Sample 3300000339

Basic Information
IMG/M Taxon OID	3300000339 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0063124 \| Gp0053550 \| Ga0026152
Sample Name	Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Active layer cDNA A2 Metatranscriptome
Sequencing Status	Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

3300000339 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0063124 | Gp0053550 | Ga0026152

Sample Name

Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Active layer cDNA A2 Metatranscriptome

Sequencing Status

Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	12254227
Sequencing Scaffolds	34
Novel Protein Genes	38
Associated Families	33

Dataset Contents

Total Genome Size

12254227

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	27
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter radiotolerans	1
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → Acidobacteria	2
All Organisms → cellular organisms → Bacteria	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter radiotolerans

All Organisms → cellular organisms → Eukaryota

All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium

All Organisms → cellular organisms → Bacteria → Acidobacteria

All Organisms → cellular organisms → Bacteria

Ecosystem Assignment (GOLD)
Name	Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Unclassified → Permafrost → Soil → Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska

Ecosystem Assignment (GOLD)

Name

Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska

Type

Environmental

Taxonomy

Environmental → Terrestrial → Soil → Unclassified → Permafrost → Soil → Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	terrestrial biome → active permafrost layer → permafrost
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

terrestrial biome → active permafrost layer → permafrost

Earth Microbiome Project Ontology (EMPO)

Free-living → Non-saline → Soil (non-saline)

Location Information
Location	Bonanza creek, Alaska, USA
Coordinates	Lat. (^o)	64.7	Long. (^o)	-148.3	Alt. (m)	N/A	Depth (m)	.3 to .7
Location on Map

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Location Information

Location

Bonanza creek, Alaska, USA

Coordinates

Lat. (^o)

64.7

Long. (^o)

-148.3

Alt. (m)

N/A

Depth (m)

.3 to .7

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000203	Metagenome / Metatranscriptome	1619	Y
F001357	Metagenome / Metatranscriptome	716	Y
F001418	Metagenome / Metatranscriptome	698	Y
F003787	Metagenome / Metatranscriptome	468	Y
F006257	Metagenome / Metatranscriptome	377	Y
F006849	Metagenome / Metatranscriptome	363	Y
F007545	Metagenome / Metatranscriptome	349	Y
F007739	Metagenome / Metatranscriptome	345	Y
F014421	Metagenome / Metatranscriptome	263	Y
F017082	Metagenome / Metatranscriptome	242	Y
F017604	Metagenome / Metatranscriptome	239	Y
F019442	Metagenome / Metatranscriptome	229	Y
F021676	Metagenome / Metatranscriptome	218	Y
F021919	Metagenome / Metatranscriptome	216	Y
F023129	Metagenome / Metatranscriptome	211	Y
F023505	Metagenome / Metatranscriptome	209	Y
F024050	Metagenome / Metatranscriptome	207	Y
F027406	Metagenome / Metatranscriptome	194	Y
F029326	Metagenome / Metatranscriptome	188	N
F033915	Metagenome / Metatranscriptome	176	Y
F034933	Metagenome / Metatranscriptome	173	Y
F045079	Metagenome / Metatranscriptome	153	Y
F048671	Metagenome / Metatranscriptome	148	Y
F049452	Metagenome / Metatranscriptome	146	N
F051634	Metagenome / Metatranscriptome	143	Y
F055087	Metagenome / Metatranscriptome	139	Y
F063716	Metagenome / Metatranscriptome	129	Y
F067296	Metagenome / Metatranscriptome	125	Y
F069404	Metagenome / Metatranscriptome	124	Y
F070259	Metagenome / Metatranscriptome	123	Y
F078615	Metagenome / Metatranscriptome	116	Y
F103993	Metagenome / Metatranscriptome	101	N
F105208	Metagenome / Metatranscriptome	100	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
actLayA2DRAFT_100004	Not Available	777	Open in IMG/M
actLayA2DRAFT_100143	Not Available	706	Open in IMG/M
actLayA2DRAFT_100618	Not Available	687	Open in IMG/M
actLayA2DRAFT_100756	Not Available	1013	Open in IMG/M
actLayA2DRAFT_100961	Not Available	567	Open in IMG/M
actLayA2DRAFT_101028	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter radiotolerans	588	Open in IMG/M
actLayA2DRAFT_101167	Not Available	877	Open in IMG/M
actLayA2DRAFT_101207	Not Available	982	Open in IMG/M
actLayA2DRAFT_101698	Not Available	551	Open in IMG/M
actLayA2DRAFT_101699	Not Available	595	Open in IMG/M
actLayA2DRAFT_101839	Not Available	948	Open in IMG/M
actLayA2DRAFT_102139	Not Available	563	Open in IMG/M
actLayA2DRAFT_102187	Not Available	836	Open in IMG/M
actLayA2DRAFT_102240	Not Available	624	Open in IMG/M
actLayA2DRAFT_102363	Not Available	907	Open in IMG/M
actLayA2DRAFT_102626	Not Available	550	Open in IMG/M
actLayA2DRAFT_102660	All Organisms → cellular organisms → Eukaryota	525	Open in IMG/M
actLayA2DRAFT_102783	Not Available	770	Open in IMG/M
actLayA2DRAFT_102839	Not Available	2663	Open in IMG/M
actLayA2DRAFT_103012	Not Available	609	Open in IMG/M
actLayA2DRAFT_103203	Not Available	609	Open in IMG/M
actLayA2DRAFT_104347	Not Available	606	Open in IMG/M
actLayA2DRAFT_104639	Not Available	504	Open in IMG/M
actLayA2DRAFT_105054	Not Available	592	Open in IMG/M
actLayA2DRAFT_107445	Not Available	572	Open in IMG/M
actLayA2DRAFT_107686	Not Available	552	Open in IMG/M
actLayA2DRAFT_107777	Not Available	533	Open in IMG/M
actLayA2DRAFT_108940	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	528	Open in IMG/M
actLayA2DRAFT_108950	All Organisms → cellular organisms → Bacteria → Acidobacteria	501	Open in IMG/M
actLayA2DRAFT_109210	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	529	Open in IMG/M
actLayA2DRAFT_110624	All Organisms → cellular organisms → Bacteria	663	Open in IMG/M
actLayA2DRAFT_113998	All Organisms → cellular organisms → Bacteria → Acidobacteria	536	Open in IMG/M
actLayA2DRAFT_117932	Not Available	543	Open in IMG/M
actLayA2DRAFT_121835	Not Available	504	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
actLayA2DRAFT_100004	actLayA2DRAFT_1000041	F007739	KIIPGDWGKVRSGWLIWLLLNRAARHGNGGRIHRFLWRCSHTVKCE*
actLayA2DRAFT_100004	actLayA2DRAFT_1000042	F021676	MPDGPATRPITPLAVENGVGKPAAPEKGAPNVGSGKREWRTPIPHLS
actLayA2DRAFT_100143	actLayA2DRAFT_1001431	F023129	VKRRDPWHRANVPTKSEADPALSGEDAEQNSQTCLDLVRKPVAQPPAQAS*
actLayA2DRAFT_100150	actLayA2DRAFT_1001502	F000203	GGTREIPSEHGGMGVRHALFPVPAFGTLFKVADFPTPFSTASGVTGLVAGPSKVLQPLDFE*
actLayA2DRAFT_100618	actLayA2DRAFT_1006182	F063716	VKRRDPWXGANALSKTAADPVLMVETRKKITGVSQPGSQAGGATTS*
actLayA2DRAFT_100756	actLayA2DRAFT_1007562	F048671	MTEILAEAGRITGLGPEIGGKIIFGLQSAYAKRAGQEPMRFVAPASQLTELDDDDLVIVRFSRTDHRTMAGPLPVASLSLA*
actLayA2DRAFT_100961	actLayA2DRAFT_1009611	F003787	GXPSDPIXSLFTTGMHGTEHRXXERRVPRLSAPRSPFSPATGSTLQDXPXLLSRSGPDARNGLSLTRNGCSFRSXHSXINVPGLLLRFQLAASSARSALLLRYPNRLAPVWAASSXLARCNFHGSLDDRASSLHSP*GLLPPAGSKRSAGFAACRPAFRTRPISFRSPQPVSISSVSASDQRSRSASFP
actLayA2DRAFT_101028	actLayA2DRAFT_1010281	F055087	MTTTAKTITNTAADVQQQYAHSAQTMAKHLAAAQERNVKYTQSMVESTIALLKSHMEDTRSLMEQWGQQGDSQVSETYMSLFRAPFTAYQQMFEGVEAASRQMFEGVETASRQMLEGVEKATKQSSESFEQANHSKK*
actLayA2DRAFT_101167	actLayA2DRAFT_1011671	F001418	FSGTRLKDLAEAVFTSSSGTFARASNAKMELGGEGRLETVPDRVK*
actLayA2DRAFT_101207	actLayA2DRAFT_1012072	F067296	GASFLRNSQFESSXASSGYRPASLQLAPSINLSASPSNQPPTCVGCLSPALPSNXNFQXFIDCQILXQVFRSXSSLRLQSTFQPNLPAGLRLASPANFPVPLSSRPATVAACRTSSHALXXXSSLRLPSIFRLNLPANLFDLRLLVDLPVLLPNLTSDSRRRSHLLALPSN*
actLayA2DRAFT_101698	actLayA2DRAFT_1016981	F014421	MSEIVPYTARIQEAMRYDKLSASDYRLVMTIKHAVSQGLTEEQWKEGQDKTVGILTNQPPDEVRLHADATNRYEQTVACFKDLVLWPW*
actLayA2DRAFT_101699	actLayA2DRAFT_1016992	F014421	MSHQFTEPYESSSPKRMSEIVPYTARIQEAMRYDKLSASDYRLVMTIKHAVSQGLTEEQWKEGQDKTVGILTNQPPDEVRLHADATNRYEQTVACFKDLVLWPW*
actLayA2DRAFT_101839	actLayA2DRAFT_1018392	F048671	TRPVTKEGKSIITEILAEAGRITGLGXEXDGXIIFGLQSAYAKQAGQKPMRFVASASQLTDLGDHDLVIVRFSRTDHRTMAEPLPVASLSLA*
actLayA2DRAFT_102139	actLayA2DRAFT_1021391	F006257	RFQVIRFPALLSTGMHGTEHRIKKRVFRRSAPQRPISPPLDQCLPAHRSLSPQRSRPLVAPFPSPATAAPSQKPPFRGRWSRTATSMPPSSLPRPVRLQLPCLHWFAPSDGSFFASDPLRLFSPVRSAASSASTPLQDFYLPRDQSVQQIPPPHGSPSEPARFPLAPRCRFYF
actLayA2DRAFT_102187	actLayA2DRAFT_1021872	F034933	MTGRESQAMSAEQSAGKAGREVEGAEQSELEAEGQVSITK*
actLayA2DRAFT_102240	actLayA2DRAFT_1022401	F027406	GLLNRSGTGRATKKVVPSDPIPSLAHRRHTRHTSQLEAPDASPLGSPTAGFSNDRIDALKLAAAFFHSGPATRNGLSLARNGSRFRGLHSGVKGPGLLLRSLAHRFPRPFGPDLHNRSRFAPVPAASPIRARCAFHDPRALLLPLPLPFGAFRPFRIKAFRETRRPPTRLPIRPISVRSPQPFLFLVSATDHRSRSATFRRLAAPP
actLayA2DRAFT_102363	actLayA2DRAFT_1023632	F024050	MAARGAPNVACLWRCWNQQGPGFPRWLASSCHACDGGLELPLVLHLRLYRRWITELPRCSHHSAVPTYWSSGFPKSRPFGIADDSPSESPRTLNPPAPIDGYPSYLGSRTIRFAFVESPGCPGHSPSATAIDQFPGCPKSWVSLRSPIPRASSCPESWFLG*
actLayA2DRAFT_102411	actLayA2DRAFT_1024111	F049452	GGSPFAVFPGLRINALRLAAAFLLLSTEPVARNGLSLASNSCRLSAASIPGSMFLACYFAPCFSAFLPVRPFCSITFAGSPRSMATSLRLARCSSASKLDWSLPLPPLPFRTFTSLWIEAFSRTRYPSAHLPSTPDFLSLPDAGSISRVGLGSPFLVRYVSGDLFLKPLAPRRR
actLayA2DRAFT_102626	actLayA2DRAFT_1026261	F006257	ELQRVWSKESAITRGKPVVPSDPISSLALHRHARYRAPHREALCVPPVRSPEDVTGPQDQCLPAHRSLSPQRSRPLVTAFPSSATAAPSQKLPFQGQRSRPVTSRPPSSFPCPVRLKLPCLHWFAPGDGRFFAPNPLQFFSPDRSAASSASTPLQDSYIPRDQSVQQIPPPRGSPSEPARFPL
actLayA2DRAFT_102660	actLayA2DRAFT_1026601	F070259	MESLVIVNKNVTVNDISNFAHTAHHARRVVSIGNLTKGADC*
actLayA2DRAFT_102783	actLayA2DRAFT_1027831	F017604	MSKGCDEAAGDTSGANPDPESPLKTRGQAARKGGRERGSEHEETRTPTRRDSGDGSAKRESRSRGESSAGWSLGT
actLayA2DRAFT_102839	actLayA2DRAFT_1028391	F103993	VPSRTPAPSQALFQIVTGLKLPGLLGLQATPVAIASQSARCVA
actLayA2DRAFT_103012	actLayA2DRAFT_1030122	F105208	SDREAEPEMQQPESDVWFVRQGWKVDRRRKLQVGWKAAPKGSADDESRKLGSKAKPEG*
actLayA2DRAFT_103203	actLayA2DRAFT_1032031	F029326	AGKKQRWFQATFWFSPFPDRHARSKRGRCPGPDSLSCSPPQLLCHSGSTRLSVSRDQSTRSLRFATAFHSPPWLCPFERLREGSPLPACCFSPIPNTASGPFGSPLPASLRFCIACAGPICVTFPLPDAYPELPDRSSACTRPRDGVPQVQRACRLQTGRLTFALNSISVRSPFSALFDHCQLRIIVPGSLSLARLAVPSDL
actLayA2DRAFT_103206	actLayA2DRAFT_1032061	F006849	AGKTTLVAGLLRHPECSVVVLNDDWGALSVDSGVLVSTGERMLHMKTGSVLALSPGFFATTPAGSYSSDLSEHDQNARMLVPPESVYGTAWSTAATVAEHVVVVVREPADWLPPGRENETVRALESEGDACLPHHHEAFFNGSLILTTEKDKLREERRYTQLLNRTTVSWINNCSTPEAL
actLayA2DRAFT_104347	actLayA2DRAFT_1043471	F023505	ESGGGRKKAAGLPEIIPGNWGKVESGWLAQPLEARSARNGNRRHNSPVPLAAFARRQ*
actLayA2DRAFT_104639	actLayA2DRAFT_1046391	F019442	VSAFGEYRIKASLRVAANSCPGLDARDGLSLARNDFRFHGIHFGVKVPDLPLRFPAXWXCCPFGLPALLPNPVRPGXGRFVASGPLQCRQPARLAAPPISTSLKEFYVPPDQSVQLALLPVSPPSEPARSPLAP
actLayA2DRAFT_105054	actLayA2DRAFT_1050541	F045079	KVRLIGSGRGTTLSGLRIYKAQPTLEPLPGDYGLVKMPGAPAQMEAMLLGWRFSHAVVFVGHGQLVEAWFDCVRERSIAEYPADDICWFGVRTAPDGARVVQSRRDRVAEYAISRLGQPYDYPVWPAVFIRDYWNIDLSDFYAFDPLASCSGLVAKAYQAAGLDLIDKQVLNLVTPEDLKPVS*
actLayA2DRAFT_107445	actLayA2DRAFT_1074451	F105208	MQQPESDRWFVRQGWKVGRRRKLQAGWKAAPKGSADDESRRLGSQAEPEGWTKALHLR
actLayA2DRAFT_107686	actLayA2DRAFT_1076862	F105208	SDREAEPEMQQPESDVWFVRQGWKVDRRRKLQVGWKAAPKGSADDESRKLGSKAELEG*
actLayA2DRAFT_107777	actLayA2DRAFT_1077771	F069404	ASVRPMGRWRQRQVTSSLPGTEHVGCLTLLAGLMGPLPFLPRHGWLRRNALSPHRVRLSGAPGAPLWTGCSSANRALAGKPLWDGIVAVPEVFDTGCSALFLAGERGQPSASARSGDAGERYRRPGALRLISQTCGHIATHGGTQSVAEIVDIRWLSEQRESTLAPRGAAIPGRRA*
actLayA2DRAFT_108940	actLayA2DRAFT_1089401	F033915	MAVSPTAAYGIYPRNVALPDIVYTLNREGFQNRDICMVLSPAHPVASVVRDARIDHGKWEESAASARTIGWFSEFGAVMIPTVGFFIRSQAFFG
actLayA2DRAFT_108950	actLayA2DRAFT_1089501	F001357	MKRMLLMVLLALALPMAAFASNSVDFTNSGGTLSGSSAGLSLSGSELIAVNGLNGNGLTTGDLGSLTFWTGTMLSGNLQNGGTFNGGGGFQISGNGTNGIPNGVLFNGSFTGPVTWTLVTLANGTHNYTLTGSITGPPS
actLayA2DRAFT_109210	actLayA2DRAFT_1092101	F078615	MISLRLSEAEYEVLXKDYRIYGARNVSDLARLALQRIMTQSVDHQDGYAAKLVDLQHRVLALESRDSTSRGEIGPTADPR
actLayA2DRAFT_110624	actLayA2DRAFT_1106241	F051634	GAILAVIVLALALYRNLMALHEDDNLHIATGEEALIPKQLAFYRVMDKIDRWGEGLTAITVAGGLVLAAIYMYSRLPA*
actLayA2DRAFT_113998	actLayA2DRAFT_1139982	F007545	MSEDHAYRVAAWWTSGRTGLAKSDSAPNAIHFTAPAEFGGLEGRWTPEELLLAAVASCYTTA
actLayA2DRAFT_117932	actLayA2DRAFT_1179321	F021919	RGGARFHSQTLRRHASAQSFVARIAGCYPLGSPRPSFEGYGSMLPGSPASFPGQNRYLRAAFHSPATTACLQAAISRSKLPAYPFDALPFVRPARSDPSSPTRAGSPRYARDQY*NPVARLPFSSPNCLSDLHSPSGXFGPFRIKAFNPIPNWEARLPSTPDCPSLPGIDSILLVPTPDH
actLayA2DRAFT_121835	actLayA2DRAFT_1218351	F017082	DETVNGGSKLVQAGCVKDGKQYKAGDSYEVGKSWFNCTRTGREKVVAKAAGCVANGKRLNDGDRFNDNDVNYECTVDSGKVDVRATGCVQEGGVERRLGCTWVEGTAPFQYEWTCQHDVAANSAKKVQVRCNYNVGGGVYNIDPGCYRVVDKAAFGCVLERLQIQFV

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000339: Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Active layer cDNA A2 Metatranscriptome

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences