Gene detail

Detailed information of scaffold121.g231.t1 in Morbakka virulenta

Genomic Location: scaffold121:1460071...1466288
NR annotation: MCB1081276.1, succinate dehydrogenase flavoprotein subunit [Chlamydiia bacterium]
Species Morbakka virulenta · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

scaffold121.g231.t1

ATGTTTTTTGATTCCCACGCCCACTTAACTTATAATCCGGTTTATGAAGACCTTCTTCAAATCTTGCAACGTGCTCAGGAAAAAAAAGTTGAGGGAATTGTCAATATTTGCACGGATAAAGTCACCTTGGAAAGAGGTTTAAAGCTTGCCGAGGAGTTTGATTGGGTCTATATAGCAGGTGCCACAACACCTCATGATGTGGCAGAAGAAGGAGAGGTTTGCTTTCATCTTTTTGAAGAAGCGGCTCATGAGAAAAAACTTTGTGCAATTGGGGAAACGGGTCTCGATTACCATTATAAGCATTCGCCTGTCGAAACCCAAAAAGTCTTTTTAAAGCGGTATTTGGAACTTGCGCTATCCTGTGATTTGCCTGTGATTTTTCATTGCCGCGATGCATTTGAAGACCTTTTTATGATTACAGATAGCGACTATAAAAAAGATGGGAAAATCCGGCCAGCGGTTTTGCATTGCTTTACAGGCACAATGAAAGAAGCGGAGAAAGCTCTAGAAAGAGAATGGTATATTTCTTTTAGTGGAATTATTACCTTCAAGCGCTCTGAAGAACTTAGGGAAATTGTAAAGGAAGTTCCACTGAGCCAACTTCTTATCGAAACAGATACCCCCTATCTAACCCCCCAAAGCCGACGAGGAAAACCCAATGAACCTGGTTTTATTGAGGAAACGGCTCAATTGATTGCACAAGTGAAAGAACTATCGATTGAAGAAGTTGCAAAGATTATGTGGGGAATCAAATATGCTTTGACATCACGTCAAAATGTTTATTCCCCTACAAAATCTAATCCTGTTTTACAAAAGCATCCCCGTAATCATGCCTATTTTTGGCAGCGCATGACATCCTGGATTTTGCTTGTTGGCATCATTGCACATGTAGGTTACATGCGCTTTTATATGTACCCGACAATTGTCGATACCGGGAAAAAGAGTGATTATTTTGTGCGAGTTAGCCTTGATCCGGGACTCTATACGGTTGCAGACCGATTAGGAGTGAAACTTTATAATCAAGAAGCGGTAGAAGATGCAAAAAAACACGTGGAATCTCATGATCCCTACATGCAGGATATTGATAATGAAACTGCTAGAATTCGGATGCAAGCTCCACCCTACACTTATCAAAGTGACATAGAAGAGGTTCTCAATCAGCATCAAACTTGGAAAGCTAAAAAAGCTTGGCTAGCTGGACTAGAAGCACGGTCGTTAAATCGAGGAGAAGTCATTGCCGAAGCTCCTAACTTTGGAATTGCAACCCTGCTCATCGTTCGAGATTCGTTCAAGAGTGTATTTAAATTCATGGAAAAAAGAAAAAAAGAAGTGGTTGTTGTGGGAGGAGGGCTTGCCGGTCTAGCAGCAGCAATGCGGCTTTGTGAGAATGACTGCCATGTAAAAATCGTTTCTGTCACACAAGTAAAGCGTTCCCATTCCGTCTGTGCTCAAGGAGGGATTAATGCAGCTATTAACATTAAGGGAGAAGACGATTCTCCTATCATTCATACCTACGATACTATCAAAGGGGGGGACTTTTTAGGTCAGCAACCTCCAATTTTAGAAATGTGCCTCACTGCTCCGGCAATCATTGAAATGATGGACCGTTTGGGATGCACATTCAACCGCACACCGGAAGGAAATATTGACTTTCGTCGTTTTGGAGGTACTTTATATAACCGGACTGCTTTTTGCGGCGCGTCTACAGGGCAACAACTTCTATATTCCCTAGATGAGCAAATCCGCCGATACGAAGTGAAGGGGCAAGTTAAAAAGTTTGAGCACCATGAATTCATGCGTCTTGTTCAAGATGAAACGGGGACTACACGTGGAATTGTTATGATGGATCTTTTCAATTTAAAGCTTGACGTTCTCAAAGCTGATGCCGTTGTGATCGCAACAGGGGGGCCGGGCCTTATCTTTAAACGTTCCACTAACTCGACATTTTGCACAGGAGCTGCAAATGGACGGCTTTATATGCAAGGGCTGAAATATGCCAATGGAGAATTTATTCAGATTCATCCCACAGCTATTCCGGGAAGCGATAAACTCCGCCTCATGTCTGAGTCGATTCGAGGAGAAGGTGGCCGCATTTGGGTTTATGGAGATGCTTCAAAGTCTATCGAAACTTCCGAAGGGAAAACCATCCCATGTGGCGCAACAGGAAAGCCGTGGTTTTTTTTAGAAGAATTGTATCCGGCCTTTGGTAATCTTGTTCCGCGTGATATTGGAGCGCGGGAAATCCTTCGAGTCATTGAACTTGGCTTGGGTGTTGAAGGTCGAGACGAAGTCTATCTTGACGTGACTCAGCTTCCTGAGGCCACTGTGCATAAGCTTGAATCGGTCTTAAACATTTATCAAAGGTTCACGGGAGAAAATCCACGTCAAGTTCCGATGCGAATCGCTCCTGCTGTCCATTATTCTATGGGAGGAACATGGGTCGACTGGCCAGCTGCCGATGCCCCGGATCGAATGGAGCGTTATCGCCATATGAGCAATCTAACCGGGTGTTTTGTAACGGGGGAAGCCGAGTACCAATACCACGGAGCTAATCGTCTCGGAGCCAATTCTCTCTTGTCTTGCATTTTTGGAGGACTTGTTACGGGAGTTGAAGTGCCCCGCTATTTAGACACTCTTTCTTGCTCTCATGAGGGTGTTCCGGACCAATATTTCTGTGAAGCGCTGGAAAAAGAAGAAACCTTTAAACAAAACCTTTTTCGTCGCAAGGGAACTGAAAACGTGCATCAGCTTCATGAAGAGCTGGCGAATTACATGGTCAAAAATGTCACCGTTAAGCGGAATAACAAGGATCTTGCATTTACGCTCAATAAAATCAAAGAAATCCGAGAGCGTTATCGGTGCATTTCTCTTGATGATAAAGGGCAGTTGCTTAACCAAACCTATATCTTTGCCAATCAATTCTGTTCTATGCTTGAACTTGCCCTTGTGATTACAAAAGGAGCTCTGCTGCGCAATGAATTCCGAGGCTCCCATTTCAAGCCCGAATTTCCAGAAAGGGATGACGAAAAATGGCTCAAGACAACGATTGCTACCTATGATCCTCATAAAGACGAACCCGAAATTTCTTATGAACCTATTGACTTACCCTACCTCCAACCGATAAAAAGAGATTATGTAAAGGTGAAGCACGTGAAACCTCACCTAGATAATCTTCCGAAAAACATCGATCTACCTATTTAA

Transcript

scaffold121.g231.t1

TAGGAAGAAAAAGCTATTTGTCAAGGAAAGGAAGTCGTGTTATTTTTCATCGGTATGAGGAGTGCATATGTTTTTTGATTCCCACGCCCACTTAACTTATAATCCGGTTTATGAAGACCTTCTTCAAATCTTGCAACGTGCTCAGGAAAAAAAAGTTGAGGGAATTGTCAATATTTGCACGGATAAAGTCACCTTGGAAAGAGGTTTAAAGCTTGCCGAGGAGTTTGATTGGGTCTATATAGCAGGTGCCACAACACCTCATGATGTGGCAGAAGAAGGAGAGGTTTGCTTTCATCTTTTTGAAGAAGCGGCTCATGAGAAAAAACTTTGTGCAATTGGGGAAACGGGTCTCGATTACCATTATAAGCATTCGCCTGTCGAAACCCAAAAAGTCTTTTTAAAGCGGTATTTGGAACTTGCGCTATCCTGTGATTTGCCTGTGATTTTTCATTGCCGCGATGCATTTGAAGACCTTTTTATGATTACAGATAGCGACTATAAAAAAGATGGGAAAATCCGGCCAGCGGTTTTGCATTGCTTTACAGGCACAATGAAAGAAGCGGAGAAAGCTCTAGAAAGAGAATGGTATATTTCTTTTAGTGGAATTATTACCTTCAAGCGCTCTGAAGAACTTAGGGAAATTGTAAAGGAAGTTCCACTGAGCCAACTTCTTATCGAAACAGATACCCCCTATCTAACCCCCCAAAGCCGACGAGGAAAACCCAATGAACCTGGTTTTATTGAGGAAACGGCTCAATTGATTGCACAAGTGAAAGAACTATCGATTGAAGAAGTTGCAAAGATTATGTGGGGAATCAAATATGCTTTGACATCACGTCAAAATGTTTATTCCCCTACAAAATCTAATCCTGTTTTACAAAAGCATCCCCGTAATCATGCCTATTTTTGGCAGCGCATGACATCCTGGATTTTGCTTGTTGGCATCATTGCACATGTAGGTTACATGCGCTTTTATATGTACCCGACAATTGTCGATACCGGGAAAAAGAGTGATTATTTTGTGCGAGTTAGCCTTGATCCGGGACTCTATACGGTTGCAGACCGATTAGGAGTGAAACTTTATAATCAAGAAGCGGTAGAAGATGCAAAAAAACACGTGGAATCTCATGATCCCTACATGCAGGATATTGATAATGAAACTGCTAGAATTCGGATGCAAGCTCCACCCTACACTTATCAAAGTGACATAGAAGAGGTTCTCAATCAGCATCAAACTTGGAAAGCTAAAAAAGCTTGGCTAGCTGGACTAGAAGCACGGTCGTTAAATCGAGGAGAAGTCATTGCCGAAGCTCCTAACTTTGGAATTGCAACCCTGCTCATCGTTCGAGATTCGTTCAAGAGTGTATTTAAATTCATGGAAAAAAGAAAAAAAGAAGTGGTTGTTGTGGGAGGAGGGCTTGCCGGTCTAGCAGCAGCAATGCGGCTTTGTGAGAATGACTGCCATGTAAAAATCGTTTCTGTCACACAAGTAAAGCGTTCCCATTCCGTCTGTGCTCAAGGAGGGATTAATGCAGCTATTAACATTAAGGGAGAAGACGATTCTCCTATCATTCATACCTACGATACTATCAAAGGGGGGGACTTTTTAGGTCAGCAACCTCCAATTTTAGAAATGTGCCTCACTGCTCCGGCAATCATTGAAATGATGGACCGTTTGGGATGCACATTCAACCGCACACCGGAAGGAAATATTGACTTTCGTCGTTTTGGAGGTACTTTATATAACCGGACTGCTTTTTGCGGCGCGTCTACAGGGCAACAACTTCTATATTCCCTAGATGAGCAAATCCGCCGATACGAAGTGAAGGGGCAAGTTAAAAAGTTTGAGCACCATGAATTCATGCGTCTTGTTCAAGATGAAACGGGGACTACACGTGGAATTGTTATGATGGATCTTTTCAATTTAAAGCTTGACGTTCTCAAAGCTGATGCCGTTGTGATCGCAACAGGGGGGCCGGGCCTTATCTTTAAACGTTCCACTAACTCGACATTTTGCACAGGAGCTGCAAATGGACGGCTTTATATGCAAGGGCTGAAATATGCCAATGGAGAATTTATTCAGATTCATCCCACAGCTATTCCGGGAAGCGATAAACTCCGCCTCATGTCTGAGTCGATTCGAGGAGAAGGTGGCCGCATTTGGGTTTATGGAGATGCTTCAAAGTCTATCGAAACTTCCGAAGGGAAAACCATCCCATGTGGCGCAACAGGAAAGCCGTGGTTTTTTTTAGAAGAATTGTATCCGGCCTTTGGTAATCTTGTTCCGCGTGATATTGGAGCGCGGGAAATCCTTCGAGTCATTGAACTTGGCTTGGGTGTTGAAGGTCGAGACGAAGTCTATCTTGACGTGACTCAGCTTCCTGAGGCCACTGTGCATAAGCTTGAATCGGTCTTAAACATTTATCAAAGGTTCACGGGAGAAAATCCACGTCAAGTTCCGATGCGAATCGCTCCTGCTGTCCATTATTCTATGGGAGGAACATGGGTCGACTGGCCAGCTGCCGATGCCCCGGATCGAATGGAGCGTTATCGCCATATGAGCAATCTAACCGGGTGTTTTGTAACGGGGGAAGCCGAGTACCAATACCACGGAGCTAATCGTCTCGGAGCCAATTCTCTCTTGTCTTGCATTTTTGGAGGACTTGTTACGGGAGTTGAAGTGCCCCGCTATTTAGACACTCTTTCTTGCTCTCATGAGGGTGTTCCGGACCAATATTTCTGTGAAGCGCTGGAAAAAGAAGAAACCTTTAAACAAAACCTTTTTCGTCGCAAGGGAACTGAAAACGTGCATCAGCTTCATGAAGAGCTGGCGAATTACATGGTCAAAAATGTCACCGTTAAGCGGAATAACAAGGATCTTGCATTTACGCTCAATAAAATCAAAGAAATCCGAGAGCGTTATCGGTGCATTTCTCTTGATGATAAAGGGCAGTTGCTTAACCAAACCTATATCTTTGCCAATCAATTCTGTTCTATGCTTGAACTTGCCCTTGTGATTACAAAAGGAGCTCTGCTGCGCAATGAATTCCGAGGCTCCCATTTCAAGCCCGAATTTCCAGAAAGGGATGACGAAAAATGGCTCAAGACAACGATTGCTACCTATGATCCTCATAAAGACGAACCCGAAATTTCTTATGAACCTATTGACTTACCCTACCTCCAACCGATAAAAAGAGATTATGTAAAGGTGAAGCACGTGAAACCTCACCTAGATAATCTTCCGAAAAACATCGATCTACCTATTTAAGGCTGCAAGCATGGAAAAGACCTTTATCCTCAAGATCTATCGCGGTGAACCCGGGCATCAGTATTGGGAAGAGTTTGAACTCGAACTGAAGCCCTCTATCAATGTCATCTCTGCTTTGATGGTGGTTCAAAAAGAACCTGTTAACCGTAAAGTGGAGCATGTCACACCCGTTACTTGGGAACAAGGTTGTCTCGAAGATGTGTGCGGGTCTTGCTCTATGCTTATCAACGGGAAGCCACGCCAAGCATGTACGGCGATTGTCGAACCGATACTCAAAAAAACCGGTAGTAAAACG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P08065	Succinate dehydrogenase flavoprotein subunit OS=Bacillus subtilis (strain 168) OX=224308 GN=sdhA PE=1 SV=4
V3TQ67	Fumarate reductase flavoprotein subunit OS=Serratia sp. (strain ATCC 39006) OX=104623 GN=frdA PE=1 SV=1
Q92J97	Succinate dehydrogenase flavoprotein subunit OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) OX=272944 GN=sdhA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0018555 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02910 all species →	Succ_DH_flav_C	Fumarate reductase flavoprotein C-term	Domain	Interproscan
PF00890 all species →	FAD_binding_2	FAD binding domain	Family	Interproscan
PF01026 all species →	TatD_DNase	TatD related DNase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003952 all species →	Binding_site	Fumarate reductase/succinate dehydrogenase, FAD-binding site	Interproscan
IPR027477 all species →	Homologous_superfamily	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain superfamily	Interproscan
IPR001130 all species →	Family	3'-5' ssDNA/RNA exonuclease TatD-like	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR015991 all species →	Family	Hydrolase TatD/YcfH-like	Interproscan
IPR015939 all species →	Domain	Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal	Interproscan
IPR003953 all species →	Domain	FAD-dependent oxidoreductase 2, FAD binding domain	Interproscan
IPR032466 all species →	Homologous_superfamily	Metal-dependent hydrolase	Interproscan
IPR037099 all species →	Homologous_superfamily	Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain superfamily	Interproscan
IPR030664 all species →	Family	FAD-dependent oxidoreductase SdhA/FrdA/AprA	Interproscan
IPR034804 all species →	Homologous_superfamily	Fumarate reductase/succinate dehydrogenase, transmembrane subunit	Interproscan
IPR011280 all species →	Family	Succinate dehydrogenase/fumarate reductase flavoprotein subunit, low-GC Gram-positive bacteria	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11632 all species →	SUCCINATE DEHYDROGENASE 2 FLAVOPROTEIN SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0016788 all species →	Molecular Function	hydrolase activity, acting on ester bonds	Interproscan
GO:0004536 all species →	Molecular Function	DNA nuclease activity	Interproscan
GO:0000104 all species →	Molecular Function	succinate dehydrogenase activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0009055 all species →	Molecular Function	electron transfer activity	Interproscan
GO:0009061 all species →	Biological Process	anaerobic respiration	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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 scaffold121.g231.t1.

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

Co-expression network

Genes whose expression across the transcriptome samples of Morbakka virulenta tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Morbakka virulenta, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →