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_10000079

Scaffold Ga0307512_10000079


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10000079 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)114799
Total Scaffold Genes143 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)100 (69.93%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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?
F004778Metagenome423Y
F004891Metagenome / Metatranscriptome419Y
F006048Metagenome382Y
F010438Metagenome303Y
F036505Metagenome169Y
F047400Metagenome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_10000079112F004778N/AVLDRFELTDGRLLGITTDNAAPNYSMTRELPSTLEASAIQWPALMNHIPFMAHVVQLALVAFMCSLGVKGRTKTWEAHECNQQFGENESIDIGKSQRFQKESNARINEVSAMNQGLAKIIEKVRIL
Ga0307512_1000007962F036505N/AMTRESHTTLEASGIEWPTLRNYIPCMAHVIQLSLGALISSLGVKGRTKSWEAHERDQQFGENASTDIGKTQRRRKEGNVRINQVWAIRPGLEKIIEKVCISRYFECPETDLHRAENACCSNNTDTWSSKRVH
Ga0307512_1000007979F047400GGAMNTYVLLPLPESMAQHGASIHDQWRGYVAVLVVNHGIIKSISILTAVIRPMIKFDVDKQRDCFRQEVKCTLAIR
Ga0307512_1000007980F006048AGGAGMLNQRPTLDITRSNRYQVRAQVDNVESHSIQSARENIAELYDHNRFESATERLEFIDSLPADNKYLFPIAEHVEGGVCGPNPTQRKSKAANEWLAYTLLPGGSNPAVYLRQILSLGE
Ga0307512_1000007981F010438GGAMLNGRPFMSATDLETVSYAMRCVSKALAEGPHWQIIDTYWNTAMQHKNIWSIAFEARTKEILKEVC
Ga0307512_1000007982F004891AGGAGMSAWASGLGMREGRFSRPQRGVGVITMPDAGLDTTRRVEVPPGAGLLRLLVPGVAVGVFIDHRCVAAGVEVTG
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