Gene detail

Detailed information of OS493_038141-T1 in Lophelia pertusa

Genomic Location: scaffold_516:44496...51454
NR annotation: KAJ7318263.1, hypothetical protein OS493_038141, partial [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
Q6ZHE5	D-cysteine desulfhydrase 1, mitochondrial OS=Oryza sativa subsp. japonica OX=39947 GN=DCD1 PE=1 SV=2
F4HYF3	Bifunctional D-cysteine desulfhydrase/1-aminocyclopropane-1-carboxylate deaminase, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=DCD PE=1 SV=1
Q9WY68	Putative 1-aminocyclopropane-1-carboxylate deaminase OS=Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8) OX=243274 GN=TM_0225 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001402 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_038141-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR027278 all species →	Family	1-aminocyclopropane-1-carboxylate deaminase/D-cysteine desulfhydrase	Interproscan
IPR036052 all species →	Homologous_superfamily	Tryptophan synthase beta chain-like, PALP domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43780 all species →	1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019148 all species →	Molecular Function	D-cysteine desulfhydrase 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_038141-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_038141-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

96TPM > 0

7Conditions

51.0Max TPM

9.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	9.76	19.41
polyp at pH7 6	18	11	8.57	21.20
coral polyp · control treatment	16	16	10.11	22.10
coral polyp · oil and dispersant treatment	16	16	6.84	14.75
coral polyp · oil treatment	16	16	9.94	17.15
coral polyp · dispersant treatment	16	16	6.66	17.25
Polyp	10	9	21.56	50.97

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.41
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.58
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.18
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.53
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.18
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.10
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.74
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.75
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.69
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.64
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.10
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.30
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.79
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.10
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.02
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.44
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	50.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	49.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.28
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.97
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.