Gene detail

Detailed information of OS493_000023-T1 in Lophelia pertusa

Genomic Location: scaffold_1:269940...281155
NR annotation: KAJ7394221.1, Cysteine and histidine-rich domain-containing protein 1 [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
Q6NUA0	Cysteine and histidine-rich domain-containing protein 1 OS=Xenopus laevis OX=8355 GN=chordc1 PE=2 SV=1
Q7T3F7	Cysteine and histidine-rich domain-containing protein 1 OS=Danio rerio OX=7955 GN=chordc1 PE=2 SV=1
Q5ZML4	Cysteine and histidine-rich domain-containing protein 1 OS=Gallus gallus OX=9031 GN=CHORDC1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006175 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04968 all species →	CHORD	CHORD	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007051 all species →	Domain	CHORD domain	Interproscan
IPR008978 all species →	Homologous_superfamily	HSP20-like chaperone	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46983 all species →	CYSTEINE AND HISTIDINE-RICH DOMAIN-CONTAINING PROTEIN 1	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_000023-T1. This gene does have a gene model — the search simply returned no hit.

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_000023-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_000023-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

42.2Max TPM

12.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.95	13.65
polyp at pH7 6	18	18	8.39	13.59
coral polyp · control treatment	16	16	14.66	29.80
coral polyp · oil and dispersant treatment	16	16	17.79	42.19
coral polyp · oil treatment	16	16	15.46	29.44
coral polyp · dispersant treatment	16	16	7.83	15.38
Polyp	10	10	13.70	23.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.65
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.19
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.93
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.09
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.92
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.30
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.68
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.01
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.77
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.49
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.82
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.75
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.86
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.64
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.01
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	20.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.43

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.