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pYPKa.gb
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LOCUS pYPKa 3128 bp DNA circular UNK 26-APR-2022
DEFINITION .
ACCESSION pYPKa
VERSION pYPKa
KEYWORDS .
SOURCE
ORGANISM . .
.
COMMENT PCR with 577 578 -> 544 bp
PCR with 577 467 -> 255 bp
PCR with 468 578 -> 376 bp
PCR with 467 468 -> 87 bp
Linearize with ZraI for cloning a promoter
Linearize with AjiI for cloning a gene
Linearize with EcoRV for cloning a terminator
Note that this plasmid can only be maintained in a adenyl cyclase
negative (CYA-) E. coli
ApEinfo:methylated:0
pydna cdseguid=IFLMpKpCGZio0R0YkGSfqPaKKiw 2024-06-11T18:53:45
FEATURES Location/Qualifiers
CDS complement(join(3081..3128,1..585))
/locus_tag="crpS"
/label="crpS"
/ApEinfo_label="crpS"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="#b6e9d0"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
gene complement(join(3081..3128,1..585))
/gene="crp"
/old_locus_tag="D616_p132001"
/locus_tag="HXC71_RS00005"
/label="HXC71_RS00005"
/ApEinfo_label="HXC71_RS00005"
/ApEinfo_fwdcolor="#00D95A"
/ApEinfo_revcolor="#00D95A"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
/ApEinfo_hidden=""
CDS complement(join(3081..3128,1..585))
/gene="crp"
/old_locus_tag="D616_p132001"
/inference="COORDINATES: similar to AA
sequence:RefSeq:NP_312235.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="cAMP-activated global transcriptional regulator
CRP"
/protein_id="WP_031942540.1"
/translation="MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVK
GSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISYKKFR
QLIQVNPDILMRLSAQMARRLQVTSEKVGNLAFLDVSGRIAQTLLNLAKQPDAMTHPDG
MQIKITRQEIGQIVGCSRQTVGRILKMLEDQNLISAHGKTIVVYGTR"
/locus_tag="HXC71_RS00005(1)"
/label="HXC71_RS00005(1)"
/ApEinfo_label="HXC71_RS00005"
/ApEinfo_fwdcolor="#008065"
/ApEinfo_revcolor="#008065"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
/ApEinfo_hidden=""
primer_bind complement(196..216)
/locus_tag="567_pCAPsAjiIF"
/label="567_pCAPsAjiIF"
/ApEinfo_label="567_pCAPsAjiIF"
/ApEinfo_fwdcolor="#baffa3"
/ApEinfo_revcolor="#ffbaba"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind 221..240
/locus_tag="568_pCAPsAjiIR"
/label="568_pCAPsAjiIR"
/ApEinfo_label="568_pCAPsAjiIR"
/ApEinfo_fwdcolor="#baffa3"
/ApEinfo_revcolor="#ffbaba"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind 1..29
/locus_tag="577"
/label="577"
/ApEinfo_label="577"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind complement(516..544)
/locus_tag="578"
/label="578"
/ApEinfo_label="578"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind 169..193
/locus_tag="468"
/label="468"
/ApEinfo_label="468"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind complement(225..249)
/locus_tag="468(1)"
/label="468(1)"
/ApEinfo_label="468"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
primer_bind complement(250..278)
/locus_tag="494"
/label="494"
/ApEinfo_label="494"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
promoter complement(646..665)
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="44.4"
/fragment="True"
/other="promoter"
/locus_tag="T5 promoter (fragment)"
/label="T5 promoter (fragment)"
/ApEinfo_label="T5 promoter (fragment)"
/ApEinfo_fwdcolor="#EE92FE"
/ApEinfo_revcolor="#EE92FE"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 666..765
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="70.9"
/fragment="True"
/other="misc_feature"
/locus_tag="bom (fragment)"
/label="bom (fragment)"
/ApEinfo_label="bom (fragment)"
/ApEinfo_fwdcolor="#ccff6b"
/ApEinfo_revcolor="#ccff6b"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
rep_origin complement(951..1539)
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="100.0"
/fragment="False"
/other="rep_origin"
/locus_tag="ori"
/label="ori"
/ApEinfo_label="ori"
/ApEinfo_fwdcolor="#2D64FE"
/ApEinfo_revcolor="#2D64FE"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
ncRNA 1394..1498
/note="pLannotate"
/database="Rfam"
/identity="100.0"
/match_length="102.9"
/fragment="False"
/other="ncRNA"
/locus_tag="RNAI"
/label="RNAI"
/ApEinfo_label="RNAI"
/ApEinfo_fwdcolor="#00D308"
/ApEinfo_revcolor="#00D308"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
gene complement(1710..2570)
/old_locus_tag="D616_p132002"
/locus_tag="HXC71_RS00010"
/label="HXC71_RS00010"
/ApEinfo_label="HXC71_RS00010"
/ApEinfo_fwdcolor="#13AAFE"
/ApEinfo_revcolor="#13AAFE"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
/ApEinfo_hidden=""
CDS complement(1710..2570)
/old_locus_tag="D616_p132002"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_032489893.1"
/note="Derived by automated computational analysis using
gene prediction method: Protein Homology."
/codon_start=1
/transl_table=11
/product="class A broad-spectrum beta-lactamase TEM-116"
/protein_id="WP_000027050.1"
/translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRIDAGQEQLGRRIHYSQNDLVEYS
PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
EPELNEAIPNDERDTTMPVAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
LIKHW"
/locus_tag="HXC71_RS00010(1)"
/label="HXC71_RS00010(1)"
/ApEinfo_label="HXC71_RS00010"
/ApEinfo_fwdcolor="#3A93FE"
/ApEinfo_revcolor="#3A93FE"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
/ApEinfo_hidden=""
CDS complement(1710..2570)
/note="pLannotate"
/database="snapgene"
/identity="99.8"
/match_length="100.0"
/fragment="False"
/other="CDS"
/locus_tag="AmpR"
/label="AmpR"
/ApEinfo_label="AmpR"
/ApEinfo_fwdcolor="#00C6C3"
/ApEinfo_revcolor="#00C6C3"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
promoter complement(2571..2675)
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="100.0"
/fragment="False"
/other="promoter"
/locus_tag="AmpR promoter"
/label="AmpR promoter"
/ApEinfo_label="AmpR promoter"
/ApEinfo_fwdcolor="#00891F"
/ApEinfo_revcolor="#00891F"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
CDS 2766..2801
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="18.8"
/fragment="True"
/other="CDS"
/locus_tag="rop (fragment)"
/label="rop (fragment)"
/ApEinfo_label="rop (fragment)"
/ApEinfo_fwdcolor="#A600FA"
/ApEinfo_revcolor="#A600FA"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 2903..2952
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="35.5"
/fragment="True"
/other="misc_feature"
/locus_tag="bom (fragment)(1)"
/label="bom (fragment)(1)"
/ApEinfo_label="bom (fragment)"
/ApEinfo_fwdcolor="#ccff6b"
/ApEinfo_revcolor="#ccff6b"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
terminator complement(3020..3047)
/note="pLannotate"
/database="snapgene"
/identity="100.0"
/match_length="70.0"
/fragment="True"
/other="terminator"
/locus_tag="fd terminator (fragment)"
/label="fd terminator (fragment)"
/ApEinfo_label="fd terminator (fragment)"
/ApEinfo_fwdcolor="#2D64FE"
/ApEinfo_revcolor="#2D64FE"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 3048..3080
/locus_tag="from Ec chromosome"
/label="from Ec chromosome"
/ApEinfo_label="from Ec chromosome"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
protein_bind 166..171
/locus_tag="ZraI"
/label="ZraI"
/ApEinfo_label="ZraI"
/ApEinfo_fwdcolor="#00DF87"
/ApEinfo_revcolor="#00DF87"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
protein_bind 247..252
/locus_tag="EcoRV"
/label="EcoRV"
/ApEinfo_label="EcoRV"
/ApEinfo_fwdcolor="#00D95A"
/ApEinfo_revcolor="#00D95A"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
protein_bind 216..221
/locus_tag="AjiI"
/label="AjiI"
/ApEinfo_label="AjiI"
/ApEinfo_fwdcolor="#008065"
/ApEinfo_revcolor="#008065"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 1..124
/locus_tag="GRAY=pYPKpw"
/label="GRAY=pYPKpw"
/ApEinfo_label="GRAY=pYPKpw"
/ApEinfo_fwdcolor="#d3ced1"
/ApEinfo_revcolor="#d3ced1"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 169..218
/locus_tag="RED"
/label="RED"
/ApEinfo_label="RED"
/ApEinfo_fwdcolor="#ff8282"
/ApEinfo_revcolor="#ff8282"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 219..249
/locus_tag="GREEN"
/label="GREEN"
/ApEinfo_label="GREEN"
/ApEinfo_fwdcolor="#91ff91"
/ApEinfo_revcolor="#91ff91"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 250..302
/locus_tag="YELLOW"
/label="YELLOW"
/ApEinfo_label="YELLOW"
/ApEinfo_fwdcolor="#e1e178"
/ApEinfo_revcolor="#e1e178"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 125..168
/locus_tag="BLUE"
/label="BLUE"
/ApEinfo_label="BLUE"
/ApEinfo_fwdcolor="#c8c0ff"
/ApEinfo_revcolor="#c8c0ff"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
misc_feature 304..544
/locus_tag="PINK=pYPKpw"
/label="PINK=pYPKpw"
/ApEinfo_label="PINK=pYPKpw"
/ApEinfo_fwdcolor="#fc0fc0"
/ApEinfo_revcolor="#db4cd1"
/ApEinfo_graphicformat="arrow_data {{0 0.5 0 1 2 0 0 -1 0
-0.5} {} 0} width 5 offset 0"
ORIGIN
1 gttctgatcc tcgagcatct taagaattcg tcccacggtt tgtctagagc agccgacaat
61 ctggccaatt tcctgacggg taattttgat ttgcatgccg tccgggtgag tcatagcgtc
121 tggttgtttt gccagattca gcagagtctg tgcaatgcgg ccgctgacgt cgaggaacgc
181 caggttgccc actttctcac tagtgacctg cagccgacgt gccatctgtg cagacaaacg
241 catcaggata tccggattta cctgaatcaa ttggcgaaat tttttgtacg aaatttcagc
301 cacttcacag gcggttttcg cacgtaccca tgcgctacgt tcctggccct cttcaaacag
361 gcccagttcg ccaataaaat caccctgatt cagataggag aggatcattt ctttaccctc
421 ttcgtctttg atcagcactg ccacagagcc tttaacgatg tagtacagcg tttccgcttt
481 ttcaccctgg tgaataagcg tgctcttgga tgggtactta tgaatgtggc aatgagacaa
541 gaaccattcg agagtaggat ccgtttgagg tttaccaagt accataagat ccttaaattt
601 ttattatcta gctagatgat aatattatat caagaattgt acctgaaagc aaataaattt
661 tttatctggc ttaactatgc ggcatcagag cagattgtac tgagagtgca ccatatgcgg
721 tgtgaaatac cgcacagatg cgtaaggaga aaataccgca tcaggcgctc ttccgcttcc
781 tcgctcactg actcgctgcg ctcggtcgtt cggctgcggc gagcggtatc agctcactca
841 aaggcggtaa tacggttatc cacagaatca ggggataacg caggaaagaa catgtgagca
901 aaaggccagc aaaaggccag gaaccgtaaa aaggccgcgt tgctggcgtt tttccatagg
961 ctccgccccc ctgacgagca tcacaaaaat cgacgctcaa gtcagaggtg gcgaaacccg
1021 acaggactat aaagatacca ggcgtttccc cctggaagct ccctcgtgcg ctctcctgtt
1081 ccgaccctgc cgcttaccgg atacctgtcc gcctttctcc cttcgggaag cgtggcgctt
1141 tctcatagct cacgctgtag gtatctcagt tcggtgtagg tcgttcgctc caagctgggc
1201 tgtgtgcacg aaccccccgt tcagcccgac cgctgcgcct tatccggtaa ctatcgtctt
1261 gagtccaacc cggtaagaca cgacttatcg ccactggcag cagccactgg taacaggatt
1321 agcagagcga ggtatgtagg cggtgctaca gagttcttga agtggtggcc taactacggc
1381 tacactagaa ggacagtatt tggtatctgc gctctgctga agccagttac cttcggaaaa
1441 agagttggta gctcttgatc cggcaaacaa accaccgctg gtagcggtgg tttttttgtt
1501 tgcaagcagc agattacgcg cagaaaaaaa ggatctcaag aagatccttt gatcttttct
1561 acggggtctg acgctcagtg gaacgaaaac tcacgttaag ggattttggt catgagatta
1621 tcaaaaagga tcttcaccta gatcctttta aattaaaaat gaagttttaa atcaatctaa
1681 agtatatatg agtaaacttg gtctgacagt taccaatgct taatcagtga ggcacctatc
1741 tcagcgatct gtctatttcg ttcatccata gttgcctgac tccccgtcgt gtagataact
1801 acgatacggg agggcttacc atctggcccc agtgctgcaa tgataccgcg agacccacgc
1861 tcaccggctc cagatttatc agcaataaac cagccagccg gaagggccga gcgcagaagt
1921 ggtcctgcaa ctttatccgc ctccatccag tctattaatt gttgccggga agctagagta
1981 agtagttcgc cagttaatag tttgcgcaac gttgttgcca ttgctacagg catcgtggtg
2041 tcacgctcgt cgtttggtat ggcttcattc agctccggtt cccaacgatc aaggcgagtt
2101 acatgatccc ccatgttgtg caaaaaagcg gttagctcct tcggtcctcc gatcgttgtc
2161 agaagtaagt tggccgcagt gttatcactc atggttatgg cagcactgca taattctctt
2221 actgtcatgc catccgtaag atgcttttct gtgactggtg agtactcaac caagtcattc
2281 tgagaatagt gtatgcggcg accgagttgc tcttgcccgg cgtcaatacg ggataatacc
2341 gcgccacata gcagaacttt aaaagtgctc atcattggaa aacgttcttc ggggcgaaaa
2401 ctctcaagga tcttaccgct gttgagatcc agttcgatgt aacccactcg tgcacccaac
2461 tgatcttcag catcttttac tttcaccagc gtttctgggt gagcaaaaac aggaaggcaa
2521 aatgccgcaa aaaagggaat aagggcgaca cggaaatgtt gaatactcat actcttcctt
2581 tttcaatatt attgaagcat ttatcagggt tattgtctca tgagcggata catatttgaa
2641 tgtatttaga aaaataaaca aataggggtt ccgcgcacat ttccccgaaa agtgccacct
2701 gctaagaaac cattattatc atgacattaa cctataaaaa taggcgtatc acgaggccct
2761 ttcgtctcgc gcgtttcggt gatgacggtg aaaacctctg acacatgcag ctcccggaga
2821 cggtcacagc ttgtctgtaa gcggatgccg ggagcagaca agcccgtcag ggcgcgtcag
2881 cgggtgttgg cgggtgtcgg ggctggctta actatgcggc atcagagcag attgtactga
2941 gagtgcacca tagatcctga ggatcggggt gataaatcag tctgcgccac atcgggggaa
3001 acaaaatggc gcgagatcta aaaaaaaagg ctccaaaagg agcctttcgc gctaccaggt
3061 aacgcgccac tccgacggga ttaacgagtg ccgtaaacga cgatggtttt accgtgtgcg
3121 gagatcag
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