Gene detail

Detailed information of OS493_004051-T1 in Lophelia pertusa

Genomic Location: scaffold_8:1818627...1831787
NR annotation: KAJ7387087.1, hypothetical protein OS493_004051 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

OS493_004051-T1

ATGGCAGACGAAGAGGCCGTTCTCAAGAAAAAGACGGGAGAGATCAGGCAGCAACTTAGGGAATTACGAAAGAAGAAACTTGATGCCTTAGAATCTGATACGACAGCAAATGAAAGGCCAAGGAGAAAGAAGAGAGAAGAGAAATCCACTGTTATAACGGAGACAAAAACAATGGAGACAAAAACTACAAGTGTGAGCGATGGTGATACCTCACAGCCACCATCAACACAAACTAACATAGAGGTTAATTATAGTCGCACAGTTATTACTGATGGACCTTCTGAAAACGGTATTGAGAATGGACATGTTGAGGAAGAAACAGTGTCTGTTGAAGATGAAAAGCACGCAGAGGAACAACCAGTCGAGATTGATATTGGAACTCAATTTAGTGTACAAATAAATGGAGAAAAAAGTACTCAGGATAGCGAGGAAGAGCAAGGGGTGTCACCACCACAAATACAAATTTCAACAGAAACTGAAACTGTAGTTGAATCTTCTGAAACAGTAGCTGATAATAAGGAGCCAGAAGACAAAGAAGAAGACACGGAAGAGGTTGAATTGACACCGGAAGTGGTTGAGAAGATGGAAGATGTAGATCAACTGGAAAATTTGCTTAAAGAAGTTCCTCTGAATGAATATGCGCTGAGAAAGGCAATAAGATTGCAAATAAGGCAGCTCAGAGTCAAGAAAGCAATGCGAAAAAATTCTAGATCAGGACCCAAATTCAAGTTGGAGGCTCCTGCACCTAAGGGAATGAGGTTAGTTTCCAGGAGCATGCTGTTACCACAACTAAGTAATCTCTACCTGTTTTTACTCACTTTTACCTTCACAGAGGCAAGCAAAGAATTAAGTGAAAATGTGTTGGGTTTAAGAAAAGTAAATCGAGTCAGTAAACAAGATAACTTACCTGGAAATGATACGCCCTCGAGAAATACACCATCTGAGGGCTCTGTATCGCAGATGTATGGAATGGGTGCATGCAATATTGGAACCAAAACTGACATTTCAGCATCCATTGAGCTTGAAGCAGAGGATGAGAGTAAGACTGATATTGACAGTGTAAAGCCACAAACAGTGGCAAGTGACTCCGACGCAGATGATGCTTCATCATCGGTATCTAGCTTAACATCTGAGGGTACTTCCGAGCCTGATGTCCCCAGAACTGCACCTCCAAGACCCCCAAAACCTCCAAAACCTCCAAAACCATCCAGACCCACAGCAAGCACTGCTACATGTAGTACTGGATCTGATTCGGAACTCAAGGGGGATTTTAAAACTAAAATTCTTGGAAACCCTTCAGGCCCCCCACTGAGAGATCTGTCAAAAAAGGCAAAACCTTCAGCGCCAGAGCAGTTGGATTTCCGAGGACAACTGAAGAAGACTGGTTTGAGAGCTGATAAGGACTTGACGGCACAAGGGAAGAAGCAGCAACAAGACGGAGAGTTCCGTAGACAGCTTAAAACAACGGGTGCGGATACATCAAGAAATCTGTCAGCATCGAGAACTGTGGGTAGGAAAAAGGAAGGGATTGCTCAGGTTGATTTCAGAGGACAACTAAGCAAAACAAAGGGTTTAGAAAGTCCAGTTGTTAAAAAAGGCCCGCCACGCCCTCCTCCAACGTACTTATCAAAGAAACCTGAACCTGGAGGTTTGCCCTCTCAATCCCCTGCAAGAACCCAAACAACAGAAGCTAAGGAGGGTGTCAAAACAGCAGACAAAAAAGAAGGTCGTAAAATTTCCAGCGCAGACTTGCTGAACATGTTACATAAACCTGTTGAGACTTCCAAGGAAAGCTATCTTGTACAGCGAGGTATTAAAAAGGCAGAAGCACCAACATCTGTGGCCCAGAAATTTGTAGCACCAGCAAAAGATATTTCTGATGAGACCTTTCACGCTCGAATGGCACAAAGAAAGGAAAGATCTGAGAAGATCTTTCCTTCCAAAGATCCCAGAGCACAAAGGAAGATATCTTCTTCTGGTGACGAAGATTTTCGGGCTGTTCTGAAAAAAGCCGCTTCTCAAAAATCAAGAGTTATGCAGAAAAGAACTGATCTTGAAACAGAGGAACGACGACCTTCAACTGGCGAAGTCAATCGGAATGAAAGATTTTCCATAGACATCCAAGATAAGAACGAACTTCAGAAGTTGCGCGAAGGGCTTTTAAAAGAAAGAGAACAACAAAAGGACAAAGAACCAGCAGGAGGTAAAAGTGTCACAAAAACTGTGGAGCCAGAGGGAGATGGCAGTAAAGAAGTCACAACCATGTCAGAGAAGACGACTGACGTTGAAGAGACAGATGGAGGGCAAGCCGAGATAACAACAGAAGTGAAAAAGACAACCGAGGTCCACAAGGCAGGTGGTGCAACAACGACGGTGACGAGAACATCTAAAACAACAGAGGTGCGACAAACAGGAGGAAGTAAAGGTTGGTGGATCTGTTTATTATTAAATGCTTATTTTAAAGGTGGTTGA

Transcript

OS493_004051-T1

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000802 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12510 all species →	Smoothelin	Smoothelin cytoskeleton protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022189 all species →	Domain	Smoothelin	Interproscan

PANTHER

No PANTHER signature was detected for OS493_004051-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_004051-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_004051-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_004051-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

15.2Max TPM

5.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.34	8.39
polyp at pH7 6	18	18	6.69	11.65
coral polyp · control treatment	16	16	7.24	11.28
coral polyp · oil and dispersant treatment	16	16	4.28	7.67
coral polyp · oil treatment	16	16	5.63	15.16
coral polyp · dispersant treatment	16	16	5.36	12.23
Polyp	10	9	2.60	5.40

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.92
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.03
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.47
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.41
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.80
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.97
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.62
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.65
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.94
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.22
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.58
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.36
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.82
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.40
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.32
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.