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 Ga0063391_1002323

Scaffold Ga0063391_1002323


Overview

Basic Information
Taxon OID3300003937 Open in IMG/M
Scaffold IDGa0063391_1002323 Open in IMG/M
Source Dataset NameSPOT_150m_metagenome_year
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of California, Davis
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42506
Total Scaffold Genes78 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)56 (71.79%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Aphotic Zone → Marine → Marine Microbial Communities From The San Pedro Channel, Pacific Ocean In The San Pedro Ocean Time-Series (Spot) Study

Source Dataset Sampling Location
Location NameSan Pedro Channel, Pacific
CoordinatesLat. (o)33.55Long. (o)-118.42Alt. (m)Depth (m)890
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010695Metagenome / Metatranscriptome300Y
F011311Metagenome / Metatranscriptome292Y
F011679Metagenome / Metatranscriptome288Y

Sequences

Protein IDFamilyRBSSequence
Ga0063391_100232340F011311AGGAGMFVIVNKKNGSIHREPSKRSYASTEYKSAGAAKAGITRTIKFYNKAIADVKAVVKSGKSEFYSPYYNHFRDATDKALGRTHRADVNNYKVVPLAEYKEPMITRTGTCPGTGKKITVTEGINPLSESYWSM*
Ga0063391_100232341F010695AGGAGMQNVNTTNQNPDKIVSIPGYHIGSLTCYNANNDDSANIQLTALEEMWYSHEENVDHPEGSEYPVSINVPHMKIMRDRVIDSVFNRTGINVRDFDSIIHASSSPGRDENGNIIDHGNENVVRNV*
Ga0063391_100232342F011679GAGGMIKDRNTTVLASDIQTTEQMKKFLVHCTGAKLTPVANNNDAFWISGDNRGNFYENKYYKVVFGYVTEEFRAGKPTKSGYGFDIQATGDYNAWSLMGEFRTMIKEAMAEYKQTQSA*
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