Gene detail

Detailed information of BRAKERKREP00000019955.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047134100.1, histone-lysine N-methyltransferase SETDB1 isoform X1 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000019955

atGgaaaatcaaCAGGGTGAGTATATTTgtcaaaagaaagaaaatgatcCAAAAGAAGCAAATCCATTAAAATTGAAGCtgattaacataaattttttaaagcgtTCGAATTCAGCTCTGAGTTCCAGTTCTGATTCTAGTAAAAATTCACACATTGAAATTAAACATTCTTTGAAGAAACGCAGAGTTATTTCTGATACAGAAGAAAGTTCACcagAGAGGAATACAAAGAATGCTACGTTGAATCAAGAAACTTTTAGTGTTTCTTCTGTTGTTGAAATGAGTCCTCTAGAATCGACATGCTCTATAAGCACTTCATCTTCTATTGGTAATGGAATGTCTCCTTCAACACCACTTGAACCTTCAGTTATTAGTTCTTCAGATGATATCTCAAAGAAAAGTGTCATGTCATCTAACTCTGTATTGTCAAACAAACAAGAAGATGATTTAAAATCCTCTCTTCATATACATTATGtTCCACACACATGCAGCTGCGCCTGTATAAAAGACTCAAGAAACTATTTTGATCAGCATCGTTTGGGAATATACAACTATTTATCTATACCTTTTCAGCTCGGATGGAAAAGGGAGAGTTCCAAAAAGAAGGTGAATTATCACAGAGATATTTACTATAGAGCTCCATGTGGTAAAAGGATGagaaaCCTGAGTGAAGTAACAAAGTatttaacgcAGActgaatgtaaaaatgtttgtattgACATGTTCTGTTTTCAATCGAATGTTTCATGTCGAAACCACAcctcaaaaacaaaaccagCACTTTATCGAAATGAAGACATATCaaatggaaaagaaatttGCCCTGTTGTTTGCGTCAATGAGATCTCAACTGAACCTCCTCCGCATGTTACTTACATTAACTATCGAATAAAAGCTGATGATGTCTCAATAAATACTGACCCTGGGTTTTTAGTCTGTTGTGATTGTACAGACAATTGTCAAgatAAAGCCACTTGCCAATGTGCAAAGTTGACGATTGAGAGCAGCAATGCAATCGATGgagaaattgataaaaattcaggATACCACTTCAGAAGATTAAAAGAATGCATTGCAACAGGcaTTTATGAGTGTAATCAAAATTGTGCATGTTCTCCAGTAACATGCTATAATCGTGTTGTACAAAATGGAATCCAACTTCGTTTGCAAGTATTCCTTACAGAAAATCGTGGCTGGGGTTTAAGATGTGTAGATGACATACCTAAAGGGACTTTTGTTTGCACATATGCTGGCCAAGTTTTAAATGAGCAAACAGCTAATAAAGAAGgaattGACTTTGGCGATGAGTATTTAGCAGAGCTTGATCACATTGAAGTTGTAGAACAAGCCAAAGAAGGTTATGAGTCAGATGTTCCTGAGCTGAGCAACCATTCCATAGATGACATGAgCAGTGAAGAATGGCAAAGTGATAGCAGTTACTCTGTAGTTTTGATCTCGTCAGACAGCACTGATAGTTCTGATAATGATGATCCTGCTGTTAAAAGCaaggacAAATGTGAAAATCCTGTCAAAAAAGAGCAACAAGTTACTTGTGTAgaaacaaaaagtgaaaatacaGAAACAAGCAAAGTAACCGAAATTCGGCATGTAGCGAAGAAGTCAACTGGGGCAAAAGTTCATTCTTACATGAGTCATAGGGGAAAATTCTTTATGACTCAAAGACTTGATGCAGCTGCAAGCAACAAGACAAGTAAATCTTCTAATCACTTGTCGACCAGAtatctttatcaaaatgataatcAAATGTTTATACTTGATGCAAAGTCATATGGTAACGTTGGTCGTTACATGAATCACAGTTGCAACCCCAACCTTTTTGTTCAAAACGTTATGGTTGACACTCACGATCTTCGCTTTCCTTGGGTGGCATTTTTTACACAACAcaACATTACTGCATATACTGAATTAACGTGGGATTACAATTACGAGGTCGGCAGTGTTCCtaacaaacaaatttcttGCAAATGTGGTTCTAAACAGTGTAAAGGGAGACTTCTCTGA

Transcript

BRAKERKRET00000019955

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q08BR4	Histone-lysine N-methyltransferase SETDB1-B OS=Danio rerio OX=7955 GN=setdb1b PE=2 SV=2
Q1L8U8	Histone-lysine N-methyltransferase SETDB1-A OS=Danio rerio OX=7955 GN=setdb1a PE=3 SV=1
O88974	Histone-lysine N-methyltransferase SETDB1 OS=Mus musculus OX=10090 GN=Setdb1 PE=1 SV=1

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
PF00856 all species →	SET	SET domain	Family	Interproscan
PF05033 all species →	Pre-SET	Pre-SET motif	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007728 all species →	Domain	Pre-SET domain	Interproscan
IPR001739 all species →	Domain	Methyl-CpG DNA binding	Interproscan
IPR001214 all species →	Domain	SET domain	Interproscan
IPR046341 all species →	Homologous_superfamily	SET domain superfamily	Interproscan
IPR016177 all species →	Homologous_superfamily	DNA-binding domain superfamily	Interproscan
IPR003616 all species →	Domain	Post-SET domain	Interproscan
IPR051516 all species →	Family	Histone-lysine N-methyltransferase SETDB	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
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:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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

No KEGG orthology assignment for BRAKERKREP00000019955.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000019955.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

17TPM > 0

7Conditions

342.3Max TPM

78.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	7	63.63	342.30
Whole	6	6	133.01	185.01
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	73.93	73.93
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	104.58	104.58
symbioic hydra M9 strain · symbioic hydra rep1	1	1	63.44	63.44
symbioic hydra M9 strain · symbioic hydra rep2	1	1	87.63	87.63
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	342.30
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	217.25
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	164.04
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	128.23
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	108.70
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	99.82
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	85.02
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	185.01
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	184.68
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	154.35
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	136.21
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	130.46
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	7.35
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	73.93
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	104.58
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	63.44
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	87.63
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.