Scaffold Ga0256308

Basic Information
Taxon OID	3300024549 Open in IMG/M
Scaffold ID	Ga0256308_1000293 Open in IMG/M
Source Dataset Name	Metatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepC_8d (Metagenome Metatranscriptome)
Source Dataset Category	Metatranscriptome
Source Dataset Use Policy	Open
Sequencing Center	DOE Joint Genome Institute (JGI)
Sequencing Status	Permanent Draft

Basic Information

Taxon OID

Scaffold ID

Source Dataset Name

Metatranscriptome of freshwater microbial communities from Columbia River, Oregon, United States - Colum_Atlam_RepC_8d (Metagenome Metatranscriptome)

Source Dataset Category

Metatranscriptome

Source Dataset Use Policy

Open

Sequencing Center

DOE Joint Genome Institute (JGI)

Sequencing Status

Permanent Draft

Scaffold Components
Scaffold Length (bps)	8162
Total Scaffold Genes	16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)	6 (37.50%)
Novel Protein Genes	4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)	2 (50.00%)
Associated Families	4

Scaffold Components

Scaffold Length (bps)

8162

Total Scaffold Genes

16 (view)

Total Scaffold Genes with Ribosome Binding Sites (RBS)

6 (37.50%)

Novel Protein Genes

4 (view)

Novel Protein Genes with Ribosome Binding Sites (RBS)

2 (50.00%)

Associated Families

Taxonomy
All Organisms → cellular organisms → Bacteria	(Source: UniRef50)

Taxonomy

All Organisms → cellular organisms → Bacteria

(Source: UniRef50)

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Ecosystem

Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location Name	USA: Oregon
Coordinates	Lat. (^o)	46.1812	Long. (^o)	-123.1834	Alt. (m)	Depth (m)	5
Location on Map

Zoom:	Powered by OpenStreetMap^©

Source Dataset Sampling Location

Location Name

USA: Oregon

Coordinates

Lat. (^o)

46.1812

Long. (^o)

-123.1834

Alt. (m)

Depth (m)

Location on Map

Zoom:

Associated Families

Family	Category	Number of Sequences	3D Structure?
F028149	Metagenome / Metatranscriptome	192	N
F083941	Metagenome / Metatranscriptome	112	N
F085631	Metagenome / Metatranscriptome	111	Y
F090287	Metagenome / Metatranscriptome	108	Y

Sequences

Protein ID	Family	RBS	Sequence
Ga0256308_100029310	F028149	AGGAG	MASGNVISCKQFASFLVSQEPVYDKEVLKDIRPFDGMIGYYNTGSFDAYSGTTHTFDRFNSVFPNVTGSWENPTGASCTGQPCDPTENKIGWGWTRSTYNLEKQSWGSDILCFDQIMTKTKAKEHFRQIIDDVLRPATNWITTYYLQRKAMELSSYSASGISGNAFACAAGLPPVIYSWVGAGYTRLRVTNAALAPITAASLGRLTPEILQSRVTRQYFLGAIQAGKEGYDSLQLHTDKDTFRYLQKTNATLYDAWRFGVFAPAAKEFYKYGFMGFVGDFMVKVLQFPLRFNATTTPGEYTLVLPYKNVAATEGIKSVFNEDYDRSQFQVSYINNPRALRVMPFRPEAVNPNMPFMVRDYGGRWKFATNDLGADCAGKPIDNSRGNKGKFIADFQLAVKAEHPEWLEAIFHKVDRGCLEILPVCETDPGDPAQSYNSADPVCPSVIQFTAVINDADPARYVIGTTGIMCDDNIVANAGISAASVAALVVALQAAWDAEFGAGQGTWSVVSGNLIQLAGSSCTNVTLEFSI
Ga0256308_100029311	F085631	N/A	MSNTIRVSHRLPIEVAQMLEDEAIRSRRTKTAVLIIAIEDHVLRGEDDLPEVIKKPVDTRKSR
Ga0256308_10002934	F083941	N/A	MPEESLHNLEVRIVRLETIIGDKDAGMVSDIHGIKATLEGLKQFQWKLFGGLGVLVVLAQLIGRMTLK
Ga0256308_10002938	F090287	AGGAGG	MPALTSQEIASLSGCFDCLSPGVKDTYMVTLLQQIQAGQPGASLTTTSPGGLQTTLAVSAVNSLRKRFILQNQKNELLYMKFGTGATVSDYHLELNKHNPSGGTISSPIETNGYVGAISVASASGTVSYVFSEFV

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

Scaffold Ga0256308_1000293

Overview

Ecosystem & Geography

Associated Families

Sequences