Gene detail

Detailed information of OS493_004868-T1 in Lophelia pertusa

Genomic Location: scaffold_10:423926...426723
NR annotation: KAJ7374530.1, PQ-loop repeat-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
Q6NRS2	Solute carrier family 66 member 2 OS=Xenopus laevis OX=8355 GN=slc66a2 PE=2 SV=1
Q0VCC1	Solute carrier family 66 member 2 OS=Bos taurus OX=9913 GN=SLC66A2 PE=2 SV=1
Q8N2U9	Solute carrier family 66 member 2 OS=Homo sapiens OX=9606 GN=SLC66A2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007914 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04193 all species →	PQ-loop	PQ loop repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006603 all species →	Repeat	PQ-loop repeat	Interproscan
IPR052241 all species →	Family	Solute Carrier Family 66 (SLC66) and Scramblase ANY1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14856 all species →	PQ-LOOP REPEAT-CONTAINING PROTEIN 1-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005768 all species →	Cellular Component	endosome	Interproscan
GO:0005802 all species →	Cellular Component	trans-Golgi network	Interproscan
GO:0042147 all species →	Biological Process	retrograde transport, endosome to Golgi	Interproscan
GO:0045332 all species →	Biological Process	phospholipid translocation	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K23679	PQLC1, SLC66A2; solute carrier family 66, member 2	-	Transporters	ko02000	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_004868-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

109TPM > 0

7Conditions

18.0Max TPM

7.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.40	8.21
polyp at pH7 6	18	17	5.63	10.51
coral polyp · control treatment	16	16	9.04	17.96
coral polyp · oil and dispersant treatment	16	16	7.62	15.37
coral polyp · oil treatment	16	16	8.71	15.80
coral polyp · dispersant treatment	16	16	6.68	14.13
Polyp	10	10	7.20	15.51

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	-	8.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.43
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.73
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.34
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.96
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.09
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.38
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.55
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.54
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.06
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.51
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.45
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.09
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.73
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.80
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.01
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.11
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.36
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.45
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.04
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.04
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.58

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.