Gene detail

Detailed information of BRAKERKREP00000001674.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_002158942.3, methylmalonyl-CoA mutase, mitochondrial [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000001674

ATGCTGCATTTATCAAGGAGTTTGGTTCTgaaaaacaagttATGCTACCGATCTCTGCATAAAGCAGCATTGCAGCCAGAATGGGTTGCTATTGCAAAAAAGGAGCTTAAAGGAGCAGACCCTGCAGAAAAACTAACATGGAAAACACCAGAAggtaTCAATATAAAACCGGTTTACACTAAAGATGATGTTAAAGATGTTGCAGATGAAGTACCTGGTGTTTACCCATTTACACGTGGCCCTCATGCAACAATGTATACTTATAGGCCTTGGACTATTAGACAGtatgCTGGATTCAGTACAGTAGAGGAAAGCAAtcgtttttacaaaaaaaatatagctgCTGGTCAGCAAGGACTAAGTGTTGCTTTTGACTTACCTACACATAGAGGATATGACTCAGATAATCCTCGTGTACATGGTGATGTTGGGATGGCTGGAGTAGCTGTGGATAGTGTTAATGATATGAAGgctCTTTTTGATGGTATTGCATTAGACAAGATGAGTGTTTCCATGACAATGAATGGAGCTGTACTACCAGTACTTGCTATGTATATTGTAGCTGCAGAAGAGCAGGGAGTTTCACAGGAAAAACTTTCTGGGACAattcaaaatgatattttgaaagaattcaTGGTTCGAAACACTTATATCTATCCTCCAGAGCACTCAATGAAAATTATTGGAGATATCTTCTCATATACTGCTAAGTATATGCCCAAATATAACAGTATTTCAATATCTGGATACCACATGCAAGAAGCAGGAGCAGATGCTGTTTTAGAAGCTGCTTTCACAATTGCAGATGGCATTGAATATTGTAAAACAGgTATAAGATCTGGTATGGACATTGATAGTTTTGCACCACGCCTGTCGTTTTTTTGGGGTGTTGGCATGAATTTTTATATGGAAATTGCAAAATTTCGTGCTGCTCGTAGATTATGGGcacatttaattaaagaaaaatttcatccTAAGAGCACCAAGTCTCTCTTACTCAGAACACATTCTCAAACCTCGGGATGGTCTTTAACAGAAcaagatcCCTACAATAATATTGTGAGAACTACCATTGAAGCTATGGCAGCAGTATTTGGAGGCACTCAATCTCTTCATACAAACTCTTTTGATGAAGCCCTGGCATTACCATCAGCTTTTAGTTCAAGAATTGCAAGAAACACTCAAATTATCTTGCAAGAGGAATCAGGCATACCCAAGgTTGCAGACCCATGGGGTGGTTCTTATCTAATGGAAAGTCTTACCGACGAAATATATGCTGCTTCTAAGAAAATAGTTGAAGAGGTTGAAGAAATGGGAGGGATGGCAAAAGCTGTTGCTTCTGGAATGCCAAAGCTTCGAATTGAAGAGAGTGCAGCAAAAAGACAAGCCAGGATAGATTCAGGACaagaGACAATTGTTGGTGTAAACAAATACAAGTTAGAGAAAGAAGATCCTATAGAGGTATTAGCTGTTGACAATACCAAGGTTCGATTGAGTcaaattgaaaagttgaaagtGATAAGAGCAACAAGAGATAatgcaaaaGTAGAAGATTGTTTGAATCAAATTACTGAATGTTGCAAGACTGGCAATGGTAATCTGCTAGATCTAGCTGTAAAGGCTTCGCGAGCTCGTTGTACCGTCGGAGAGATTTCTGATGCAAtggaaaaagtatttaaacgTCATGTTGCGGCCGATCGTATGGTGAGTGGTGCCTACAAGAGTGAATACGGCTCTACTagtgaaattgaaaatgtgTTAGGTCGAGCTGCGAGATTTAACGATCAGTATGGGCGTCGTCCACGCATTCTTGTGGCAAAGATGGGGCAAGATGGCCATGATCGAGGTGCTAAAGTAATCGCTACTGGTTTCTCAGATCTTGGATTTGATGTCGATATAGGACCTTTGTTTCAGaCACCAAGAGAAGTAGCCCAACAGGCTATTGATGCTGATGTTCACGCAGTAGGTGTGAGCACTCAGGCAGCTGGTCATAAAACATTAGTTCCTGATATGGTTAAATGTTTAAAGGAGATGGGTAGAGGAGATATTGTGGTCGTCTGTGGAGGAGTTATACCACCGCAAGATTATTCGTTCTTACATGATAATGGTGTTTCCAGTATATTTGGACCagGTACCAGAATACCACAAGCCGCAATGAAATTGCTGGATGATATCGAAAAGAATCTCAAATCTacttga

Transcript

BRAKERKRET00000001674

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P16332	Methylmalonyl-CoA mutase, mitochondrial OS=Mus musculus OX=10090 GN=Mmut PE=1 SV=2
P22033	Methylmalonyl-CoA mutase, mitochondrial OS=Homo sapiens OX=9606 GN=MMUT PE=1 SV=4
Q8HXX1	Methylmalonyl-CoA mutase, mitochondrial OS=Macaca fascicularis OX=9541 GN=MMUT PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004409 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02310 all species →	B12-binding	B12 binding domain	Domain	Interproscan
PF01642 all species →	MM_CoA_mutase	Methylmalonyl-CoA mutase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006099 all species →	Domain	Methylmalonyl-CoA mutase, alpha/beta chain, catalytic	Interproscan
IPR006158 all species →	Domain	Cobalamin (vitamin B12)-binding domain	Interproscan
IPR006098 all species →	Domain	Methylmalonyl-CoA mutase, alpha chain, catalytic	Interproscan
IPR016176 all species →	Homologous_superfamily	Cobalamin (vitamin B12)-dependent enzyme, catalytic	Interproscan
IPR006159 all species →	Domain	Methylmalonyl-CoA mutase, C-terminal	Interproscan
IPR036724 all species →	Homologous_superfamily	Cobalamin-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48101 all species →	METHYLMALONYL-COA MUTASE, MITOCHONDRIAL-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016866 all species →	Molecular Function	intramolecular transferase activity	Interproscan
GO:0031419 all species →	Molecular Function	cobalamin binding	Interproscan
GO:0004494 all species →	Molecular Function	methylmalonyl-CoA mutase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0019678 all species →	Biological Process	propionate metabolic process, methylmalonyl pathway	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0016853 all species →	Molecular Function	isomerase activity	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
K01847	MUT; methylmalonyl-CoA mutase	EC:5.4.99.2	Cobalamin transport and metabolism	ko04980	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001674.1 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

11TPM > 0

7Conditions

11.6Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	3	1.73	11.05
Whole	6	5	6.12	11.58
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	7.12	7.12
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	8.51	8.51
symbioic hydra M9 strain · symbioic hydra rep1	1	1	7.22	7.22
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
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
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	11.05
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	10.55
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	9.54
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
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
SRR21134059	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
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	11.58
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	6.71
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	6.46
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	6.16
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	5.81
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	7.12
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	8.51
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	7.22
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
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.