Gene detail

Detailed information of OS493_011240-T1 in Lophelia pertusa

Genomic Location: scaffold_28:1941229...1977179
NR annotation: KAJ7373631.1, Histone-lysine N-methyltransferase [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

OS493_011240-T1

ATGGGTGAAATCGGAATAATGGTTTCGCGGCTACAACAGGAAGGATTTGATTTGGAAGACATGATCGATGACGAGTTGAGAGCGGCGGGCTTTTTGGAGCTGTGTGAAAGGACCACTAGAACTCTTTTACAGAGGGCAGTTGCAGTTGAAGAGAGCCATTCCAGTTTGAGAAGACTTCTGGACTCCATTGATGTTCAACTTCAGGAATTTCAAGGAACTCGGCAAACACCCAGAGTATCAGGAAAAGATGTTGCAGATCAACAACAACAACAACAGAGTGCGGCTGTTATTGTTATTGACGACGATGAGGCTGAATTTGTGGATGTTTCCGATATGTCTTGTCAAGCTACTTTTGAGGATATTGAAAATGAAACTCGCGATAAGGACAAAGAAGAGATGCCGAACACGAGTCAAAATAATAATTTGTCAGTTCAAAGAGACATTTTACAGAATTATGTTCCAATAAGACCAGCTCCAGTAAAGGAATCAACACATACATGTAACTCGGGTACATTACAGACCGCGACTTCGTCAGTACATCTGCAAACAATAAGTAAACAACCAGATGTTGTATCTTCCGTAACCAGTGCCGGTAAGACACCACCTGTGATTTATAGAACGTTGAAATCACCAGTTGTGAGTGGGGTGTCATTTGTACCACAACGTGTAGCACTGAAGTCATCACCGCCTTCTCTTCCTGTTCAACAAGCAATGTCAAGTCTTAAATCTTCAACAGCAACTGCTTCATCACTCGTGTCTCCTGGTGATAACAGGTCAAGTGCAACACCTTCTTCTGTTAGCCAACCATCATCAAGGCAAACCCCCTCCCCTCAGGCGGGGCCATCCTCTGCTGACAGAAAAACAAGTGCACTGAACAGGAAAAGAGTTCCCCTGCAGGCCCCCCTAAGTTTGATGTTGGGACTCGTGTTATTGGTCAAAGAGCAGATGAACTATGGTACCCAGAAGATTAAGTACAAGGTGAAATTTGACAAAGGAGCAAGGGGTCTTCTGTCGTCCAATCACATCTCACTGGAAACAAACCCAAATGCGTCTGTGCTGAATGTCGGCAGTCGTGTTGTAGGAATATATGGCAAGCTTGATGTGTTATATGCTGGTATTGTTGCTGAGAATGCCTGCAATGAGAACAAGAACAGGTTTCTTGTGTTCTTTGATGATGGATTTGCCCAGTACCTGCCAGTCAAGAAACTTCACCATGTTTACCACACAGGTAAGAAGGTGTGGGATGAAGTGGCAGAGCATTCCAAGGAGTTTATACAGGAATACCTGGAAGAGTTCCCCAATCGACCAATGGTGAAACTCAAGGTCCATTCATGGGTGAAAACTGAATGGAGAGGTCAATGGTTGAAAGCGAAAGTGATGCAGCTAGACTGTAGTTTGGTCAAGATGTTGTTCCAGATTGATAATCGTTCTGAATGGCTTTACAGAGGATCAACTAGAATAGAACCTCTATACAGTGCATTGGTCGATGGGAAGATTTCCACTGCAAAAAAGAAGAGGTCTCGTAAGCTGACACGTGGTGCTTCAGGCAAAACCCAAGAACCGTTTATCGACTACAGTATCACCAAACCATGTTTAGGTGTTTCACCATACAGCAAGACTGATCCTCTAGGTGAACAGCAACGAAAGCTCGAAGAAAAACGTCAACAAACACAACTTGAACAACAAAGACAGCAAGAGCAACAAGAGCAGCTACGAGATGAGAATAAAAAGTTGTCCACCACCACCACAACATCAACACCACCACCTGGGCCAAGTCAGTCAACTTCTACTGTAACAGCAACTTCTAGCACCATTACATCTGCCACAGGGACTGTCGGGACACCTACAGGTGATACAGGCCTTGCTTCTGACAGCAAGGGGATAAGTGACTCGTCCATGTCCAGAACAGAACCTCCAGGACCCAGCAGTGAGCGTCACAGGGGCCCAGACAGTGGTAGTGGTTCTGGAACTCAGGCATCAGGATCATTCCAATCATCCTCAGCAAACCAGCTCTCCAGCCCTGTTGGGCAGGACAGTGGCACTGACTGTCAATCAAGGACTGGCTGCGAAGGCGGTCACTGTTCAGGACTCCCTGACCCTGGTTTAAAAGATGGAGGGAGCTCCACGAATGCCGACAATGCAGGGTGTGGTTGTTGCACAGACAGTTCAATGTCAGTTATTCAGGCCAGTAATGTACGGAAAAAGACCAGTGCAGGACTAGTCATCCCAAGAGATCATTTACAAAGACCGAATGGTATTGAAGTGATTGACTTAGATGGAGATGGTACAACAGCTATGCTTCATGTTCCAATGGAGTCGGATCAGATCATGAGTTCTTTGACAGCACACAAGAATGAGTACCTAGGTCCTAACATGGATGGGTCGATACTGGAAGAACTTTACAATGCATGGGAGGCACCCTGGTTACGAACCAACCGGCGTGACGCCAGAAGCACGGGCTACAATCGAGTCCCAGCCTTCCAAATCCCAGCGAACAACCGGCGAAAACAGGACGTGGCATCGCTGATCCAGGAGAGACTGAAACAGAACAACGTGGACAAGATGCCTGTGGGACAGTGTGAGGGCCCTGGGTTACCTGTGCTGAGCAAGCCAACTGTTAAAGGGCCTCATAAATGCAGCAATGTTTGCAATTCACCGCTAAGTTTTGAAGCAGAGGAAAGCGTCAAGCATAATCCAAGAGCAATTCCTCTTCTATTGAAGTGGAAAAGAGAAATAGCACAGCGTCACCCTGGTAACAAGAAGACAGTGTATTACCGTACTCCGTGTAATAAAAGACTGAGGTCGATGTTGGAAGTTGCTAATTACTTGACGATTACATATGCTACCAACGTGTCCATCGATCAGTTTACATTTGATACGGACATCTGTTGTCAGGACACTGTATTCAGAGATGTGGATCCCATTTGTCCTGACATATCCCGCGGTGAAGAAATCGCTCAAATCTCGGTTGTGAACGAAGTGGACACGTGTTTTCCTCCTCCTATCGACTACATCTCCAGACGCATTCTTGCTGAAGGAGTAAATATGGTTCTCGACCCAGGCTTCTTGGCGTGTTGTGACTGCACGGACAACTGTCAGGATAAGTCCAAGTGCTCATGCGCACAGTTAACCATCCAGGCGTCTGCTGCAGTAGGAGGCAAAGAGGATCCAGCCATTGGATACGAATTCCGCAGGCTCAAGGACTGTGTACAAACAGGGATCTACGAGTGCAATCAGAACTGCGCATGTGGAAGCCAGTGTTTCAACCGAGTTGTACAGAACGGCATTCAACTGCGATTACAAGTCTTCAAAACAGAAAACAGGGGATGGGGTCTTAGATCTCTGGATGACATTCCCATGGGAACCTTTGTCTGTACATATGCTGGGCAGATACTTAACGAGGACATGGCCAACAAGGAGGGAAGAGATTTTGGAGACGAGTATCTTGCCGAGTTGGACCACATTGAGGTGGTTGAGAAAGCCAAGGAAGGTTATGAGTCGAATGTGTCGGACCTTGAGGAAGATGACAGTGTGATTTATCAGGCTCTTGGCGCAGACAGCAGTTCTTCTGGGAGTGCTTCGGGAAGCGGCGAAAGTTCTTTATCAGAAGATGATTCTTCTGATGTGGATTCTCTGTTGAGTGAGGAAAGTTACAGTTCTGGCAGAAACTCGAGGCATGGGGACAGCGAAAATACCATCCACAAACCATCCAGCAGGAGAAAGAAGCGAAAGAGATCAGGAAGGAAGAGTGACAAGAAAAAACGTGAACACGGAGAGGAAACGTTGATGGTTGAACGAGAGTCCAAAGCTCACTGTTTATCGCACCTTGCCGATGAAAAATGGTGTTACATAGCGTTGAAGCGTAACCATGACGACCAGAAGGAAGCTGCCGCATTTTGA

Transcript

OS493_011240-T1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O88974	Histone-lysine N-methyltransferase SETDB1 OS=Mus musculus OX=10090 GN=Setdb1 PE=1 SV=1
Q6INA9	Histone-lysine N-methyltransferase SETDB1 OS=Xenopus laevis OX=8355 GN=setdb1 PE=2 SV=1
Q28Z18	Histone-lysine N-methyltransferase eggless OS=Drosophila pseudoobscura pseudoobscura OX=46245 GN=egg PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002134 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01429 all species →	MBD	Methyl-CpG binding domain	Domain	Interproscan
PF05033 all species →	Pre-SET	Pre-SET motif	Family	Interproscan
PF18359 all species →	Tudor_5	Histone methyltransferase Tudor domain 1	Domain	Interproscan
PF18358 all species →	Tudor_4	Histone methyltransferase Tudor domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001739 all species →	Domain	Methyl-CpG DNA binding	Interproscan
IPR016177 all species →	Homologous_superfamily	DNA-binding domain superfamily	Interproscan
IPR007728 all species →	Domain	Pre-SET domain	Interproscan
IPR041291 all species →	Domain	Histone methyltransferase, Tudor domain 1	Interproscan
IPR046341 all species →	Homologous_superfamily	SET domain superfamily	Interproscan
IPR051516 all species →	Family	Histone-lysine N-methyltransferase SETDB	Interproscan
IPR041292 all species →	Domain	Histone methyltransferase, Tudor domain 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46024 all species →	HISTONE-LYSINE N-METHYLTRANSFERASE EGGLESS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0042054 all species →	Molecular Function	histone methyltransferase activity	Interproscan
GO:0010629 all species →	Biological Process	negative regulation of gene expression	Interproscan
GO:0046974 all species →	Molecular Function	histone H3K9 methyltransferase activity	Interproscan
GO:0051567 all species →	Biological Process	obsolete histone H3-K9 methylation	Interproscan
GO:0070828 all species →	Biological Process	heterochromatin organization	Interproscan
GO:0090309 all species →	Biological Process	obsolete positive regulation of DNA methylation-dependent heterochromatin formation	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
K11421	SETDB1; [histone H3]-N6,N6-dimethyl-lysine9 N-methyltransferase	EC:2.1.1.366	Chromosome and associated proteins	ko03036	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_011240-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

23.7Max TPM

9.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.90	14.75
polyp at pH7 6	18	18	8.95	13.16
coral polyp · control treatment	16	16	12.35	22.97
coral polyp · oil and dispersant treatment	16	16	11.95	23.66
coral polyp · oil treatment	16	16	10.35	14.92
coral polyp · dispersant treatment	16	16	10.15	15.80
Polyp	10	10	3.24	6.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.75
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.83
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.15
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.79
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.39
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.21
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.15
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.53
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.64
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.46
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.30
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.32
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.86
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.22
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.34
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.92
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.93
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.18
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.60
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.82
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.92
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.24
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.51
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.20
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.10
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.15

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.