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 Ga0210394_10000012

Scaffold Ga0210394_10000012


Overview

Basic Information
Taxon OID3300021420 Open in IMG/M
Scaffold IDGa0210394_10000012 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)481022
Total Scaffold Genes413 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)318 (77.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000208Metagenome / Metatranscriptome1593Y
F000281Metagenome / Metatranscriptome1382Y
F001247Metagenome / Metatranscriptome737Y
F002012Metagenome / Metatranscriptome604Y
F003084Metagenome / Metatranscriptome508Y
F003874Metagenome / Metatranscriptome464Y
F012243Metagenome / Metatranscriptome282Y

Sequences

Protein IDFamilyRBSSequence
Ga0210394_10000012169F012243N/AMNLLEWYIPLGLLVLLLGVLVRAHAYKVCPCFFSYVTFASVAGAVRFLVRNQPAYYATYWITEAGYDILGILVMYEVLRTLPGTSTRAWWARLIFPSVVLVGIAMSLARTDAVPTRIVGLPHYMVVGEIAVRFVQVFVFAILVTLVPLLGLRWRQYSFGIATGFGLYATVMLLTTIKFSDFGTTFKLLWGWTSLVAYSVAVLIWIWFFSVPQKVTTSELSAPAPGVLKEYKDALRRMR
Ga0210394_10000012309F002012N/AMALSPTTFVMCGFTRTRAALSLHNLLSTHSAALAVLVMLQRHSGRRNDVYNILWAVVFGFATLNILSLAARRFEPNRRGLTFGELMAVLIVLLSIFLLGWELLGVFHIFPIKLHR
Ga0210394_10000012390F001247AGCAGGMRRPTKTRRLRPGKSLQGKDNEAEDMEGHRQHGKQASLESGLEKKEVLKPSHISPKDFIHWLAAESRVDDDSLRSLFKQ
Ga0210394_10000012397F000281N/AMQNPVKERIVKLREEIAQISEANRLYLHGGKKKIPGSAGDHERRLQRLQEILDELVALTDWKKL
Ga0210394_10000012407F000208GAGGMRIRVTTRADLYEKRKQEHTERGYRIEDECPIPANGFCSFVAVRELPASDGLSELVAQALGGSHGARGDW
Ga0210394_1000001254F003874GGAGMSVKRFTIWAVVAVCIFAVHATAQKNELSGMLGRTLISDQRIPGAPSYDPDLRFGDGLTFELNYARHLMGGELLSLSLEVPFVVNADEDLHTAQNVIPKQYSSYFVTPAARVNLFPEQAVSPWVSLGGGLGHFGASSTLEFGNLPNLGKTGTNTGVLQVGFGLDVRLFKRFTLRGEFREFWSGEPQLNVITTSSRQANQFVAGGVVWKF
Ga0210394_1000001284F003084GGAGGMSGKPAAVAILAVMMFVLGSTAAAQEEKNELTGILGRTFISDQGLHGLNAPALNPFIRSGKGLSFEINYARTLLVTPVFSVAAEVPVVFNLDQDIGSGGDVVPTGYRQIFVTPSARLNLFPATAVSPWVSLGGGFGHFSEDKTLIFGGTNPGGSSTTGVLQGGIGLDVRVWHRFSIRGQVRDFWSGTPNFPLADTGKTRQHNFFVGGGVLWHF
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© 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.