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 Ga0209067_10003206

Scaffold Ga0209067_10003206


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10003206 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2013 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9449
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001643Metagenome / Metatranscriptome659Y
F020070Metagenome226Y
F048483Metagenome148Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_1000320610F020070GGTGGMPASNTHARSASVALPSGDGCRASSVVAFGCVLVVIGAFCFCPGVFAQTSDSRTAEEPTKSWTATKDLKSDDLIPERIPVRIIESHSQNGNRTLDKRSVEIRGTDGNFETYQDVERETLTVDASTVRTTTRTFARDVNGMTALVQVTEEEKHILPGDDSNIVRVTYNPDVNRRPQPVQREIVETKKNGKGLEETNTTVMLPSVSGGLAPAFKTHELRKRAENDTVETEKTTWLPDVNGKWQVSEIRQDTTTQEAKDRSIEERVFRPDAEGKLGQISRVVSQETESTSGEKRSVVETYSIDVPGTTRDGSLHLVERKTSTGSSSSTGERATEQRIEQINPGDPGSGLRVSVLVEGKIVPERSGEQSTVTIRARDSNGSFGIVSVDTTKADRIPAVQIQQTPAQKP
Ga0209067_1000320611F001643GGAGMLGELMNIPTDTLIDMLYIILAGEVAISAGDVAEIEQIQRELQRRGGEQCWSFQTVN
Ga0209067_100032069F048483AGGAGGMCSPMLTVQAALTSASLGQGACCDIGPSVHEKYEAEFNPVHMNWVLVDDIKGNPQAQMRWVVDR
 ⦗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.