNA formyltransferase OS=Natranaerobius thermophilus (strain ATCC BAA-1301 / DSM 18059 / JW/NM-WN-LF) OX=457570 GN=fmt PE=3 SV=1
Q8R9T1	Methionyl-tRNA formyltransferase OS=Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) OX=273068 GN=fmt PE=3 SV=1
Q2LRX4	Methionyl-tRNA formyltransferase OS=Syntrophus aciditrophicus (strain SB) OX=56780 GN=fmt PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003249 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02911 all species →	Formyl_trans_C	Formyl transferase, C-terminal domain	Domain	Interproscan
PF00551 all species →	Formyl_trans_N	Formyl transferase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036477 all species →	Homologous_superfamily	Formyl transferase, N-terminal domain superfamily	Interproscan
IPR041711 all species →	Domain	Methionyl-tRNA formyltransferase, N-terminal domain	Interproscan
IPR044135 all species →	Domain	Methionyl-tRNA formyltransferase, C-terminal domain	Interproscan
IPR005793 all species →	Domain	Formyl transferase, C-terminal	Interproscan
IPR011034 all species →	Homologous_superfamily	Formyl transferase-like, C-terminal domain superfamily	Interproscan
IPR002376 all species →	Domain	Formyl transferase, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11138 all species →	METHIONYL-TRNA FORMYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0004479 all species →	Molecular Function	methionyl-tRNA formyltransferase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0071951 all species →	Biological Process	conversion of methionyl-tRNA to N-formyl-methionyl-tRNA	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	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 OS493_036267-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_036267-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

36.6Max TPM

15.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.90	17.74
polyp at pH7 6	18	18	15.30	23.82
coral polyp · control treatment	16	16	18.28	27.25
coral polyp · oil and dispersant treatment	16	16	12.36	16.88
coral polyp · oil treatment	16	16	17.97	26.13
coral polyp · dispersant treatment	16	16	10.61	22.01
Polyp	10	10	19.01	36.55

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.57
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.04
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.86
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.43
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.97
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.35
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.17
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.58
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.25
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.42
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.77
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.81
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.08
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.83
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.69
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.15
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.01
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.69
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.27
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.78
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.14
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	36.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.61
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.97
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.79

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.