Gene detail

Detailed information of OS493_036212-T1 in Lophelia pertusa

Genomic Location: scaffold_353:303483...305218
NR annotation: KAJ7351662.1, hypothetical protein OS493_036212 [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
D3YXK1	Sterile alpha motif domain-containing protein 1 OS=Mus musculus OX=10090 GN=Samd1 PE=1 SV=1
Q6SPF0	Sterile alpha motif domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SAMD1 PE=1 SV=1
Q6SPE9	Atherin OS=Oryctolagus cuniculus OX=9986 GN=SAMD1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006242 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21524 all species →	SAMD1_WH	SAM domain-containing protein 1, WH domain	Domain	Interproscan
PF00538 all species →	Linker_histone	linker histone H1 and H5 family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR048589 all species →	Domain	SAM domain-containing protein 1-like, WH domain	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR005818 all species →	Domain	Linker histone H1/H5, domain H15	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan

PANTHER

No PANTHER signature was detected for OS493_036212-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0000786 all species →	Cellular Component	nucleosome	Interproscan
GO:0006334 all species →	Biological Process	nucleosome assembly	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_036212-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_036212-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

22.6Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.53	11.71
polyp at pH7 6	18	18	6.26	10.54
coral polyp · control treatment	16	16	13.27	22.61
coral polyp · oil and dispersant treatment	16	16	12.90	21.46
coral polyp · oil treatment	16	16	10.89	20.95
coral polyp · dispersant treatment	16	16	10.66	18.46
Polyp	10	10	4.04	8.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.56
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.66
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.28
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.80
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.20
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.63
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.03
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.89
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.86
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.48
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.94
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.71
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.57

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.