Gene detail

Detailed information of g6505.t1 in Montipora capitata

Genomic Location: Sc0000139:322932...325331
NR annotation: XP_029187395.2, LOW QUALITY PROTEIN: methionine synthase reductase-like [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g6505.t1

atgcctgtgagcaagtcttcagcgaacagatttacaattttgtatggatcacagacgggccaagcgaaggctatcgctgaagaaatacacgaatcctcagaccatcatggtctcaattcgaacttgttttgcctaagccttaccgagaaaaagttcaccttggaaaaagaagcactggtcgtgttcgtagtgtctacaactggggaaggggatccgcccgatactatgggtaaatttatgagaagacttaagaagaagactcttccaggaactcatctacagaacttgcatttcgcgctgcttgcattgggtgatacaaactacacgaacttttgcaacaatggtaaagaacttgacaagaggttactccagctgggggcaaggcaattttatgatactggatacgctgatgatgctgttggattggagttggtagtagaaccttggatagaaggactatggccagcgttaagaaagcatttaggcttattctcattagaggagagtccaccagaggctgtgaatatgccaaccatcaagagcacagatcttctcatcaatggcaaatgttcttcgttagaacttacacctgcagaaattgcaggaggaaatactattcaaccagataacaagacttccactctggacaccagcctttcaagagatgtggttgtcaatggggagagaaagtcttcaggagaaccagatgacaaagttgtggaacatgtcccaggtgtaaacagtgttttggttacaactggctccaataacggtgaagcaggtgtttgtgatgcatcattaggcaatagagtggatatcaaaccaaatgaaactgagacagttgaatctgttaatggtcagagctccttgacaattggacatgacttctctgaacaatgctcctcttcccaaaatccaccactcactctaggagatcagttgaagatgcctgcaccttctctattgtccagtgcattgtcaataccacagctcccacctccttatttggatatcacttttcaccctgaccataacttggattgtgccacattacctttacacaatggtgtcaactttccaagtgctgtatctggtgtttccgtggcaactgttatatcagcaaagcagctgacatctgatacagctgttaaaaccgcattagacattgaacttgatatcactgattgtggcatgagttacgagccaggagactcttttggtgttgtttgtccaaattttgatcctgaggttgaagaattgataacaaagttgagattgagcgaaaaagcagacacccctttcactattcagttgaggactttgacatcaaagaagtcagctagtgttcccaactacattccagagaattcaactatcaggcatgccctcctgacctgtttggagatccgtgctatcccaagcaaagctctaataagagtgttgtcagaacacacaactgatcctcagcagaagagaaggctccaggaactttgcagcaaacaaggtgcaaatgagtacagcaggtttgttagagaacctggtttatccttgctggaccttctaaatgcatttccttcttgtcaactcccgtttgagagattgcttgaattgctcccacgattaaaggcacggccatattcagtatcaagctctccactggagaatcctactggccttcattttgtgtttaacattgtagagattccaggaattgaagacatcaaaaaacaacgtcagggagtctgtactggttggctcaatgacattactaaaattcataggctgggcagtacaggtgacagcaaggtgccaattgatagctttacaaagatgagtttggaaagaaaaattaaagtccctgtcttccaaagaaatagcctcaacttcaaactcccaggagacccagagactccaatcattatgattggtcctggcacagggatagcacccttcataggctttttgaagcacagggaactcaagcagaagaatttaggcctgaatactcctctatctgaagcctggctgttttttggctgcagacacaaagaaagagactacctctatcgccaagagctagagacgtctttgtccagtggggtattgtcgcgtctttttgtttccttctcgcgtgatacggttgatgagttaggacacagtcttcctccaaagtatgttcaagataacttgaggctacattccacagaggtagctgaacaggtgtttgagaaaggagcagtcgtctacatttgtggtgatgctgtcaacatggcaagaaatgtgtatgacacttttcttgagattgttagagaatacaaaagtgttgacattacagaagcaagaaaagaaatggtgaagttgcgtgagaacaagcaatatcttgaggatatatggacatga

Transcript

g6505.t1

ATGCCTGTGAGCAAGTCTTCAGCGAACAGATTTACAATTTTGTATGGATCACAGACGGGCCAAGCGAAGGCTATCGCTGAAGAAATACACGAATCCTCAGACCATCATGGTCTCAATTCGAACTTGTTTTGCCTAAGCCTTACCGAGAAAAAGTTCACCTTGGAAAAAGAAGCACTGGTCGTGTTCGTAGTGTCTACAACTGGGGAAGGGGATCCGCCCGATACTATGGGTAAATTTATGAGAAGACTTAAGAAGAAGACTCTTCCAGGAACTCATCTACAGAACTTGCATTTCGCGCTGCTTGCATTGGGTGATACAAACTACACGAACTTTTGCAACAATGGTAAAGAACTTGACAAGAGGTTACTCCAGCTGGGGGCAAGGCAATTTTATGATACTGGATACGCTGATGATGCTGTTGGATTGGAGTTGGTAGTAGAACCTTGGATAGAAGGACTATGGCCAGCGTTAAGAAAGCATTTAGGCTTATTCTCATTAGAGGAGAGTCCACCAGAGGCTGTGAATATGCCAACCATCAAGAGCACAGATCTTCTCATCAATGGCAAATGTTCTTCGTTAGAACTTACACCTGCAGAAATTGCAGGAGGAAATACTATTCAACCAGATAACAAGACTTCCACTCTGGACACCAGCCTTTCAAGAGATGTGGTTGTCAATGGGGAGAGAAAGTCTTCAGGAGAACCAGATGACAAAGTTGTGGAACATGTCCCAGGTGTAAACAGTGTTTTGGTTACAACTGGCTCCAATAACGGTGAAGCAGGTGTTTGTGATGCATCATTAGGCAATAGAGTGGATATCAAACCAAATGAAACTGAGACAGTTGAATCTGTTAATGGTCAGAGCTCCTTGACAATTGGACATGACTTCTCTGAACAATGCTCCTCTTCCCAAAATCCACCACTCACTCTAGGAGATCAGTTGAAGATGCCTGCACCTTCTCTATTGTCCAGTGCATTGTCAATACCACAGCTCCCACCTCCTTATTTGGATATCACTTTTCACCCTGACCATAACTTGGATTGTGCCACATTACCTTTACACAATGGTGTCAACTTTCCAAGTGCTGTATCTGGTGTTTCCGTGGCAACTGTTATATCAGCAAAGCAGCTGACATCTGATACAGCTGTTAAAACCGCATTAGACATTGAACTTGATATCACTGATTGTGGCATGAGTTACGAGCCAGGAGACTCTTTTGGTGTTGTTTGTCCAAATTTTGATCCTGAGGTTGAAGAATTGATAACAAAGTTGAGATTGAGCGAAAAAGCAGACACCCCTTTCACTATTCAGTTGAGGACTTTGACATCAAAGAAGTCAGCTAGTGTTCCCAACTACATTCCAGAGAATTCAACTATCAGGCATGCCCTCCTGACCTGTTTGGAGATCCGTGCTATCCCAAGCAAAGCTCTAATAAGAGTGTTGTCAGAACACACAACTGATCCTCAGCAGAAGAGAAGGCTCCAGGAACTTTGCAGCAAACAAGGTGCAAATGAGTACAGCAGGTTTGTTAGAGAACCTGGTTTATCCTTGCTGGACCTTCTAAATGCATTTCCTTCTTGTCAACTCCCGTTTGAGAGATTGCTTGAATTGCTCCCACGATTAAAGGCACGGCCATATTCAGTATCAAGCTCTCCACTGGAGAATCCTACTGGCCTTCATTTTGTGTTTAACATTGTAGAGATTCCAGGAATTGAAGACATCAAAAAACAACGTCAGGGAGTCTGTACTGGTTGGCTCAATGACATTACTAAAATTCATAGGCTGGGCAGTACAGGTGACAGCAAGGTGCCAATTGATAGCTTTACAAAGATgagtttggaaagaaaaattaaagtCCCTGTCTTCCAAAGAAATAGCCTCAACTTCAAACTCCCAGGAGACCCAGAGACTCCAATCATTATGATTGGTCCTGGCACAGGGATAGCACCCTTCATAGGCTTTTTGAAGCACAGGGAACTCAAGCAGAAGAATTTAGGCCTGAATACTCCTCTATCTGAAGCCTGGCTGTTTTTTGGCTgcagacacaaagaaagagacTACCTCTATCGCCAAGAGCTAGAGACGTCTTTGTCCAGTGGGGTATTGTCGCgtctttttgtttccttctcgCGTGATACGGTTGATGAGTTAGGACACAGTCTTCCTCCAAAGTATGTTCAAGATAACTTGAGGCTACATTCCACAGAGGTAGCTGAACAGGTGTTTGAGAAAGGAGCAGTCGTCTACATTTGTGGTGATGCTGTCAACATGGCAAGAAATGTGTATGACACTTTTCTTGAGATTGTTAGAGAATACAAAAGTGTTGACATTACAGAAGCAAGAAAAGAAATGGTGAAGTTGCGTGAGAACAAGCAATATCTTGAGGATATATGGACATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q498R1	Methionine synthase reductase OS=Rattus norvegicus OX=10116 GN=Mtrr PE=2 SV=2
Q8C1A3	Methionine synthase reductase OS=Mus musculus OX=10090 GN=Mtrr PE=1 SV=2
Q4JIJ2	Methionine synthase reductase OS=Bos taurus OX=9913 GN=MTRR PE=2 SV=1

Gene family

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

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR001433 all species →	Domain	Oxidoreductase FAD/NAD(P)-binding	Interproscan
IPR039261 all species →	Homologous_superfamily	Ferredoxin-NADP reductase (FNR), nucleotide-binding domain	Interproscan
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
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
IPR023173 all species →	Homologous_superfamily	NADPH-cytochrome p450 reductase, FAD-binding, alpha-helical domain superfamily	Interproscan
IPR001709 all species →	Domain	Flavoprotein pyridine nucleotide cytochrome reductase	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0010181 all species →	Molecular Function	FMN binding	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 g6505.t1 across 48 RNA-seq samples of Montipora capitata. 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

48TPM > 0

3Conditions

53.1Max TPM

18.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	17.93	52.33
whole organisms · low pH treatment	15	15	19.70	53.10
whole organisms · extra low pH treatment pH treatment	12	12	18.21	49.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	52.33
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	49.68
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	45.41
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	30.30
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	21.84
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	20.36
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	16.76
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	15.96
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	15.55
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	13.42
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	13.33
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	12.93
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	11.58
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	10.81
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	10.72
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	10.56
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	7.79
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	7.36
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	4.90
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	3.26
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	1.65
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	53.10
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	48.87
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	41.31
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	25.69
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	19.78
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	15.52
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	15.48
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	14.87
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	13.49
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	12.31
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	11.00
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	10.63
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	5.75
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	4.06
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	3.60
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	49.10
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	44.44
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	27.86
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	16.21
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	14.51
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	13.86
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	13.72
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	11.99
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	11.69
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	6.58
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	4.73
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	3.83

Source: CnidoSite RNA-seq expression matrices (MCAPI_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.