NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0308411_10002945

Scaffold Ga0308411_10002945


Overview

Basic Information
Taxon OID3300031812 Open in IMG/M
Scaffold IDGa0308411_10002945 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20070728_OST2-BottomLayer
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11440
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (93.75%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Thermal Springs → Hot (42-90C) → Unclassified → Hot Spring Phototrophic Mat → Phototrophic Mat Microbial And Viral Communities From Various Hot Springs In Yellowstone National Park, Wyoming, United States

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5341Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002970Metagenome / Metatranscriptome517N
F005302Metagenome / Metatranscriptome405Y
F007404Metagenome / Metatranscriptome351Y
F012577Metagenome / Metatranscriptome279Y
F014738Metagenome / Metatranscriptome260Y
F072382Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0308411_1000294514F005302AGGAGGMSHSGVLAGLYAGNFAVEISTDTTTWTAVSNATVKIDDVELNRPSGEAYVGGSSDYATVTVGKREPVELTLTFLYNEASNSAANTVFDRFQSATPTLAVRWSPRGLVSQARAYATSNDGGAATGLGVITNVTLSTLDPSDAEPYVAMVTVRTPSLRQYTLGNSPTDLS
Ga0308411_1000294515F002970GGAGMSYSAVTDIIELLAGLAVQYNSAVVPVRRLSTQPNWSDAAQLPVRIIPVLGGLRLVEGGVYTPTRATRAVWEIDDLLLVRDVGMGRGVADTATALVDYIEDYVARLRFAWLARGDVQLLNVSGIVDVVRYGERAYEGVAMTTRFAHLVRAPSV
Ga0308411_100029454F072382AGGAGGMKTVYHTKDVYFPPFSIKIEPEQGTWFADVYVRYTNAPNDKYSAYIGANDFLAGTPIPARYRRDLAKAIESLVFDYGLVDLVIYPTREGWGVRITLCPELENQYLFGTGETPADAIRNSNYPPPLWNV
Ga0308411_100029455F014738GGAGGMKLDILLLVSAFALAFVHPDAAQVAATAVLLLLVTRIERGRRARKKKSAPVAH
Ga0308411_100029456F007404AGGAGMDIIEIFQLLAAGHVGLTATDYLWNAVFGAIGAATAYLADNEGEVILPRYDAEQHSVELGALGRVLTGAGAGVLVGYSGYVPFVAGVVAPTLLPALIDKIAGFVERRRK
Ga0308411_100029459F012577AGGAGGMLVAIAEPHQQFPVPLTVADYEFSTFDDGDERGRVTLPPGYARSGVMTQIGDELIVYCTQLSRTVWRGQIERIEEARDGGITWHALGFGALQREARISVVQNMTDAKKWKPVNPGFMPNSGYDSRPDLWDYEFVPVGGFIYIRIRTKRTFTISNTTLFFVAYLYDQPERYATITSSERIYVGVFLTGLASGVWVAPVTAIPQPNAYTLTLGAFTSIDNEGVVTASTCYGWVVGVRASGNETTVGATSVAFLVRINDPASGGINAGSLSTALIARGGCCDIYLPPQTIVDIENPNANLREIIEHVRTDYSSVRYHLKRFLRDRPLPTIDFRTDSTLVWRFPETTRVVDISKAPSRIFTQHRGYWTDHLTATTTIQSLESRRQLARRVAGVGEYGSKTTADARRDEAAIAMDRQIAPITVELDNSRYELMTREGVAVPNWAADVSDYAIVPGYYRNAKITARVITRERTTYTVSFNPDDFVTALR
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.