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
Sample 3300023048

3300023048: Leaf litter microbial communities from Shasta-Trinity National Forest, California, United States - GEON-DECOMP-247



Overview

Basic Information
IMG/M Taxon OID3300023048 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0132900 | Gp0272144 | Ga0233341
Sample NameLeaf litter microbial communities from Shasta-Trinity National Forest, California, United States - GEON-DECOMP-247
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size146497556
Sequencing Scaffolds9
Novel Protein Genes9
Associated Families6

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina1
All Organisms → cellular organisms → Eukaryota1
Not Available5
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Hypocreaceae → Trichoderma → Trichoderma gamsii1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil And Plant Litter Microbial Communities From Temperate Forests In California, United States
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Leaf Litter → Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States

Alternative Ecosystem Assignments
Environment Ontology (ENVO)forest biome → litter layer → plant litter
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationUSA: California
CoordinatesLat. (o)40.2198Long. (o)-122.9842Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030315Metagenome / Metatranscriptome185Y
F059667Metagenome / Metatranscriptome133Y
F085914Metagenome / Metatranscriptome111N
F091248Metagenome107N
F092248Metagenome / Metatranscriptome107Y
F106076Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0233341_1004442All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina2760Open in IMG/M
Ga0233341_1009964All Organisms → cellular organisms → Eukaryota1683Open in IMG/M
Ga0233341_1012559Not Available1448Open in IMG/M
Ga0233341_1025786All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium910Open in IMG/M
Ga0233341_1031834Not Available802Open in IMG/M
Ga0233341_1032674Not Available790Open in IMG/M
Ga0233341_1033824Not Available774Open in IMG/M
Ga0233341_1050810All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Hypocreaceae → Trichoderma → Trichoderma gamsii611Open in IMG/M
Ga0233341_1065263Not Available532Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0233341_1004442Ga0233341_10044425F059667KTKCKAKNLFKVALLTEKPPQRNSTISCPIHGIALIRLVITVAPHNDICP
Ga0233341_1009964Ga0233341_10099642F092248LLRLLLPLSDKVYLTSHIRVEPERSPEGSPDHSKSVGATGGVYKGQGRNQHKMMTYAY
Ga0233341_1012559Ga0233341_10125592F030315VIKYNEFIIIIKYENISLIKNDVDALKYKYRIGLDTLLVYTIKYEY
Ga0233341_1025786Ga0233341_10257861F085914MKGMFGKTLARHFSLPRSTSLLLKSKSPAQVAMTRVTMPSGFPGPTPPIPPEQAFSVSVHLRRPDNAKGWGA
Ga0233341_1031834Ga0233341_10318341F091248MFANSNCLMIKCYTWQEELTMSKRQKKKAPMVEEQSAIEVVTQTEYIYEDTQCVSGVEPEYKWDEIYRLISRREVPDMGLEEEPIYANIEKSAIMKVATRPELFPCSDVMRWILPHTNNNTMLIGNVEGQGYAAFSPGYVALAYHLPEPQIFLSNDWLDNLRMDLVETLKRMLLPGKLYRHRATEDYDTASLRAPYRFVALMLNRIFGRASGRLFKFEWVPIMFHVVTQGTIFNWASLVS
Ga0233341_1032674Ga0233341_10326741F091248DALEKIITAALCSQFELLNIMMFTWQEKSTMSKRQKKKAPAVEEVPAAEVETKTEYIYEDTQCVTGVEPEYKWGDIYRLISRREVPDMGLEEAPIYTNIEKSAIMKVATRPELFPCPEVMRWVLPNTNHNSMLMCNVEGQGYAAFSPGYVALAYHLPEPQLFLTNEWLDSLRMDFVETMKRMLLPGKLYRHRATEEYDTASLRPTYRFIALMLNWIFGRTNGRLLKFEWIPLMFYVATEGTIFNWESIVSSSLSSFVAAALEG
Ga0233341_1033824Ga0233341_10338241F091248MSKRQKKKAPAVEEVPAPDTEARIEYIYEDTQCVTGVEPEYKWGDVYRMISRREVPDMGLEEAPIYANIEKSAIMKVATRPELFPCSELMRWVLPHTNHNSMLICNVDGQGYAAFSPGYVALAYHLPEPQLFLTDRWLDDLRMDLVETLKRMLLPGKIFRHRVTEDYDTATLRPTYRFIALMLNRIFGRANGRLFKFEWVPLMFFIATEGTIFNWASIVSSNLSSCVAAASKGKE
Ga0233341_1050810Ga0233341_10508101F106076PSLIVNEETVYSTPWKPVNITANIIVNNNPYKAPLLFPCIKEWCAYVTVTPLDSNSTVLSKGSSKGLIASIPIGGHXAPNSTVGDKALXKKAQNIAKKNKASDAINKATPMFNPLWTANVWFPKYVPSLITSLNQNDIEEISNIKANTKKYPALEKPCITDTAVVVNVSNDILVYRGQKEGDTKXKGXAXKLLLIMFVITFFC
Ga0233341_1065263Ga0233341_10652631F091248QKRKAPAVEEQTAIKVVPQKEYIYEDTECIFGIEPEYKWGEIYRLISRREVRDTGLEEEPIYANIEKSAIMKVATRPELFPCSDVMRWILPHTNNNTMLMGNVEGQGYAAFSPGYVALAYHLPEPQVFLSNDWLDNLRMDLVETLRRMLLPGKLYRHRATEDYDTASLRAPYRFIAL
 ⦗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.