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_10001652

Scaffold Ga0307507_10001652


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001652 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)49380
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (30.77%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
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)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F002555Metagenome548Y
F006298Metagenome376Y
F035578Metagenome171Y
F060493Metagenome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100016521F060493N/AMRKDFVVLMLSLDISGAYNNIPYKHLLYILRAKGFLE
Ga0307507_1000165210F006298N/AMERRLVIKDSNGLYTIYLTILSEVLVKKVVLNFYIYKELFNLVNLTLKIFFTFILNQEALEVGRSNLIISNVSCALAKLIIYLLLSIKRVPS
Ga0307507_1000165211F035578GGAMVAGVGDTVKGTINVNYKAIVEVLMEVYLKTINRRNATFIRS
Ga0307507_1000165212F002555AGTAGMLGIFKDKDKEEGDSIMDALSTMLWLLGEELEEAS
Ga0307507_100016522F000630GGAMLERRIGVKGIEADLGKRNPSHGIVNAIGGKHLRALRRPNKGRKHNSNTFKNRDNRTKRLALLGRCPSRQPKIRI
Ga0307507_100016523F060493N/AMRKDFIVLMLSLDISGAYNNIPYKRLLYILREKGFLE

 ⦗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.