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 Ga0307507_10000094

Scaffold Ga0307507_10000094


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000094 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)140465
Total Scaffold Genes53 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (56.60%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (37.50%)
Associated Families8

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)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000247Metagenome1464Y
F000746Metagenome908Y
F002793Metagenome529Y
F007161Metagenome356Y
F016500Metagenome246Y
F032886Metagenome178Y
F056201Metagenome137Y
F096350Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000009414F000247GGAVHTYIISVALSYKRILRMEVAHTNCLTGSLSIYIGKTPVSSSGVPFAYLSIDGKPYYNSGLFLNKSIDLTSTSL
Ga0307507_1000009430F096350AGGMARSVCFFSAKAFLISAIITAKIICSSFLVSYISGVALII
Ga0307507_1000009433F002793N/AMDITPLVNNLEILGIFKDENKEEGDGVIDTLSIML
Ga0307507_1000009435F056201N/AMAPSRSIELRGPNTLARKISYRRVPRGIIVVELPREYLSIAYKGKEKN
Ga0307507_1000009436F032886GGAMIIKLEYLLISSNKGKREANWGHLNLNNATEAETETTIKCSSVMGIIIPLDIASITL
Ga0307507_1000009442F000746N/AMIITRLIEYIIAVVGDTVEGTISVNHKVIVEVLIEVYFKVIAKRSTIFARSQIAS
Ga0307507_1000009445F016500N/AMDKLIVEIIKAKKGLGPFYSIRGLLVMDCLNLLRVNFNPFYANNEPKVLYAFYSKFTFLNINL
Ga0307507_1000009447F007161N/AVLQYLINRCKLNRRLVLELGLKVLLGVPNGLTKEVKHFGFLRGEIVIVNIELSLYLDPLILKGRVYPIR

 ⦗Top⦘



© 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.