Gene detail

Detailed information of XP_032237182.2 in Nematostella vectensis

Genomic Location: NC_064040.1:1844204...1846878
NR annotation: XP_032237182.2, methionine synthase reductase [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC5511985

ATGCCTGTTGATAATAGTTTTACCATCCTGTATGCTTCGCAAACAGGACAGGCAAAAGCTATAGCCGACGAAATCCACGAGAAATCGGCTTCGAATGGTCTCAACTCCAAACTTTTCTGTTTAAGCTTGACCGAAAAGAAGTTCATGCTTGAGAAAGAATCAGCCGTTGTCTTTGTAGTGTCCACAACAGGTGAGGGTGATCCACCAGATACTATGCTCAAGTTTTTCAGGCGACTGAAGAAAAAAACTTTGCCAGGAAATCATCTAAAAGACCTCCAGTACGGCCTTCTAGCTTTAGGAGATTCCAATTACACGAATTTTTGTGTAAATGGAAAGAACCTGGACAGAAGATTAAACGAGCTTGGAGCTAAAAAGTTCTATGACACTGGCCATGCCGATGACGCTGTTGGCTTGGAGTTAGTTGTAGAGCCTTGGATAGATGGGTTATGGGGGCCGCTGAAAGACATCCTAGGAGTGCCACATGACAATCAGATGTCAGATAGAGAAAATATTGACAGTAACAAGTCAGTTGTAGAGAATGACTCAGTGGCTAATGGTATTGTTCCAAAGTCTGAAAACCTACCTCAAGGGTCTTCCAATGAACATTTCCCTGAACAATTTGAAAATCATAATGAGAAAACCAGCCAGTTTCTAAGTGAGAGTGAAAAAGAAAACAGTTTGAACATAGAGCTGACTGTAGAGGGGAAACCAACTTTACGAAAATCAGGTGCTTCATTGTCATCAAGTTCCCTTTCCATTCCAGTTCTTCCATCTCCCTACCTGGAGATAAAATTCCACCCTGAGAAAACACCAGATTTTTCTACAGTCCCACACCAAGCCGGGGCTAGCTTTCCTGGGGCAGCCTCGCCCATCACCATGGCAACCATTGTGGGTGCTCGTCGACTGACAGCTGATGATGCCATGAAGAAAGCACTTGAGATTACTCTAGACATTAGTCAGTCTGGCTGGGAGTATGAGGCAGGGAATTCCTTTAATATATATTGCCCTAATGACGAGGGCGAGGTGGATGCTATTATTGAAAGACTTGGATTGACATCCATGGCTCAGGTACCTTACGACATCCAAGTTATGTCTGGTACCAAGAAGAAAACTGCTTCTATACCAAACTATATCCCCCAGCCATATACTATAAAAGAGAGCTTGTTGACATGTCTGGACATTAGAATGGTTCCTAGGAAAGCATTCCTGAGGACTCTAGTGGAGTTTACTCATGACAACAATGAACAGCGCAGACTGCAGGAATTGTGCAGTAAACAAGGGGCAGATGAGTATTGCAGGTTTGTAAGAGAGCCAAGCCTCTCTCTGCTGGAGCTACTAACAGCATTTCCTTCTTGTTTTCCACCTTTCGAAAGACTTCTAGAGCACCTGCCAAGACTCAGTCCCAGGCCCTATTCTATTTCAAGCTCTCCATTGGAAAAGCCTGGACAGTTGAACTTTGTCTTTAATGTTGTTGAGTTTGGTGAATTTGAGGACATTAGGAAGAGCAGGAAGGGTGTATGCACGAGCTGGCTGGAAGGTCTTACAGGTTCCATGATAACGGAAGAAGGAAACAAGGCAAATGGTATCTTGAAGATTTCAGAGCTAAGTATCCTCTCCTCCCCTTATGTCCAAGTACCTGTCAGTGCAAGAAGCAATTCAGATTTCAAGCTTCCACCAGATAGTAGAATCCCAGTTATAATGATAGGCCCTGGTACTGGGGTAGCTCCATTCATTGGCTTCCTACATCACAGAAGGAAGCAAATGGAACTAGCAGAAGACCTTACTGGTTTTGGCGAGATGTGGCTATTCTTTGGGTGCAGACACAGGGAAAAGGACTTCTTATACCAAAAGGAACTAGAGTCATTTGTTGAGACTGGTACTCTATCACGACTGTTTACTTCTTTTTCACGTGATCAGGGCTTTACAGTAAGCTTGTCTACCCCACGCTATGTCCAAGATAACCTCAAGTTGCAAGGCGACAAAATTGCTGATCTTGTTCTCAATGATGGTGCAGTTGTGTATGTTTGCGGTGATGCTAAAAACATGGCATCGAATGTGTTTGAGTGTTTCTGTGAAATCATTGAGAAGCATTTGTGTGTGGGAAAAATGGAGGCTATAAAGGAAATGACAAGGCTACGCAAAGAAAAGAAGTATCGGGAAGATGTATGGACCTGA

Transcript

rna-XM_032381291.2

GTATCACGTGATACACCGGATATGGGACAGAAATGAGGCGTTCATAAGGAAGGCCCTGATTGGTTGGGTATATTGTGTCCAATAGAAAGCTTTGTTTTATTCAAACGTTGCATAAGTCAAAGGAACGTGTGGACTCACAATCAACATCAACAATCTTCGTATCGTCCAGCAAGCGAAAAATACAATTATTTCATTGATTAATTCGTCCATGTGAATGAAAACTAGACATAATGCCTGTTGATAATAGTTTTACCATCCTGTATGCTTCGCAAACAGGACAGGCAAAAGCTATAGCCGACGAAATCCACGAGAAATCGGCTTCGAATGGTCTCAACTCCAAACTTTTCTGTTTAAGCTTGACCGAAAAGAAGTTCATGCTTGAGAAAGAATCAGCCGTTGTCTTTGTAGTGTCCACAACAGGTGAGGGTGATCCACCAGATACTATGCTCAAGTTTTTCAGGCGactgaagaaaaaaactttgcCAGGAAATCATCTAAAAGACCTCCAGTACGGCCTTCTAGCTTTAGGAGATTCCAATTACACGAATTTTTGTGTAAATGGAAAGAACCTGGACAGAAGATTAAACGAGCTTGGAGCTAAAAAGTTCTATGACACTGGCCATGCCGATGACGCTGTTGGCTTGGAGTTAGTTGTAGAGCCTTGGATAGATGGGTTATGGGGGCCGCTGAAAGACATCCTAGGAGTGCCACATGACAATCAGATGTCAGATAGAGAAAATATTGACAGTAACAAGTCAGTTGTAGAGAATGACTCAGTGGCTAATGGTATTGTTCCAAAGTCTGAAAACCTACCTCAAGGGTCTTCCAATGAACATTTCCCTgaacaatttgaaaatcaTAATGAGAAAACCAGCCAGTTTCTAAGTGAgagtgaaaaagaaaacagtttgaacATAGAGCTGACTGTAGAGGGGAAACCAACTTTACGAAAATCAGGTGCTTCATTGTCATCAAGTTCCCTTTCCATTCCAGTTCTTCCATCTCCCTACCTGGAGATAAAATTCCACCCTGAGAAAACACCAGATTTTTCTACAGTCCCACACCAAGCCGGGGCTAGCTTTCCTGGGGCAGCCTCGCCCATCACCATGGCAACCATTGTGGGTGCTCGTCGACTGACAGCTGATGATGCCATGAAGAAAGCACTTGAGATTACTCTAGACATTAGTCAGTCTGGCTGGGAGTATGAGGCAGGGAATTCCTTTAATATATATTGCCCTAATGACGAGGGCGAGGTGGATGCTATTATTGaaagacttggattgacatccATGGCTCAGGTACCTTACGACATCCAAGTTATGTCTGGTACCAAGAAGAAAACTGCTTCTATACCAAACTATATCCCCCAGCCATATACTATAAAAGAGAGCTTGTTGACATGTCTGGACATTAGAATGGTTCCTAGGAAAGCATTCCTGAGGACTCTAGTGGAGTTTACTCATGACAACAATGAACAGCGCAGACTGCAGGAATTGTGCAGTAAACAAGGGGCAGATGAGTATTGCAGGTTTGTAAGAGAGCCAAGCCTCTCTCTGCTGGAGCTACTAACAGCATTTCCTTCTTGTTTTCCACCTTTCGAAAGACTTCTAGAGCACCTGCCAAGACTCAGTCCCAGGCCCTATTCTATTTCAAGCTCTCCATTGGAAAAGCCTGGACAGTTGAACTTTGTCTTTAATGTTGTTGAGTTTGGTGAATTTGAGGACATTAGGAAGAGCAGGAAGGGTGTATGCACGAGCTGGCTGGAAGGTCTTACAGGTTCCATGATAACGGAAGAAGGAAACAAGGCAAATGGTATCTTGAAGATTTCAGAGCTAAGTATCCTCTCCTCCCCTTATGTCCAAGTACCTGTCAGTGCAAGAAGCAATTCAGATTTCAAGCTTCCACCAGATAGTAGAATCCCAGTTATAATGATAGGCCCTGGTACTGGGGTAGCTCCATTCATTGGCTTCCTACATCACAGAAGGAAGCAAATGGAACTAGCAGAAGACCTTACTGGTTTTGGCGAGATGTGGCTATTCTTTGGGTGCAGACACAGGGAAAAGGACTTCTTATACCAAAAGGAACTAGAGTCATTTGTTGAGACTGGTACTCTATCACGACTGTTTACTTCTTTTTCACGTGATCAGGGCTTTACAGTAAGCTTGTCTACCCCACGCTATGTCCAAGATAACCTCAAGTTGCAAGGCGACAAAATTGCTGATCTTGTTCTCAATGATGGTGCAGTTGTGTATGTTTGCGGTGATGCTAAAAACATGGCATCGAATGTGTTTGAGTGTTTCTGTGAAATCATTGAGAAGCATTTGTGTGTGGGAAAAATGGAGGCTATAAAGGAAATGACAAGGCTACGCAAAGAAAAGAAGTATCGGGAAGATGTATGGACCTGAAGTGTGTCACATGATTAGTTTGTCTTTGAGATAGAAAAGTGGGCACAGAGCTACTGTAGTGTAACCTTGCAGCTTATTCTATGGATGACTCTtacctttatttttaaagtCAAGGTCTGTTCTAGGACTATTGTTGTTGTGCTGAAAAGACTTTTTGAGGACTGTGTTCAAGAGGTAGTTTGTTCTTTGTGAGTTTTGATTACAACTTCTTTAACATGGGACTTGAAtaagaaaaggaaaataaagcaaaacccAAGGGGTGGACTGGTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9UBK8	Methionine synthase reductase OS=Homo sapiens OX=9606 GN=MTRR PE=1 SV=4
Q8C1A3	Methionine synthase reductase OS=Mus musculus OX=10090 GN=Mtrr PE=1 SV=2
Q498R1	Methionine synthase reductase OS=Rattus norvegicus OX=10116 GN=Mtrr PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006249 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00258 all species →	Flavodoxin_1	Flavodoxin	Domain	Interproscan
PF00175 all species →	NAD_binding_1	Oxidoreductase NAD-binding domain	Domain	Interproscan
PF00667 all species →	FAD_binding_1	FAD binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008254 all species →	Domain	Flavodoxin/nitric oxide synthase	Interproscan
IPR001094 all species →	Domain	Flavodoxin-like	Interproscan
IPR017938 all species →	Homologous_superfamily	Riboflavin synthase-like beta-barrel	Interproscan
IPR029039 all species →	Homologous_superfamily	Flavoprotein-like superfamily	Interproscan
IPR001709 all species →	Domain	Flavoprotein pyridine nucleotide cytochrome reductase	Interproscan
IPR023173 all species →	Homologous_superfamily	NADPH-cytochrome p450 reductase, FAD-binding, alpha-helical domain superfamily	Interproscan
IPR001433 all species →	Domain	Oxidoreductase FAD/NAD(P)-binding	Interproscan
IPR039261 all species →	Homologous_superfamily	Ferredoxin-NADP reductase (FNR), nucleotide-binding domain	Interproscan
IPR017927 all species →	Domain	FAD-binding domain, ferredoxin reductase-type	Interproscan
IPR003097 all species →	Domain	Sulfite reductase [NADPH] flavoprotein alpha-component-like, FAD-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19384 all species →	NITRIC OXIDE SYNTHASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0010181 all species →	Molecular Function	FMN binding	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0009086 all species →	Biological Process	methionine biosynthetic process	Interproscan
GO:0030586 all species →	Molecular Function	[methionine synthase] reductase (NADPH) activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0050667 all species →	Biological Process	homocysteine metabolic process	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
K00597	MTRR; methionine synthase reductase	EC:1.16.1.8	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 XP_032237182.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

47TPM > 0

16Conditions

14.6Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	6.17	7.20
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	3.53	4.74
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	6.35	7.62
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	6.82	7.69
whole 6 week old aboral regenerate · regenerate uncut	3	3	3.90	4.82
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	8.23	10.06
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	3.93	4.42
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	6.06	7.66
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	5.69	7.44
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	7.74	7.80
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	6.45	7.50
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	3.49	5.61
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	6.91	9.44
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	6.07	7.86
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	5.77	6.54
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	8.47	14.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.20
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.87
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.43
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.74
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.23
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.61
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.62
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.31
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.11
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.69
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.41
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.34
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.82
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.51
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.36
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	10.06
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	7.90
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	6.72
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	4.42
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	3.71
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	3.66
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	7.66
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.29
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	4.23
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	7.44
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.85
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.79
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.80
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.75
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.66
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	7.50
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	6.82
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.04
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.61
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.88
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.44
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.93
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.36
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	7.86
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	6.34
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	4.03
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	6.54
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.89
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.89
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	14.64
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	6.65
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	4.12

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.