3300000374: Marine sediment microbial community from Union City, CA, USA - Pond 1C Sediment 2

Overview

Basic Information

• IMG/M Taxon OID: 3300000374
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053056 | Gp0053697 | Ga0026668
• Sample Name: Marine sediment microbial community from Union City, CA, USA - Pond 1C Sediment 2
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 214760258
• Sequencing Scaffolds: 5
• Novel Protein Genes: 5
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	4
All Organisms → Viruses → Predicted Viral	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Sediment → Salt Pond → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): aquatic biome → lagoon → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Eden Landing Ponds, San Francisco, CA, USA
• Coordinates
  • Lat. (^o): 37.569083
  • Long. (^o): -122.103267
  • Alt. (m): N/A
  • Depth (m): .3

Associated Families

Family	Category	Number of Sequences	3D Structure?
F015275	Metagenome / Metatranscriptome	256	Y
F038111	Metagenome	166	N
F062246	Metagenome	131	Y
F078611	Metagenome	116	Y
F100426	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
P_1C_Sed_2_UnCtyDRAFT_1005819	Not Available	2789
P_1C_Sed_2_UnCtyDRAFT_1020863	All Organisms → Viruses → Predicted Viral	1257
P_1C_Sed_2_UnCtyDRAFT_1043920	Not Available	785
P_1C_Sed_2_UnCtyDRAFT_1060628	Not Available	648
P_1C_Sed_2_UnCtyDRAFT_1064728	Not Available	623

Sequences

Scaffold ID	Protein ID	Family	Sequence
P_1C_Sed_2_UnCtyDRAFT_1005819	P_1C_Sed_2_UnCtyDRAFT_10058196	F078611	MNNRTTINIDKELREILKSKRKYKRETYDEVLKRILKDKQKMRGMK*
P_1C_Sed_2_UnCtyDRAFT_1020863	P_1C_Sed_2_UnCtyDRAFT_10208632	F038111	MIPSKVAVANKPEYTIWLENYKNIATFIHADVYKYNKTIRQEFGKDLDLLADLHNSPLYVLTHKDNKKLKKFMSIYGLVLDHTPLCDDGIEREVYRLDRRQ*
P_1C_Sed_2_UnCtyDRAFT_1043920	P_1C_Sed_2_UnCtyDRAFT_10439202	F015275	MKAEYGFIDPGAIMGVVVSLIILAVGVFAFFVTLSEVSNVTDDENITSAVQNVSDTGNSVFNIIGIVLIIGAIMSIVGLVYNYVR*
P_1C_Sed_2_UnCtyDRAFT_1060628	P_1C_Sed_2_UnCtyDRAFT_10606282	F100426	MARNRIIYASQSVWVNGEVLYRVQSLGTTTTFTSEDVFELGHLDIIDVVDDVPAVDVTLNTNDFGDVKTLAVLAQVAPAKIDMDATADASNANLVAGGSTYLHGVALADFAVVCGN
P_1C_Sed_2_UnCtyDRAFT_1064728	P_1C_Sed_2_UnCtyDRAFT_10647282	F062246	MYVLHDFKYIFILIVFHMERKLREISGSYVITIPKQVCDLYGYKPNDVFKIEPIGGGELRLRKV*