Sample 3300027555

Overview

Basic Information
IMG/M Taxon OID	3300027555 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0053056 \| Gp0053725 \| Ga0207752
Sample Name	Marine sediment microbial community from Union City, CA, USA - Pond 2C Sediment 2 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	300195301
Sequencing Scaffolds	19
Novel Protein Genes	19
Associated Families	18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Archaea	7
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → Dehalococcoidales → Dehalococcoidaceae → Dehalococcoides → Dehalococcoides mccartyi	1
All Organisms → cellular organisms → Archaea → Euryarchaeota	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico
Type	Environmental
Taxonomy	Environmental → Aquatic → Marine → Unclassified → Unclassified → Enviromental → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	marine biome → pond → sediment
Earth Microbiome Project Ontology (EMPO)	Free-living → Saline → Water (saline)

Location Information
Location	Eden Landing Ponds, San Francisco, CA, USA
Coordinates	Lat. (^o)	37.569017	Long. (^o)	-122.102433	Alt. (m)	N/A	Depth (m)	.11
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F005815	Metagenome / Metatranscriptome	389	Y
F009854	Metagenome / Metatranscriptome	312	Y
F024682	Metagenome / Metatranscriptome	205	Y
F025653	Metagenome / Metatranscriptome	200	Y
F028081	Metagenome / Metatranscriptome	192	Y
F029294	Metagenome	189	Y
F038920	Metagenome / Metatranscriptome	165	Y
F048391	Metagenome / Metatranscriptome	148	Y
F058721	Metagenome / Metatranscriptome	134	Y
F060598	Metagenome / Metatranscriptome	132	Y
F068265	Metagenome	125	Y
F076229	Metagenome	118	N
F078220	Metagenome	116	Y
F091298	Metagenome / Metatranscriptome	107	Y
F094064	Metagenome / Metatranscriptome	106	N
F096272	Metagenome	105	Y
F096533	Metagenome	104	Y
F098703	Metagenome	103	Y

Family

Category

Number of Sequences

3D Structure?

F005815

Metagenome / Metatranscriptome

389

F009854

Metagenome / Metatranscriptome

312

F024682

Metagenome / Metatranscriptome

205

F025653

Metagenome / Metatranscriptome

200

F028081

Metagenome / Metatranscriptome

192

F029294

Metagenome

189

F038920

Metagenome / Metatranscriptome

165

F048391

Metagenome / Metatranscriptome

148

F058721

Metagenome / Metatranscriptome

134

F060598

Metagenome / Metatranscriptome

132

F068265

Metagenome

125

F076229

Metagenome

118

F078220

Metagenome

116

F091298

Metagenome / Metatranscriptome

107

F094064

Metagenome / Metatranscriptome

106

F096272

Metagenome

105

F096533

Metagenome

104

F098703

Metagenome

103

Scaffold	Taxonomy	Length	IMG/M Link
Ga0207752_1000309	All Organisms → cellular organisms → Bacteria	23304	Open in IMG/M
Ga0207752_1000492	All Organisms → cellular organisms → Archaea	18508	Open in IMG/M
Ga0207752_1001094	All Organisms → cellular organisms → Archaea	12598	Open in IMG/M
Ga0207752_1001097	All Organisms → cellular organisms → Archaea	12581	Open in IMG/M
Ga0207752_1001196	All Organisms → cellular organisms → Bacteria	12066	Open in IMG/M
Ga0207752_1001456	All Organisms → cellular organisms → Archaea	10775	Open in IMG/M
Ga0207752_1001553	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → Dehalococcoidales → Dehalococcoidaceae → Dehalococcoides → Dehalococcoides mccartyi	10333	Open in IMG/M
Ga0207752_1002145	All Organisms → cellular organisms → Archaea	8351	Open in IMG/M
Ga0207752_1002397	All Organisms → cellular organisms → Archaea	7699	Open in IMG/M
Ga0207752_1002908	All Organisms → cellular organisms → Archaea → Euryarchaeota	6740	Open in IMG/M
Ga0207752_1008654	All Organisms → cellular organisms → Archaea	2947	Open in IMG/M
Ga0207752_1008915	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	2880	Open in IMG/M
Ga0207752_1009650	All Organisms → cellular organisms → Bacteria	2702	Open in IMG/M
Ga0207752_1013255	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia	2142	Open in IMG/M
Ga0207752_1026369	Not Available	1349	Open in IMG/M
Ga0207752_1031317	Not Available	1213	Open in IMG/M
Ga0207752_1035218	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1129	Open in IMG/M
Ga0207752_1054188	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium	872	Open in IMG/M
Ga0207752_1097148	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	624	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0207752_1000309

All Organisms → cellular organisms → Bacteria

23304

Open in IMG/M

Ga0207752_1000492

All Organisms → cellular organisms → Archaea

18508

Open in IMG/M

Ga0207752_1001094

All Organisms → cellular organisms → Archaea

12598

Open in IMG/M

Ga0207752_1001097

All Organisms → cellular organisms → Archaea

12581

Open in IMG/M

Ga0207752_1001196

All Organisms → cellular organisms → Bacteria

12066

Open in IMG/M

Ga0207752_1001456

All Organisms → cellular organisms → Archaea

10775

Open in IMG/M

Ga0207752_1001553

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → Dehalococcoidales → Dehalococcoidaceae → Dehalococcoides → Dehalococcoides mccartyi

10333

Open in IMG/M

Ga0207752_1002145

All Organisms → cellular organisms → Archaea

8351

Open in IMG/M

Ga0207752_1002397

All Organisms → cellular organisms → Archaea

7699

Open in IMG/M

Ga0207752_1002908

All Organisms → cellular organisms → Archaea → Euryarchaeota

6740

Open in IMG/M

Ga0207752_1008654

All Organisms → cellular organisms → Archaea

2947

Open in IMG/M

Ga0207752_1008915

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi

2880

Open in IMG/M

Ga0207752_1009650

All Organisms → cellular organisms → Bacteria

2702

Open in IMG/M

Ga0207752_1013255

All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia

2142

Open in IMG/M

Ga0207752_1026369

Not Available

1349

Open in IMG/M

Ga0207752_1031317

Not Available

1213

Open in IMG/M

Ga0207752_1035218

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium

1129

Open in IMG/M

Ga0207752_1054188

All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium

872

Open in IMG/M

Ga0207752_1097148

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria

624

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0207752_1000309	Ga0207752_100030925	F068265	MTKKNQSAAVPVEGAMFFPEDFTRLHRRHVIYIKQGVIIDLDKL
Ga0207752_1000492	Ga0207752_100049216	F058721	MLKTTLPCADPQCADKMRLVFQNERFLGYRCLLKPKSHNFRYDIERKRWEKIIIKTKPIIGYKKSPYDVALDEDVAIETI
Ga0207752_1001094	Ga0207752_10010944	F038920	LLTEILTDQQLIDLYTTPGYLVAVDYPKKEIKLHMVDCMLADPISSVGVKPSKARENKTGEFWFSESREEANSKAEEIAKNKEYTYKICPICNR
Ga0207752_1001097	Ga0207752_100109711	F028081	MDKEKALQKLQKTRNENEQAYLKAKAFLEGFRARGQLSKKDNEFLFLLEFVIKGFKNHGNDIITAFENQVRFTEAFNNLQAKVNDLEHDIRQLRKTLDKMYQDR
Ga0207752_1001196	Ga0207752_10011968	F091298	MSSAVTLRVSSSAQVLKHLSIGEPIQDTRVTDLLDLDPLVVSRWLCGEDLRGVYQPIVVRRCALDGIDLEGRTFYEIVELTGCCIAAAHLRNAYFYSSLLVEDCVFDGDFDGRGMQSDGRVVFHNTIFTGWADFSAISLRGRADLVDVSFPGGTNLLRNLGDGSRTLLGRQVNLSGCRFRAADIPDGLDAARWGVLPLVDHDLGSLERQWRKLVGSKKSHLVGVIGRLFFPSHQPGTVDNDDACSALVLSSGCNVK
Ga0207752_1001456	Ga0207752_100145614	F078220	LDFASGDDYIYSMFEAVVDVVHGKKREKLQFAKCPQCGCLKSFRPKSKGIQSTAMRCSNCGSIICFGVRGMGSNFRDLAEIFCENCEDDCRKCPIYKLANEQNRVKRSKLGKRSLNR
Ga0207752_1001553	Ga0207752_10015534	F076229	MRREESAYVAFGQYWLQARHQETSRLWLTNVMALVFALLLAMIAWQGLVYWYMAAFGLSLSLFGFFVNHAMRVLGVRYGRVAAALMDAELGMGDYRRFIEGGDKTGFQGAWENLWSLHMAFVLFYCFGIAGWSALLTMTQNTPLWFTVFVFALMIVVSLVFYFAILWPRERQAETESLASVKRQERQKKKSSGPSA
Ga0207752_1002145	Ga0207752_100214514	F025653	MSDPIKFFETKLKDMSLAELQDYKKRLEENIQQMIAKTAPNEKIAPLIIYRGILEHEIKARTTQR
Ga0207752_1002397	Ga0207752_10023976	F024682	LSAEDELISKLKEEIGKTVPPMFAEIAKDMMEKNKEVIINLLKDNKNLVKEVIES
Ga0207752_1002908	Ga0207752_10029085	F098703	MDYMICKLVTCMVKKAIIVINLLPEASKASNSQIEEKIRKEAKIPLCNNIEQVSVEDNEASYMKLKKHGVSDNVARNLVDLYTE
Ga0207752_1008654	Ga0207752_10086544	F096272	MEDLKKLHCKPKVSIAEINDFVLQHPKWAASIIRNAIGFEMYREFCLCCENFDKCYEKLGAIKRENSLGCICNEFLNQEHSEANRRRLRAYFKEVAVILNL
Ga0207752_1008915	Ga0207752_10089151	F091298	MSSVVTLRVSSSAQVLQHLSIGEPIQDTRVTDLLDLDPLVVSRWLCGEDMRGVYQPIVVRRCALDGIDLEGRTFYEIVELVGCHIAAAHFRNAYFYSSLLVEDCVFDGDFDGRGMQSDGRVVFHNTIFTGWADFSALSMRGRADLVDVSFPGGTNLLRTLVSGSRDQLGHEVNLSGCRFRAADIPDELEAARGGILPLVDRDSGGMERQWRKLVRGKKGDPVGIVSRLLFSSHQPGTVDNDDVCTALVLSPGCNVE
Ga0207752_1009650	Ga0207752_10096502	F048391	MEFKGDPMDDRISVEPINTLDYLNELLGKGYVIKGPRKDSSRDLISFKAFLKKGKEFAPEGWLLHMGYEFIEPNTFTKGHKIAYKIIDEIPDERFNSNYTLVKENREIPLYLKVAVLKAE
Ga0207752_1013255	Ga0207752_10132552	F009854	MSASDTRAELFDALRELSEIVPEMRAGQLIAAVGEVCADLHGRGLWEASDAEVLEAVWRFRRNFETATAKASDHDA
Ga0207752_1026369	Ga0207752_10263691	F060598	FAVIFGVRRAFHLDDVRDIGFALVTGRPRPLTHGTFQHLLHRIPGEKARSFYAATARLAVQSLGEGIRRISLDGHNLPRYTRIVEVVKGKIGNTGRILKAEELVLAYDLDAHLWLAVRIYQGTKKLSKGIVEIVQEILEHRGDLSGLLRIFSDKGAYGGHIFQALAAEERVRFYIPAVRYPSNVEQWEQLQDTDFDPEPFIFDKHADLPADQRPTYRLADTEMEINVWEGQKIVDTVTLRAVVLHDPQGEKPAERWPVAFLTDDQHIDARALLNEYGDHWGQEFAHRIGKHDLCLDILPPGYVLKTRRDEQGQLVREVEDDDTAFFLSAWLRCLVFNLMTCFAQAMGGEYTKMWAGTLLRKFIRRPATLYLVDKELHVVFDPFPDQDQLQPLLDELNAKRTALPWLNDLVVQFRIAEEEPLHPLTELEKRNRLFGDG
Ga0207752_1031317	Ga0207752_10313171	F029294	MTQETGETRDAIIEDDQKKLEAILAANKHRRDPYWVVIFAKPSKNSVDGKPTLVKHVKAYGVKPTPQVGMITGEVNNSTGEIKWEVNMPQRPFDFDALQQFGAKPCNEAVIETT
Ga0207752_1035218	Ga0207752_10352182	F094064	MAKVMKDYSGPVCPMIHLRDLGKETVIKLAVQFARAYSQIDGHWYDAVAKRYGEQVARDLDFEVWMRNIPPTAKRTLEALGHKEMDMAAILKVTQFHPAAGGGEYLWDYEVELKSPNVGIVKVLKCRPYSYYMEKGDLDFVRVMCREWDIPMFGITGTAIIPNVKCRPLVIPPYDAPYETKPEPGVVCAWEYSIEPE
Ga0207752_1054188	Ga0207752_10541882	F096533	MSETLNIMLEDLNSETQQDVLNFYGYETAAEGNLDVMPLFVLETDDRKEQ
Ga0207752_1097148	Ga0207752_10971482	F005815	MTMKVTPLRTYWSPDEAATAIDLLDILREALWQTYGDQITKMHREIHEEHVSDDNQCKLAFDDDLPF

Scaffold ID

Protein ID

Family

Sequence

Ga0207752_1000309

Ga0207752_100030925

F068265

MTKKNQSAAVPVEGAMFFPEDFTRLHRRHVIYIKQGVIIDLDKL

Ga0207752_1000492

Ga0207752_100049216

F058721

MLKTTLPCADPQCADKMRLVFQNERFLGYRCLLKPKSHNFRYDIERKRWEKIIIKTKPIIGYKKSPYDVALDEDVAIETI

Ga0207752_1001094

Ga0207752_10010944

F038920

LLTEILTDQQLIDLYTTPGYLVAVDYPKKEIKLHMVDCMLADPISSVGVKPSKARENKTGEFWFSESREEANSKAEEIAKNKEYTYKICPICNR

Ga0207752_1001097

Ga0207752_100109711

F028081

MDKEKALQKLQKTRNENEQAYLKAKAFLEGFRARGQLSKKDNEFLFLLEFVIKGFKNHGNDIITAFENQVRFTEAFNNLQAKVNDLEHDIRQLRKTLDKMYQDR

Ga0207752_1001196

Ga0207752_10011968

F091298

MSSAVTLRVSSSAQVLKHLSIGEPIQDTRVTDLLDLDPLVVSRWLCGEDLRGVYQPIVVRRCALDGIDLEGRTFYEIVELTGCCIAAAHLRNAYFYSSLLVEDCVFDGDFDGRGMQSDGRVVFHNTIFTGWADFSAISLRGRADLVDVSFPGGTNLLRNLGDGSRTLLGRQVNLSGCRFRAADIPDGLDAARWGVLPLVDHDLGSLERQWRKLVGSKKSHLVGVIGRLFFPSHQPGTVDNDDACSALVLSSGCNVK

Ga0207752_1001456

Ga0207752_100145614

F078220

LDFASGDDYIYSMFEAVVDVVHGKKREKLQFAKCPQCGCLKSFRPKSKGIQSTAMRCSNCGSIICFGVRGMGSNFRDLAEIFCENCEDDCRKCPIYKLANEQNRVKRSKLGKRSLNR

Ga0207752_1001553

Ga0207752_10015534

F076229

MRREESAYVAFGQYWLQARHQETSRLWLTNVMALVFALLLAMIAWQGLVYWYMAAFGLSLSLFGFFVNHAMRVLGVRYGRVAAALMDAELGMGDYRRFIEGGDKTGFQGAWENLWSLHMAFVLFYCFGIAGWSALLTMTQNTPLWFTVFVFALMIVVSLVFYFAILWPRERQAETESLASVKRQERQKKKSSGPSA

Ga0207752_1002145

Ga0207752_100214514

F025653

MSDPIKFFETKLKDMSLAELQDYKKRLEENIQQMIAKTAPNEKIAPLIIYRGILEHEIKARTTQR

Ga0207752_1002397

Ga0207752_10023976

F024682

LSAEDELISKLKEEIGKTVPPMFAEIAKDMMEKNKEVIINLLKDNKNLVKEVIES

Ga0207752_1002908

Ga0207752_10029085

F098703

MDYMICKLVTCMVKKAIIVINLLPEASKASNSQIEEKIRKEAKIPLCNNIEQVSVEDNEASYMKLKKHGVSDNVARNLVDLYTE

Ga0207752_1008654

Ga0207752_10086544

F096272

MEDLKKLHCKPKVSIAEINDFVLQHPKWAASIIRNAIGFEMYREFCLCCENFDKCYEKLGAIKRENSLGCICNEFLNQEHSEANRRRLRAYFKEVAVILNL

Ga0207752_1008915

Ga0207752_10089151

F091298

MSSVVTLRVSSSAQVLQHLSIGEPIQDTRVTDLLDLDPLVVSRWLCGEDMRGVYQPIVVRRCALDGIDLEGRTFYEIVELVGCHIAAAHFRNAYFYSSLLVEDCVFDGDFDGRGMQSDGRVVFHNTIFTGWADFSALSMRGRADLVDVSFPGGTNLLRTLVSGSRDQLGHEVNLSGCRFRAADIPDELEAARGGILPLVDRDSGGMERQWRKLVRGKKGDPVGIVSRLLFSSHQPGTVDNDDVCTALVLSPGCNVE

Ga0207752_1009650

Ga0207752_10096502

F048391

MEFKGDPMDDRISVEPINTLDYLNELLGKGYVIKGPRKDSSRDLISFKAFLKKGKEFAPEGWLLHMGYEFIEPNTFTKGHKIAYKIIDEIPDERFNSNYTLVKENREIPLYLKVAVLKAE

Ga0207752_1013255

Ga0207752_10132552

F009854

MSASDTRAELFDALRELSEIVPEMRAGQLIAAVGEVCADLHGRGLWEASDAEVLEAVWRFRRNFETATAKASDHDA

Ga0207752_1026369

Ga0207752_10263691

F060598

FAVIFGVRRAFHLDDVRDIGFALVTGRPRPLTHGTFQHLLHRIPGEKARSFYAATARLAVQSLGEGIRRISLDGHNLPRYTRIVEVVKGKIGNTGRILKAEELVLAYDLDAHLWLAVRIYQGTKKLSKGIVEIVQEILEHRGDLSGLLRIFSDKGAYGGHIFQALAAEERVRFYIPAVRYPSNVEQWEQLQDTDFDPEPFIFDKHADLPADQRPTYRLADTEMEINVWEGQKIVDTVTLRAVVLHDPQGEKPAERWPVAFLTDDQHIDARALLNEYGDHWGQEFAHRIGKHDLCLDILPPGYVLKTRRDEQGQLVREVEDDDTAFFLSAWLRCLVFNLMTCFAQAMGGEYTKMWAGTLLRKFIRRPATLYLVDKELHVVFDPFPDQDQLQPLLDELNAKRTALPWLNDLVVQFRIAEEEPLHPLTELEKRNRLFGDG

Ga0207752_1031317

Ga0207752_10313171

F029294

MTQETGETRDAIIEDDQKKLEAILAANKHRRDPYWVVIFAKPSKNSVDGKPTLVKHVKAYGVKPTPQVGMITGEVNNSTGEIKWEVNMPQRPFDFDALQQFGAKPCNEAVIETT

Ga0207752_1035218

Ga0207752_10352182

F094064

MAKVMKDYSGPVCPMIHLRDLGKETVIKLAVQFARAYSQIDGHWYDAVAKRYGEQVARDLDFEVWMRNIPPTAKRTLEALGHKEMDMAAILKVTQFHPAAGGGEYLWDYEVELKSPNVGIVKVLKCRPYSYYMEKGDLDFVRVMCREWDIPMFGITGTAIIPNVKCRPLVIPPYDAPYETKPEPGVVCAWEYSIEPE

Ga0207752_1054188

Ga0207752_10541882

F096533

MSETLNIMLEDLNSETQQDVLNFYGYETAAEGNLDVMPLFVLETDDRKEQ

Ga0207752_1097148

Ga0207752_10971482

F005815

MTMKVTPLRTYWSPDEAATAIDLLDILREALWQTYGDQITKMHREIHEEHVSDDNQCKLAFDDDLPF

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300027555: Marine sediment microbial community from Union City, CA, USA - Pond 2C Sediment 2 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences