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 P_2C_Liq_3_UnCtyDRAFT_100416

Scaffold P_2C_Liq_3_UnCtyDRAFT_100416


Overview

Basic Information
Taxon OID3300000369 Open in IMG/M
Scaffold IDP_2C_Liq_3_UnCtyDRAFT_100416 Open in IMG/M
Source Dataset NameMarine microbial community from Union City, CA, USA - Pond 2C Liquid 3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)12928
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (78.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Enviromental → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico

Source Dataset Sampling Location
Location NameEden Landing Ponds, San Francisco, CA, USA
CoordinatesLat. (o)37.568817Long. (o)-122.10315Alt. (m)Depth (m).11
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003440Metagenome / Metatranscriptome486Y
F043624Metagenome / Metatranscriptome156Y
F084310Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
P_2C_Liq_3_UnCtyDRAFT_10041617F084310GAGGMTPVETFEYKQLWKPGYTVRLHSDVVDRGKTWCKRVCERHQWSVTTWTANYEHTFHFEHQEHAEKFITAMGEYANQTN*
P_2C_Liq_3_UnCtyDRAFT_10041631F043624AGGAMVNKIYKVEDIFEDIDGDPENVLMNIPEEVSEKMGWEPGDTLKIKIEKGVITITKVDDGQE*
P_2C_Liq_3_UnCtyDRAFT_10041637F003440N/AMRYYLGQCEYKWTHANTDMEKLWVQRELGTELFKTIESNNWCWVLLRSSSISLPGDTYCRTMIYVDSNDDKLDTHFVLKYPQAKPLEQV*
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