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 rumenHiSeq_NODE_1588622_len_86230_cov_1_074394

Scaffold rumenHiSeq_NODE_1588622_len_86230_cov_1_074394


Overview

Basic Information
Taxon OID2061766007 Open in IMG/M
Scaffold IDrumenHiSeq_NODE_1588622_len_86230_cov_1_074394 Open in IMG/M
Source Dataset NameBovine rumen microbial communities fromthe University of Illinois at Urbana-Champaign, USA, that are switchgrass associated - Sample 470
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)86280
Total Scaffold Genes176 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)119 (67.61%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Mammals → Digestive System → Foregut → Rumen → Bovine Rumen → Switchgrass-Associated Bovine Rumen Microbial Communities From Urbana, Illinois, Usa

Source Dataset Sampling Location
Location NameUniversity of Illinois at Urbana - Champaign, Illinois, USA
CoordinatesLat. (o)40.096Long. (o)-88.2315Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012184Metagenome / Metatranscriptome282Y
F049349Metagenome / Metatranscriptome146Y
F065312Metagenome / Metatranscriptome127Y
F086398Metagenome / Metatranscriptome110Y
F087968Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
_HiSeq_11133760F049349GAGGMEEFGCFYCWDTKKKKEKDYLYFFDAANNLRQCDYCPKCGRKYGEETVNEYLESIEPK
_HiSeq_11134760F012184AGGAGGMNKSEILSTILGLPGASMARQNKTNFVVIPCDDGIVKVSVGMALAEDTKAHKAFNLEAATAEYRAWEAEGIARAAEKANKPVKVKGPNPEAQARRDELDAKVSALPSFTDYTATDIMNALAGQIAENVTVMAVGSSAMRLVDKGILSMSLDEKKKKHYTKA
_HiSeq_11135040F065312AGGAGMSKKPKVTPKTWTEVFQSQRKEFPQGYCVTRVIPDKRYKKPKYKGRELDY
_HiSeq_11135070F086398AGGAGMNEQMTYHVRVERAERVKHIVEEIGIGQIIKEKYIGYGIGGQAGRYLCLTDTGITIIKDEAKIKIITMYVTTQRELVAVFGGTKKIPPFLKKKVDRNQSKYTERGKTIWQS
_HiSeq_11135090F087968AGGAMVKITKALAKKMYDEGEEVMIIPNKIRPASMLASWYHKSAEADDTFEKLCNIIFYYNCSPETGMSLTYYAKEV
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