Gene detail

Detailed information of OS493_003331-T1 in Lophelia pertusa

Genomic Location: scaffold_7:442538...474944
NR annotation: KAJ7393674.1, positive regulation of synapse structural plasticity [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

OS493_003331-T1

ATGAATGTGTATACCGCTTCCACTGTGCAATTTGTCATAACAATCGCACTCCTTAACACGGAAAGTAAGGCGACCATTCCAGACCCAAAGCCCGGTGTAGCCGAGAAGACTCCAGACCAAGATGCTGACATCCCTGATGACCCTTACATGAACTACCTACAATGGCCACACTTTCACTTTAGTGGGACATTTATTTCCGACACTTCAACTGTCAATAATGATCCTTTTAACTACGACACCGAAAAGTTTGTCCAAGCTGACCAGTTACCAAACGAAGTAAAGGGAAATCCAAGCTACAACCCAAGAGGCAGTGGTGAATGGAGTGTAAATGGATCTGTGACGCACGTGTGCTATGCTAATGGTCACTGTGTCGGGGATGATGAAGGAAATAAGGACACCGAACCACTGATGGCAGCGCCAATACTGGAGGGTGGAAACATGACGGCTGCAAAGATGGTAGACCTGGACACCCAAGCTCAACTCTTTTCTGAAATTTGGGGCTGGAGAATTCAAATTGGGAATTTATTTTCCGCTGATTTCACTCCAGTCCCATTTAAGTACATATGGGCCAAAATGATAACCACTGAAGGATACGAAGATTCTGCTTATGGTGCAGTTTATCAATCGGTGTTATCAAACATTAGATGGATAGACAATGGAAAGGACTCACCTTTTATCAAACAGCTTCAAACCGCAATGAACAATGACAACATTGACAGCGAAAGACTGTCAATACGTTTTAATGTAGATATGTTCACAGCCGATCCAAAGAAAAGCACATTTACAATGGGACGCGTGACAGGCACAATTGGTTTATTAGGCCGCAAGTCCCCGCCGTTCTTTACTCGTGGTCGCATGATGAAGCCACTTAATAATGATAAGCTACATAATGCACCGTTTTATGTTGATCAAAAGAAAGGAAAGCTGTTTGTAGATTTTGGCAACAGTTTACCGATAGATGAAAATGGCAGTTTTGACACCAAAATCCTGGGTAATCTACTTGTTGCAGTACCTCTTGACACAAATCCCTCGCTGACGTGCTCTGATGATCTTCTGTGGCTTGGTCTTATTTATAACAAGTTTCCAAACTGGTATCACAACTCTGCTGGAGTCCAGGTCTTCCCAACCCTTGGATCATTGTCACCGGATGAGATTAAAACAATTGGCCAGAATCCACTGGTTGTTGCTGAGGTTACTGGCACTATGCCAGTGCTAAACTGCAAGAAAGTAGTGATGGCCGAAGCTCGCGATGGCATTGATATCCATCCATACAACAAATGGACTTTTCGAAAGAATCCAGGTGAGCGAGCTAATGCTCAGCTAATTGCAACAAAGTTTGGGAAGCCTCTTGCTGGAGCACGTGTAAACCTTGGCCCTTGTAATTGTTTAAGCATCAGTTTCGGAGGTGGACCACCTATTGGCCAACCTCCTTTACCTGTACCTTCCCATGCGATAACGAATGAACATGGAATCGCTACGTTTGACATAGAAGTTAAAGATCCTAAGAATAACAGGAGCTATATCGATGGACAGATATATCATTTTATATACTCGTTGGAAAGTCAAGACATTAACTGTGAAAACTTGTGCGAAAAAGATGCTTTAAAGCTGCTTAATTCGCTGATTGTCATAAAAGCGTGGGACCACTATACTCCTAAGGGCAATGAACCAACTTGGCTGGATGATATCTACCCGATCTTTAAGCAATATGCCAACTTGTATCCAGTGATGACTGATAACTTTGTAGATTTAGGAAACTATTACGAAGTTATAAACTACAAATTGGCCATCAAAAGGAGTATGGAATTGCCTATGTCTCATCCAAATCACATGCCTGTTGTTCGTGATCTTTCATCGTCCAAACGTAAAGTTATCTTGAAATGGCTTTCTAAAGAAAAGCCTCTGATTGGTAATCCACAGAGCCATTACTCTGTCGAGCACCTCCGGAATGACCTACAGACTGCTCTTCAACTGGAGCATTCAACTATTCCTCCGTACCTGACAGCTTTGGCCTCCATCAAAAGTAGCTACAATCTGGAAATTCAAAAGGTCATGAAAGCAATAATAATCCAGGAGATGATGCATATGGCGCTTGTTGCCAACATCCTTAATGCTGTTGGAGGAAAACCATCCTTGTATTCAAAGGACTTTATTCCACATTACCCTTCCCGTCTTCCCGGTGGAGTGCAGCCTGATTTGGTCGTACCTATTGAAAAGATTTCCCTTGGTCTAATAAGGAACATCTTTATGAAAATCGAGCAACCTGTATTGGAGTTGGAACACATTTCCAGCTTTCAACACACATTTTCATTCATACATCGTCACAAAAACATGGTCGAGACAGGCCATTGCCAAAAGAATGAAGAAGGAACATGCTCTACTGAATTAAACACAGACACGGAACCACAAATTAGATTTCCCGTGGATGGACTAGTCGACGAAGATCCGTCACCATGCCGCTTGACTTCATTCGCTGGAAAGCAGTTTGGTACAGATTTCCAGTCCAGTCATTTGGAACGTGTACGTCAAATGCTGTTTGAGCAGGATGTTCAGGAAAACGACAAACAGTACCATCCAATATTTCCTGGCGATGATACACAAACAATCGTCAAGCACCACAACACAATTGGCGCTTTCTACAATCACATCATGAACGCCCTTGGAAACCTTACAGATTGTGGCAGAAACAACAGCATATTCACTGGAGACCCGAATAAACAAGTTGATTTTCATCACTGGTCAGTGCACGGACATAGCTTGAAGGTCTACGACTACTTTACAGCAGTTGAAGCCATCCAAGATATTGTTGAGCAGGTGAAGGTAGCTCTCCGTGTAACCCCATTGCCTGGGATACAGGGAAGAAGAAGGACCTTTCACATTACTTCTTGTTCTACTCAGGTTGTCGAGAAACACGAGATTCAGGTGGTTGAGACAGTGTCGCCTCCAGATAACGATGATGATAGTGTGGTGGATTTCACTAAGCTGTGTAATGGCACCTACTACTTCAATGGTACCAAGATTCCTTTCGATCCGAAGGTGTTTGGTCGATGGTTTCAATCCCAGCATGTTAAAATACACTCTGGGTTCAAAAGCTTATAG

Transcript

OS493_003331-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)	OG0001181 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12902 all species →	Ferritin-like	Ferritin-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012347 all species →	Homologous_superfamily	Ferritin-like	Interproscan
IPR026820 all species →	Domain	Iminophenyl-pyruvate dimer synthase	Interproscan
IPR009078 all species →	Homologous_superfamily	Ferritin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR34400 all species →	-	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_003331-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_003331-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_003331-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

22.3Max TPM

5.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.91	8.07
polyp at pH7 6	18	18	5.72	9.47
coral polyp · control treatment	16	16	7.04	21.35
coral polyp · oil and dispersant treatment	16	16	4.52	9.37
coral polyp · oil treatment	16	16	5.00	11.35
coral polyp · dispersant treatment	16	16	7.39	22.27
Polyp	10	10	3.68	10.29

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	-	8.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.45
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.46
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.73
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.54
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.03
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.04
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.84
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.27
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.84
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.58

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.