LOCUS CP013343 4328 bp DNA circular BCT 21-JUN-2016
DEFINITION Sphingopyxis terrae NBRC 15098 strain 203-1 plasmid, complete
sequence.
ACCESSION CP013343
VERSION CP013343.1
DBLINK BioProject: PRJNA295353
BioSample: SAMN04046241
KEYWORDS .
SOURCE Sphingopyxis terrae subsp. terrae NBRC 15098
ORGANISM Sphingopyxis terrae subsp. terrae NBRC 15098
Bacteria; Proteobacteria; Alphaproteobacteria; Sphingomonadales;
Sphingomonadaceae; Sphingopyxis.
REFERENCE 1 (bases 1 to 4328)
AUTHORS Ohtsubo,Y., Nonoyama,S., Nagata,Y., Numata,M., Tsuchikane,K.,
Hosoyama,A., Yamazoe,A., Tsuda,M., Fujita,N. and Kawai,F.
TITLE Complete Genome Sequence of Sphingopyxis terrae Strain 203-1 (NBRC
111660), a Polyethylene Glycol Degrader
JOURNAL Genome Announc 4 (3) (2016)
PUBMED 27284143
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 4328)
AUTHORS Yoshiyuki,O.
TITLE Direct Submission
JOURNAL Submitted (30-NOV-2015) Department of Life Sciences, Tohoku
University, Katahira 2-1-1, Sendai 980-8577, Japan
COMMENT Annotation was added by the NCBI Prokaryotic Genome Annotation
Pipeline (released 2013). Information about the Pipeline can be
found here: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Annotation was conducted using PGAP and MiGAP, and PGAP annotation
was curated by referencing to the MiGAP annotation with the aid of
annotation support tool of GenomeMatcher software.
##Genome-Assembly-Data-START##
Assembly Method :: newbler v. 2.8
Genome Coverage :: 110x
Sequencing Technology :: Illumina MiSeq
##Genome-Assembly-Data-END##
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI
Annotation Date :: 11/30/2015 14:33:14
Annotation Pipeline :: NCBI Prokaryotic Genome Annotation
Pipeline
Annotation Method :: Best-placed reference protein set;
GeneMarkS+
Annotation Software revision :: 3.0
Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;
repeat_region
Genes :: 3,797
CDS :: 3,699
Pseudo Genes :: 49
rRNAs :: 1, 1, 1 (5S, 16S, 23S)
complete rRNAs :: 1, 1, 1 (5S, 16S, 23S)
tRNAs :: 45
ncRNAs :: 1
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..4328
/organism="Sphingopyxis terrae subsp. terrae NBRC 15098"
/mol_type="genomic DNA"
/strain="203-1"
/sub_species="terrae"
/culture_collection="NBRC:15098"
/type_material="type strain of Sphingopyxis terrae"
/db_xref="taxon:1219058"
/plasmid="unnamed"
/country="Japan: Kyoto"
/collection_date="1974"
gene 98..769
/locus_tag="AOA14_20005"
CDS 98..769
/locus_tag="AOA14_20005"
/inference="EXISTENCE: similar to AA
sequence:RefSeq:WP_012046578.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="resolvase"
/protein_id="AMU96687.1"
/translation="MKTAVAYYRVSTSGQGKSGLGLDAQREAVERFAQAEGITLIATF
QEVESGKGADALDRRPVLAAALAAAKKEGCAIVVAKLDRLSRDVHFISGLMGQRIPFM
VAELGANADSFMLHLYAALAEKERNLISERTKAALAAAKAKGVKLGNPNIAEATEAAK
AATQANAETFAKQIAPHIEAARSNGCKTYREVAAALNARGIPTARGGSWQAATVRNIE
LRLAA"
gene 958..1689
/locus_tag="AOA14_20010"
CDS 958..1689
/locus_tag="AOA14_20010"
/inference="EXISTENCE: similar to AA
sequence:RefSeq:WP_010512411.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="AMU96688.1"
/translation="MQIEAGKTFDGQGWQTQPIPYGTIPRLALIHITSEAVRTQCPVI
DVGDSVYAFLEALGVGNNQAARNRARKQMTALAACHMRLGRLVDRDGKKFAQTVDAKP
FQQFEAWISDTGSQTALWPTSVELSAPFFEAILRTAVPLRHEALAQLTSSALALDIYS
WLAHRLCRVRRGGVTISWAALAEQFGQEYNNRKYFKREFAKQLKPVLAAYPEARVTIV
TGGIQLDASPPPIPKTAARRLRRMP"
gene 1686..1886
/locus_tag="AOA14_20015"
CDS 1686..1886
/locus_tag="AOA14_20015"
/inference="COORDINATES: ab initio prediction:GeneMarkS+"
/note="Derived by automated computational analysis using
gene prediction method: GeneMarkS+."
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="AMU96689.1"
/translation="MNIPKRLPYELVIIAGLMLGSCKPAWEDRLDVADVNARNAIYRV
NELESRVDELERQANELESRLQ"
gene 2289..2888
/locus_tag="AOA14_20020"
CDS 2289..2888
/locus_tag="AOA14_20020"
/inference="COORDINATES: ab initio prediction:GeneMarkS+"
/note="Derived by automated computational analysis using
gene prediction method: GeneMarkS+."
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="AMU96690.1"
/translation="MEAATHAHTIGLPLNQAVAIHFERGELPDIYRPQDAIHYWLKAA
GQWLRNRGVQMTFIWVIEQAIGTGIHVHILLHCPPQHQKEFFKKGRTSWLLKAGMSQK
DKRTLHNQRVGPRGYEVGTASKYDHGSYQRQLKGALRYHLKAISPDQAAPRLTGSDKP
FAELFGIEPEYSHPIYGRRASQSQNISKKARDKYHAKRA"
gene 3534..4043
/locus_tag="AOA14_20025"
CDS 3534..4043
/locus_tag="AOA14_20025"
/inference="COORDINATES: ab initio prediction:GeneMarkS+"
/note="Derived by automated computational analysis using
gene prediction method: GeneMarkS+."
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="AMU96691.1"
/translation="MPQNVTPKAKAEPEWSRFTYKELATALGVSADAARMKAKRKAKK
GDWQIIPGNHPSDKVTVLIPENDQELVGERVGGDEPEHPERKKGRTREPERDGELFTL
YTEAQKRIQALTDQLLEAQADRVALAASEAREMALAAEIEALQRQLDRAHADIAFHRR
TWWQKLTGR"
BASE COUNT 1068 a 1233 c 1254 g 773 t
ORIGIN
1 gagcaatctg cattcccgga tgagttacaa atggtttgta aataatccaa acggtgatat
61 gagatttata cagcatcgcc gtttggggat ttaagccatg aaaaccgccg tcgcctatta
121 ccgggtttcc actagtgggc agggcaaatc aggcttgggc ctggacgcac agcgggaagc
181 cgttgaacgc ttcgcccagg cggaaggcat caccctgatt gcaacgtttc aggaagtgga
241 gagcgggaaa ggggcggacg cccttgatcg tcgccccgtt ctggcagctg cactggcagc
301 ggcgaaaaaa gaaggctgcg ctatcgtcgt ggccaagctc gatcgcctta gccgtgacgt
361 tcactttatc agcggcctaa tggggcagcg catcccgttt atggtggccg agctgggcgc
421 gaacgctgat agcttcatgc ttcaccttta cgcggcgctg gcagagaaag agcgaaacct
481 gattagcgaa cgaaccaagg cggcgctggc agcggctaag gccaaggggg ttaagctagg
541 caatccgaac attgcggagg cgacagaggc agcgaaggcc gcgacacaag ccaacgctga
601 aacctttgcc aagcaaattg ccccccatat cgaggcggcg cggtcgaacg gctgtaagac
661 ctaccgggag gtggcagcgg cattaaacgc tcgcggcatc ccgacagcgc gaggcggcag
721 ctggcaagcg gcaacggtcc gtaacatcga actacggttg gcggcatgac gtcccgcgac
781 ggcgctggca gcctgtttga cgccctgcca gccaacgtcc tggcgttgac ggttgaagcc
841 aaaaggtccg ttgacgctgg caatcccgac tatctgccag ctgtattttg tcacgttggc
901 ttgcctcgat cacgctttga agggcagacc tttgaacgcc aatcaggcaa cgtttcattg
961 cagatcgagg cagggaaaac ctttgacggc caaggttggc agacccagcc tattccctac
1021 ggcacaattc cacgccttgc cctgatccac ataaccagcg aggcggtccg gacccaatgc
1081 cccgtcattg acgtaggcga tagcgtctat gcttttctgg aagccctagg ggtgggaaac
1141 aaccaggcgg cccgcaacag ggcgcgcaag caaatgacgg cgctcgcggc ttgccatatg
1201 cgcctagggc ggctggtaga tcgagacggc aagaaattcg cccagacggt tgatgccaag
1261 cccttccagc aattcgaggc ttggataagc gacactggca gccaaacagc cctatggcct
1321 acatcggtcg aattatccgc cccgttcttt gaagccatcc tgcgaacagc ggtcccgctt
1381 cgccatgaag cccttgccca gctgacgtca tcggcgctgg cgttggatat atacagctgg
1441 ctggcgcata ggctttgtag ggttaggcgt ggaggcgtga ccatatcctg ggcggcgctc
1501 gcggagcagt ttgggcagga atataataac cgaaaatatt tcaaacggga gtttgcgaag
1561 cagctgaaac ccgttctggc agcctatccg gaggcccgcg tgactattgt tacgggcggc
1621 atccaattgg acgcatcgcc gccaccaatc cctaaaactg cggcgagacg attaaggagg
1681 atgccatgaa cataccgaaa cgcttgccct acgaactggt gatcatcgcc ggtctgatgt
1741 tgggaagctg caagcccgcg tgggaggaca ggctagatgt tgcggacgtg aacgcccgca
1801 atgccattta ccgcgtcaat gaactggaaa gccgcgtaga tgaattggag aggcaggcaa
1861 atgaactgga aagccggtta cagtaagcgg caccgcattt ttcgcgaggc gtaagggccg
1921 gaccatcgcc cccccctgta tcggaccatc gcccccccca tcaccggacc atcgcccccc
1981 cccatctacc tatagtctca ccatgtagat tttccggtag cgcaaagccg cagaaacaga
2041 gggattccaa cgtctgttct tgctgtgttc taaaacttac gataaatgat taggggatgg
2101 ctcacactcc caaggcgctc tcaagcgcaa agccgcagaa acctgcatct cccgccccca
2161 gccgcaaggc tgcgcgtaac cgcacgtcga aacggcgcac ttatatacgt agtgcgccgc
2221 gccagcatgt cccgaacagc cgccatcact ggaaagagta tctcccagct gaaaaggctc
2281 ttgatttggt ggaggcggct actcacgcgc acacaatcgg gcttcctctc aatcaagcgg
2341 tcgccatcca ttttgagcgc ggcgaactgc ccgacatcta ccgcccccag gacgctattc
2401 actactggct aaaagcggcc ggccaatggc ttcgcaatag gggcgtccag atgacgttca
2461 tttgggtgat cgagcaagcc ataggaacgg ggatccatgt ccacatttta ttgcactgcc
2521 cgccccagca tcagaaagag tttttcaaaa agggccggac cagctggttg ctgaaagccg
2581 gtatgtcaca aaaagacaaa cgcaccctgc ataaccagcg ggtcggtccg cggggctatg
2641 aggtcgggac tgccagcaaa tatgatcatg gttcatatca acgccaatta aagggggctt
2701 tgcgctacca cctgaaagcc atcagccctg accaggcagc cccccgactg acaggtagcg
2761 acaagccctt tgcggaactg ttcggcatcg aacccgaata cagccatccc atctacggca
2821 gacgcgccag ccaatcccag aacatcagca aaaaggctcg cgataaatac cacgccaaaa
2881 gagcctaaga cggcaacggg aagccccccg ttttttaccg ggcaattccg gaagcccagg
2941 agacttggcc aatacgcgca cgcgggaagc ccctccattg ttagcaatga ctgcgatgtc
3001 ggcccaatgg gctatcaagg ggcgtctttc tccatgttgc gcccagccac cggccctgca
3061 gactgactgt aactagaaac tgtcacagcc tgcgcggtta cagtcattgg ctaattttgc
3121 ggtcaataag cgcacgctga tcagggcagc cctgggtagg acccaccaaa caatctgagc
3181 aagcctgtaa ctgatttaac agttaaggaa tgttaaggct gaaacccgcc ccagcaacga
3241 gatgcccgta aaatgcccta ggaggagccg cacagcgacg atgaggcaat tcagccccta
3301 tagagccgaa atatcaagat ggcccgcagc ggggcttaaa atcgattttt ggacgcctta
3361 aaggggcggt cggcaccctg cacaatggcg acgttcgcta aaatagcgaa aaatagccgt
3421 ctaaagtagg ccaaagtagg tgaacgcgtc gggggcgacg tggcgcaaac gttcgtctag
3481 gcgttcacct agtctggccg cataatgccc cgaacgcgtc ggggggtaac ggtatgccgc
3541 aaaatgtcac gccaaaggct aaggcggagc ctgaatggtc ccgcttcacc tataaggaat
3601 tggcgacggc gctgggcgta tcagctgacg cggctcgaat gaaagccaag cgaaaggcca
3661 aaaaaggcga ttggcagatt atcccaggca atcacccatc ggacaaggtg acggtcctga
3721 tcccagagaa tgatcaggaa ctggtaggcg aacgcgtcgg gggcgacgaa cccgaacatc
3781 ccgaacgcaa gaaagggcga acgcgtgaac ccgaacgcga tggcgaactg ttcaccctct
3841 acacagaagc ccagaagcgc atccaggcgc tcaccgatca gctgctagaa gcccaggcgg
3901 atagggtggc actggcagct agcgaggcgc gggagatggc gttggccgca gagatagagg
3961 ctttgcaacg ccagctagac cgcgcccatg cagacattgc ctttcaccgc cggacgtggt
4021 ggcaaaagct gactggcaga tagtgaggga ggaacagcat atgatcgcgt ttagggttgg
4081 agtggtttgg gcggcgatgg tttcggcatc ggtcacttgg gcgacagccg cagcggcgca
4141 acaagcaagc ccatacaaac ttatcgtggc atcgagtgag ggcggggtaa cagccatcga
4201 ctacccaagc gcagcgagat gcgagcgcgc caagcagaca atagaagcgg aaatgaagcg
4261 acggaatgat gaggctagga acaaccttcc ccccggcgct atcctgacga attatggctg
4321 gcaagcgc
//