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 Ga0151620_1000008

Scaffold Ga0151620_1000008


Overview

Basic Information
Taxon OID3300011268 Open in IMG/M
Scaffold IDGa0151620_1000008 Open in IMG/M
Source Dataset NameSub-surface freshwater microbial communities from San Francisco Estuary Delta, California, USA . Combined Assembly of Gp0173482, Gp0175554, Gp0175555
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterOregon State University
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)74954
Total Scaffold Genes74 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)46 (62.16%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lotic → Unclassified → Freshwater → The Molecular Ecology Of Microcystis Sp. Blooms In The San Francisco Estuary Delta

Source Dataset Sampling Location
Location NameSan Francisco Estuary Delta, California, USA
CoordinatesLat. (o)37.986944Long. (o)-121.523611Alt. (m)Depth (m).2
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001881Metagenome / Metatranscriptome622Y
F008358Metagenome / Metatranscriptome334Y
F037191Metagenome / Metatranscriptome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0151620_100000817F001881AGGAGMTERSQAFVNKIWELRNAGADTEEKLVAAVLRVAAENTVSYTAQNGLIVLDKNDILQLAQELEE*
Ga0151620_100000821F008358N/AMNANYIYLIIFFCIAYLIITDQSVARAFYMFTQLVRVQYEKVKWWAVHNPANPIVKYLMWRRAYKLAEELQKEILERQNEKTKNSNNVETDR*
Ga0151620_10000089F037191GAGGMTVAEWIEKLKHFPQDQEVRITDGFKYHFYEGDFDFQLFEDVDGSTFVDIGIGGFDEDEE
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