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 Ga0307512_10000910

Scaffold Ga0307512_10000910


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000910 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)43495
Total Scaffold Genes64 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (50.00%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008227Metagenome336Y
F008531Metagenome332Y
F019765Metagenome227Y
F038958Metagenome164Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000091014F019765GAGMQVMDNMEVSCVFYVKVSTFTHLERSKIALLSVNDTSIMTLTVQHDMLVSVSFM
Ga0307512_1000091015F008227N/AMDTQPPPLCESGANTCRLVGATSNTERLGTQQESRQKSVHRDAANVATKHMTQDAHLKIVRKTGSSQKKKQHAVGCEYILIVANGGQLTV
Ga0307512_1000091023F008531GAGGMSSLGVKGCTKSWEAHERDQQFGENASMDIGKSQRIRQESNARINKVSAMKPGLAKIIEKVCIS
Ga0307512_1000091029F019765GAGMLQVIDNMEASCVFFVKVGTFTHIQKSNISLLTVNNSGIVTLTVQHNMIVSVIFMQYP
Ga0307512_1000091030F008227AGTAGMDTQPPPPGESGSNTGRLAGATSNTDLLGTQQECRHKLVYRDDANAATKHMTHDAHLKIIRKTGSRNNKTQHAVGCENIHIEVKGSQLTE
Ga0307512_1000091031F088003N/AMEHHDVVSSEMFLDEFPDKHPREWTKQALITPEEAIEAYMVEVTAEFHC
Ga0307512_100009108F008531AGGMSSLGVNGRTKSGEAHEHNQQFGEHESIDIGKSQRLRKEGNTRINKVSAMRPRLAKIIEKVRIS
Ga0307512_100009109F038958N/AMTDVMASLFVDVDPSKAKLTLFRSGNSFLIASTVSAHSLWQMLLWVVADGRTKSPRNALYDSHSSRFDKAFHGISAETNPNMRSRFDVSW

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