NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208178_1004633

Scaffold Ga0208178_1004633


Overview

Basic Information
Taxon OID3300027259 Open in IMG/M
Scaffold IDGa0208178_1004633 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1568A-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2511
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2861Long. (o)-123.7318Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001215Metagenome746Y
F034542Metagenome174Y

Sequences

Protein IDFamilyRBSSequence
Ga0208178_10046331F001215N/AIQLVRVGDLPSEDAALVEDITIVSNEGYPDNSGRRSVDLGLYVYAPNQAAPSTSAALMVGRVEVGLSGSTRGVPQSVQLFACNAPTPQVGDTNLLAPIQVGKSEGLYLEKGYILAVGYIGNGSTAVSGGLSPSGITIWSQGGFY
Ga0208178_10046332F034542AGGCGGVSRRRGSDNFNLRPFKATNPAELPKTVKGSDNTKELNSPLPFKRRFRPALNTKDFSVTSEYDYASLWVRWRRGYELSMYSQQAYGGLTYSFKYFVSGTPGLGVFLPGMCFMYPTTRTDMRMHMVGIRPRDSFNFLNFGYSIVSVTDYDANTYAVRLSSNFGAPISFFTGEVLSNRFRADGTDKEYGFNNYTVTAVGINNVPVNPSYAPIFNTLFLSHGESTSWAVVDENTLAIPATGPPAVGEYLTTEMRSQCTCSDFLARENFNLYDASIRKYPRTRPQNFDPGYYDAGVDGSPRLVDSSDNPGFARTFGFIYINQIYNIPSFSEATYSDPNFFYYQPKWCKHIYAAMWDMQRAYNQGVATGPWLPQPTDEPLNEYYREYFEKELARQTTFLKREKDLVWWQRYSPAKDDMPTHMMYPDMYNMMTKTLNAGDLAALNTLQGRSFEMFTIDEFNPFDPASFVVNTYDGGTYENGVLVNQPTNIFDGGQYLNGVIVPPAGFPSLINGGVY

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