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 Ga0334987_0005360

Scaffold Ga0334987_0005360


Overview

Basic Information
Taxon OID3300034061 Open in IMG/M
Scaffold IDGa0334987_0005360 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Sep2004-rr0028
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12253
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (24.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (28.57%)
Associated Families7

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007859Metagenome / Metatranscriptome343Y
F009135Metagenome / Metatranscriptome322Y
F010081Metagenome / Metatranscriptome308Y
F019468Metagenome / Metatranscriptome229N
F019476Metagenome / Metatranscriptome229N
F042296Metagenome / Metatranscriptome158Y
F072270Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0334987_0005360_11755_12213F019468N/AMTIEKTYKLTIKDVYYYLDEKELNALYEQCRMALNINKDLPTTNPVTPTIPYPYDTYPWYTPKYPNDTGYPYWTGPTTTCGTINAGEGICVMDTNWQPNLCNTVKSSNDINFLSDDMAVHEDNQKWRSSVQQALDKLSAKTNVTTSDGTTIR
Ga0334987_0005360_4449_5117F072270GAGMKLETMDLNVFLTHLSNISALEYLLEILPKCNVDGPWIAGGCLHRTYRKLPLENADVDIFFKNKEQFEQFVSAMSLSSLTVGYEIKSTIFSEWHCTLTIKYMDVDWKIQCVTFKYFDNIELLFKSFDINVCRIAYDGNNIIYEDTVLNDIKENKLKFNDGSIYYPSVTLKRLVKYIKMGYDIDDIHLKSLTHAFYKSKKKEIDILDQDLITKKTIDTYKGLN
Ga0334987_0005360_8146_8340F019476N/AMNDNKVKTARIVLEIEWTSVDPTLDLPALWDWKRIKIPMSLDKVKYIGIQPQNGPENVTNWMGN
Ga0334987_0005360_8811_9002F009135N/AMNKPKYYLTINLPPNFDEVDADTIKNDLMTYINSKNQYGAMYGPKSSKKGITIDKVIYRTNED
Ga0334987_0005360_9248_9490F042296N/AMNLFKSIIKWTGVIVYAAFLATVAYAATMPEPIKLYVIYTYKFNERVIEKIYMKKENAQKYCDTYKDSHNYTFEEITISE
Ga0334987_0005360_9487_9744F007859GAGMNKLLIILLLCTGCSGTSMFLRYSYNRSLENLPPCSKVHAINNDYITYSMVEDSTNSVYVINTNYYKAYYTTEGSIYKTVKTNAK
Ga0334987_0005360_9734_9943F010081N/AMQSKIDNIIKDYTEKMQEVNKTKSIPMIVKELDGIVYDMYRELYGLRDIRSNNYYLNSFIADDKKGHCC

 ⦗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.