Gene detail

Detailed information of OS493_024452-T1 in Lophelia pertusa

Genomic Location: scaffold_114:261774...263603
NR annotation: KAJ7328536.1, HIG1 domain member 2A [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
Q9BW72	HIG1 domain family member 2A, mitochondrial OS=Homo sapiens OX=9606 GN=HIGD2A PE=1 SV=1
Q9CQJ1	HIG1 domain family member 2A OS=Mus musculus OX=10090 GN=Higd2a PE=3 SV=1
Q4VC39	HIG1 domain family member 2B OS=Homo sapiens OX=9606 GN=HIGD2B PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002836 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04588 all species →	HIG_1_N	Hypoxia induced protein conserved region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007667 all species →	Domain	Hypoxia induced protein, domain	Interproscan
IPR050355 all species →	Family	Mitochondrial Respiratory Supercomplex Factor 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12297 all species →	HYPOXIA-INDUCBILE GENE 1 HIG1 -RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0097250 all species →	Biological Process	mitochondrial respirasome 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_024452-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_024452-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

107TPM > 0

7Conditions

44.8Max TPM

13.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.42	19.74
polyp at pH7 6	18	15	12.81	21.96
coral polyp · control treatment	16	16	16.30	34.17
coral polyp · oil and dispersant treatment	16	16	11.77	44.81
coral polyp · oil treatment	16	16	16.75	24.86
coral polyp · dispersant treatment	16	16	9.62	24.10
Polyp	10	10	14.60	25.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.74
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.40
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.93
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.27
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.24
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.42
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.65
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.42
SRR11359500	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.06
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.63
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.45
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.39
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.96
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.49
SRR16705979	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	9.77
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.64
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.13
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.86
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.08
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.01
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.21
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.62
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.63
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.87
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	18.33
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.35
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.80
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.12

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.