Gene detail

Detailed information of BRAKERKREP00000016176.1 in Hydra viridissima

Genomic Location: QPEY01000102.1:290880...293873
NR annotation: XP_047141703.1, tRNA (uracil-5-)-methyltransferase homolog A [Hydra vulgaris]
Species Hydra viridissima · 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
Q8IZ69	tRNA (uracil-5-)-methyltransferase homolog A OS=Homo sapiens OX=9606 GN=TRMT2A PE=1 SV=2
Q8BNV1	tRNA (uracil-5-)-methyltransferase homolog A OS=Mus musculus OX=10090 GN=Trmt2a PE=1 SV=2
Q8BQJ6	tRNA (uracil-5-)-methyltransferase homolog B OS=Mus musculus OX=10090 GN=Trmt2b PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003046 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05958 all species →	tRNA_U5-meth_tr	tRNA (Uracil-5-)-methyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR010280 all species →	Family	(Uracil-5)-methyltransferase family	Interproscan
IPR045850 all species →	Family	tRNA (uracil(54)-C(5))-methyltransferase, metazoa type	Interproscan
IPR030390 all species →	Active_site	RNA methyltransferase TrmA, active site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45904 all species →	TRNA (URACIL-5-)-METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	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 BRAKERKREP00000016176.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000016176.1 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

24TPM > 0

7Conditions

499.3Max TPM

128.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	14	141.65	499.35
Whole	6	6	115.79	193.39
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	209.56	209.56
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	148.59	148.59
symbioic hydra M9 strain · symbioic hydra rep1	1	1	80.84	80.84
symbioic hydra M9 strain · symbioic hydra rep2	1	1	53.00	53.00
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
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	499.35
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	276.66
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	276.23
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	263.14
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	254.27
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	205.72
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	185.21
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	177.24
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	165.06
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	113.91
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	62.29
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	28.35
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	25.39
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	16.84
SRR21134058	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
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	193.39
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	146.28
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	116.05
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	100.30
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	99.61
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	39.11
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	209.56
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	148.59
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	80.84
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	53.00
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.