Welcome to Benchling!

You're looking at a DNA Sequence. Here are some things you can do with it:

Create an alignment

  1. Create alignments with both DNA and AA sequences.
  2. Bulk-align multiple sequences at once.
  3. Powerful visualization tool to inspect alignments in detail.

Design a primer

Create a translation

Design a CRISPR guide

Assemble and transform a sequence

Create account

Sign up with GoogleI already have an account
Benchling is actively tested against the latest versions of Chrome, Firefox, Safari, and Edge. **It doesn't look like your current browser is supported** - for more information, [click here](/browsers).
Monospace normal
Monospace bold
Advanced Settings
  • 0 feature results
pCrU6.4-SaCas9_sgPSY1/aphVIII
  • Sequence Map
    Editing disabled on read-only sequence.
    gatggcccactacgtgaaccatcaccctaatcaagttttttggggtcgaggtgccgtaaagcactaaatcggaaccctaaagggagcccccgatttagagcttgacggggaaagccggcgaacgtggcgagaaaggaagggaagaaagcgaaaggagcgggcgctagggcgctggctaccgggtgatgcacttggtagtgggattagttcaaaaaaccccagctccacggcatttcgtgatttagccttgggatttccctcgggggctaaatctcgaactgcccctttcggccgcttgcaccgctctttccttcccttctttcgctttcctcgcccgcgatcccgcgaccNaeIBsaAIBtgZINgoMIVF1 ori20406080100120140160
    caagtgtagcggtcacgctgcgcgtaaccaccacacccgccgcgcttaatgcgccgctacagggcgcgtcccattcgccattcaggctgcgcaactgttgggaagggcgatcggtgcgggcctcttcgctattacgccagctggcgaaagggggatgtgctgcaaggcgattaaggttcacatcgccagtgcgacgcgcattggtggtgtgggcggcgcgaattacgcggcgatgtcccgcgcagggtaagcggtaagtccgacgcgttgacaacccttcccgctagccacgcccggagaagcgataatgcggtcgaccgctttccccctacacgacgttccgctaattcFspIPvuIILacZ alphaF1 ori180200220240260280300320340
    ttgggtaacgccagggttttcccagtcacgacgttgtaaaacgacggccagtgaattgtaatacgactcactatagggcgaattggagctccaccgcggtggcggccgctctagaactagtggatcccccgggctgcTCTTTGACGAGCGCTATCACGCTGTGCCATTGGTGGTCaacccattgcggtcccaaaagggtcagtgctgcaacattttgctgccggtcacttaacattatgctgagtgatatcccgcttaacctcgaggtggcgccaccgccggcgagatcttgatcacctagggggcccgacgAGAAACTGCTCGCGATAGTGCGACACGGTAACCACCAGAfeIAleIEagINotISacISmaISpeIXbaIXmaIBamHIBstXITspMIEco53kIPU6.4T7Fragme...fwd))M13-fwd360380400420440460480500520
    CTGTTCTGGAAATCCATGGAAATCCCCTCGACGCAGGCCACCCCGACACCACAGCCAAGCGCAGGTCTGCTGGGCTCTGCGAAATCGAATGCAAGTTTAACTGGTGCGCGCGTTCCCTGGACCCTGATTGGCCCATTTTAGAACATTCATGAAGTTGATATACTGCAGATATGCGGACAAGACCTTTAGGTACCTTTAGGGGAGCTGCGTCCGGTGGGGCTGTGGTGTCGGTTCGCGTCCAGACGACCCGAGACGCTTTAGCTTACGTTCAAATTGACCACGCGCGCAAGGGACCTGGGACTAACCGGGTAAAATCTTGTAAGTACTTCAACTATATGACGTCTATACGCBarIBsmINcoIPstIStyIBssHIIPU6.4540560580600620640660680700
    AGAGATAATAAACTAAGCAGTCGGAGGTCGGCCATGCCTCGTGACAGCGGCGTCAACTCCGAGTTCCTGCGGTTCCTGTAGCGCATGAGCATGGGTCGCGTGTGGTGATGACCAGGAACGGCGGCGGCAGGAAGCGGAAGAGGAGGAGGTCAGGAGCAAGAGCTAAGCAGGTAGGTCTCTATTATTTGATTCGTCAGCCTCCAGCCGGTACGGAGCACTGTCGCCGCAGTTGAGGCTCAAGGACGCCAAGGACATCGCGTACTCGTACCCAGCGCACACCACTACTGGTCCTTGCCGCCGCCGTCCTTCGCCTTCTCCTCCTCCAGTCCTCGTTCTCGATTCGTCCATCCPU6.4720740760780800820840860
    AGAACGAGGGAGCAGAGTACTTGTGGCTGGGAGGCCACCGGTGCCCTAGCAGGGGCACGCGCCGGTGACGTGAGCAGGAGGAGAAGGCAGTATACGCACTTGACACGGCTTCAGGAGGCGCACAGGAGGCGGAGGCCGCCACGAACCAGCAGAGGAAGCAATAAATTGTCTTACTTCTTGCTCCCTCGTCTCATGAACACCGACCCTCCGGTGGCCACGGGATCGTCCCCGTGCGCGGCCACTGCACTCGTCCTCCTCTTCCGTCATATGCGTGAACTGTGCCGAAGTCCTCCGCGTGTCCTCCGCCTCCGGCGGTGCTTGGTCGTCTCCTTCGTTATTTAACAGAATGAAgeIBarISgrAISgrAIBstZ17IPU6.48809009209409609801,0001,0201,040
    ATATATATATTTGGCCTATGAGAATTacttGacgaggcttcaagtggagcgggttttagtactctggaaacagaatctactaaaacaaggcaaaatgccgtgtttatctcgtcaacttgttggcgagattttttcccgggCTGCAGGAATTCGAtatcaagcttgcatgccgggcTATATATATAAACCGGATACTCTTAAtgaaCtgctccgaagttcacctcgcccaaaatcatgagacctttgtcttagatgattttgttccgttttacggcacaaatagagcagttgaacaaccgctctaaaaaagggcccGACGTCCTTAAGCTatagttcgaacgtacggcccgAscIPstISmaISphIXmaIEcoRIEcoRVTspMIBssHIIHindIIISaCas9 ScaffoldPU6.4sgPSY1RBCS...tor1,0601,0801,1001,1201,1401,1601,1801,2001,220
    gcgccagaaggagcgcagccaaaccaggatgatgtttgatggggtatttgagcacttgcaacccttatccggaagccccctggcccacaaaggctaggcgccaatgcaagcagttcgcatgcagcccctggagcggtgccctcctgataaaccggccagggggcctatgttctttcgcggtcttcctcgcgtcggtttggtcctactacaaactaccccataaactcgtgaacgttgggaataggccttcgggggaccgggtgtttccgatccgcggttacgttcgtcaagcgtacgtcggggacctcgccacgggaggactatttggccggtcccccggatacaagaaaKasINarISfoISphIBspEIPluTIRBCS2 Promotor1,2401,2601,2801,3001,3201,3401,3601,3801,400
    acttttttacaagagaagtcactcaacatcttaaaatggccaggtgagtcgacgagcaagcccggcggatcaggcagcgtgcttgcagatttgacttgcaacgcccgcattgtgtcgacgaaggcttttggctcctctgtcgctgtctcaagcagcatctaaccctgcgtcgccgtgaaaaaatgttctcttcagtgagttgtagaattttaccggtccactcagctgctcgttcgggccgcctagtccgtcgcacgaacgtctaaactgaacgttgcgggcgtaacacagctgcttccgaaaaccgaggagacagcgacagagttcgtcgtagattgggacgcagcggcMscIRbcS2 Intron15´UTR RBCS2RBC...or1,4201,4401,4601,4801,5001,5201,5401,560
    tttccatttgcaggatgctcgagattcgaagcatggacgatgcgttgcgtgcactgcggggtcggtatcccggttgtgagtgggttgttgtggaggatggggcctcgggggctggtgtttatcggcttcggggtggtgggcgggagttgtttgtcaaggtggcagctctgggggcaaaggtaaacgtcctacgagctctaagcttcgtacctgctacgcaacgcacgtgacgccccagccatagggccaacactcacccaacaacacctcctaccccggagcccccgaccacaaatagccgaagccccaccacccgccctcaacaaacagttccaccgtcgagacccccgTliIXhoIBstBIPaeR7IMD2DA4LR6AL8RG10RY12PG14CE16WV18VV20ED22GA24SG26AG28VY30RL32RG34GG36RE38LF40VK42VA44AL46GA481608-2411APHVIIIRbc...n11,5801,6001,6201,6401,6601,6801,7001,7201,740
    cggggtgggcttgttgggtgaggctgagcggctggtgtggttggcggaggtggggattcccgtacctcgtgttgtggagggtggtggggacgagagggtcgcctggttggtcaccgaagcggttccggggcgtccggccagtgcgcggtggccgcgggagcagcggctggacgtggccccacccgaacaacccactccgactcgccgaccacaccaaccgcctccacccctaagggcatggagcacaacacctcccaccacccctgctctcccagcggaccaaccagtggcttcgccaaggccccgcaggccggtcacgcgccaccggcgccctcgtcgccgacctgcacXmnIGV50GL52LG54EA56ER58LV60WL62AE64VG66IP68VP70RV72VE74GG76GD78ER80VA82WL84VT86EA88VP90GR92PA94SA96RW98PR100EQ102RL104DV1061608-2411APHVIII1,7601,7801,8001,8201,8401,8601,8801,9001,920
    gcggtggcgctcgcggggctcgctcgttcgctgcacgcgctggactgggagcggtgtccgttcgatcgcagtctcgcggtgacggtgccgcaggcggcccgtgctgtcgctgaagggagcgtcgacttggaggatctggacgaggagcggaaggggtggtcgggggagcggcttccgccaccgcgagcgccccgagcgagcaagcgacgtgcgcgacctgaccctcgccacaggcaagctagcgtcagagcgccactgccacggcgtccgccgggcacgacagcgacttccctcgcagctgaacctcctagacctgctcctcgccttccccaccagccccctcgccgaagBsgIAV108AL110AG112LA114RS116LH118AL120DW122ER124CP126FD128RS130LA132VT134VP136QA138AR140AV142AE144GS146VD148LE150DL152DE154ER156KG158WS160GE162RL1641608-2411APHVIII1,9401,9601,9802,0002,0202,0402,0602,0802,100
    tcgccgagctggagcggactcggcctgcggacgaggatctggcggtttgccacggtGacctgtgcccggacaacgtgctgctcgaccctcgtacctgcgaggtgaccgggctgatcgacgtggggcgggtcggccgtgcggaccggcactccgatctcgcgctggtgctgcgcgaagcggctcgacctcgcctgagccggacgcctgctcctagaccgccaaacggtgccaCtggacacgggcctgttgcacgacgagctgggagcatggacgctccactggcccgactagctgcaccccgcccagccggcacgcctggccgtgaggctagagcgcgaccacgacgcgctBaeIEagIRsrIILA166EL168ER170TR172PA174DE176DL178AV180CH182GD184LC186PD188NV190LL192DP194RT196CE198VT200GL202ID204VG206RV208GR210AD212RH214SD216LA218LV220LR222E1608-2411APHVIII2,1202,1402,1602,1802,2002,2202,2402,260
    gctggcccacgaggaggacccgtggttcgggccggagtgttccgcggcgttcctgcgggagtacgggcgcgggtgggatggggcggtatcggaggaaaagctggcgttttaccggctgttggacgagttcttctgagggacctgatggtgttggtggctgggtagggttgcgtcgcgaccgggtgctcctcctgggcaccaagcccggcctcacaaggcgccgcaaggacgccctcatgcccgcgcccaccctaccccgccatagcctccttttcgaccgcaaaatggccgacaacctgctcaagaagactccctggactaccacaaccaccgacccatcccaacgcagcAloIPpuMIPpuMIL224AH226EE228DP230WF232GP234EC236SA238AF240LR242EY244GR246GW248DG250AV252SE254EK256LA258FY260RL262LD264EF266F*2681608-2411APHVIII2,2802,3002,3202,3402,3602,3802,4002,4202,440
    cgtgggtgacagcacagtgtggacgttgggatccccgctccgtgtaaatggaggcgctcgttgatctgagccttgccccctgacgaacggcggtggatggaagatactgctctcaagtgctgaagcggtagcttagctccccgtttcgtgctgatcagtctttttcaacacgtaagcacccactgtcgtgtcacacctgcaaccctaggggcgaggcacatttacctccgcgagcaactagactcggaacgggggactgcttgccgccacctaccttctatgacgagagttcacgacttcgccatcgaatcgaggggcaaagcacgactagtcagaaaaagttgtgcattBclIBamHIBsaAIAflIIIRbcs2\Term.2,4602,4802,5002,5202,5402,5602,5802,6002,620
    aaagcggaggagttttgcaattttgttggttgtaacgatcctccgttgattttggcctctttctccatgggcgggctgggcgtatttgaagcgggtacccagcttttgttccctttagtgagggttaatttcgagcttggcgtaatcatggtcatagctgtttcctgtgtgaaattttcgcctcctcaaaacgttaaaacaaccaacattgctaggaggcaactaaaaccggagaaagaggtacccgcccgacccgcataaacttcgcccatgggtcgaaaacaagggaaatcactcccaattaaagctcgaaccgcattagtaccagtatcgacaaaggacacactttaKpnINcoIStyIXcmIAcc65IRbcs2\Term.Terminator HairpinM13-revT3T3 promoter2,6402,6602,6802,7002,7202,7402,7602,7802,800
    tgttatccgctcacaattccacacaacatacgagccggaagcataaagtgtaaagcctggggtgcctaatgagtgagctaactcacattaattgcgttgcgctcactgcccgctttccagtcgggaaacctgtcgtgccagctgcattaatgaatcggccaacgcgcggggagagacaataggcgagtgttaaggtgtgttgtatgctcggccttcgtatttcacatttcggaccccacggattactcactcgattgagtgtaattaacgcaacgcgagtgacgggcgaaaggtcagccctttggacagcacggtcgacgtaattacttagccggttgcgcgcccctctcPvuIIlac promoterLacO2,8202,8402,8602,8802,9002,9202,9402,960
    gcggtttgcgtattgggcgctcttccgcttcctcgctcactgactcgctgcgctcggtcgttcggctgcggcgagcggtatcagctcactcaaaggcggtaatacggttatccacagaatcaggggataacgcaggaaagaacatgtgagcaaaaggccagcaaaaggccaggaacgccaaacgcataacccgcgagaaggcgaaggagcgagtgactgagcgacgcgagccagcaagccgacgccgctcgccatagtcgagtgagtttccgccattatgccaataggtgtcttagtcccctattgcgtcctttcttgtacactcgttttccggtcgttttccggtccttPciISapIBspQIAflIII2,9803,0003,0203,0403,0603,0803,1003,1203,140
    ccgtaaaaaggccgcgttgctggcgtttttccataggctccgcccccctgacgagcatcacaaaaatcgacgctcaagtcagaggtggcgaaacccgacaggactataaagataccaggcgtttccccctggaagctccctcgtgcgctctcctgttccgaccctgccgcttaccggcatttttccggcgcaacgaccgcaaaaaggtatccgaggcggggggactgctcgtagtgtttttagctgcgagttcagtctccaccgctttgggctgtcctgatatttctatggtccgcaaagggggaccttcgagggagcacgcgagaggacaaggctgggacggcgaatggColE1 origin3,1603,1803,2003,2203,2403,2603,2803,3003,320
    ggatacctgtccgcctttctcccttcgggaagcgtggcgctttctcatagctcacgctgtaggtatctcagttcggtgtaggtcgttcgctccaagctgggctgtgtgcacgaaccccccgttcagcccgaccgctgcgccttatccggtaactatcgtcttgagtccaacccggcctatggacaggcggaaagagggaagcccttcgcaccgcgaaagagtatcgagtgcgacatccatagagtcaagccacatccagcaagcgaggttcgacccgacacacgtgcttggggggcaagtcgggctggcgacgcggaataggccattgatagcagaactcaggttgggccColE1 origin3,3403,3603,3803,4003,4203,4403,4603,4803,500
    taagacacgacttatcgccactggcagcagccactggtaacaggattagcagagcgaggtatgtaggcggtgctacagagttcttgaagtggtggcctaactacggctacactagaaggacagtatttggtatctgcgctctgctgaagccagttaccttcggaaaaagagttggattctgtgctgaatagcggtgaccgtcgtcggtgaccattgtcctaatcgtctcgctccatacatccgccacgatgtctcaagaacttcaccaccggattgatgccgatgtgatcttcctgtcataaaccatagacgcgagacgacttcggtcaatggaagcctttttctcaaccColE1 origin3,5203,5403,5603,5803,6003,6203,6403,660
    tagctcttgatccggcaaacaaaccaccgctggtagcggtggtttttttgtttgcaagcagcagattacgcgcagaaaaaaaggatctcaagaagatcctttgatcttttctacggggtctgacgctcagtggaacgaaaactcacgttaagggattttggtcatgagattatcaatcgagaactaggccgtttgtttggtggcgaccatcgccaccaaaaaaacaaacgttcgtcgtctaatgcgcgtctttttttcctagagttcttctaggaaactagaaaagatgccccagactgcgagtcaccttgcttttgagtgcaattccctaaaaccagtactctaatagtColE1 origin3,6803,7003,7203,7403,7603,7803,8003,8203,840
    aaaaggatcttcacctagatccttttaaattaaaaatgaagttttaaatcaatctaaagtatatatgagtaaacttggtctgacagttaccaatgcttaatcagtgaggcacctatctcagcgatctgtctatttcgttcatccatagttgcctgactccccgtcgtgtagataattttcctagaagtggatctaggaaaatttaatttttacttcaaaatttagttagatttcatatatactcatttgaaccagactgtcaatggttacgaattagtcactccgtggatagagtcgctagacagataaagcaagtaggtatcaacggactgaggggcagcacatctattAhdIAmpR3,8603,8803,9003,9203,9403,9603,9804,0004,020
    ctacgatacgggagggcttaccatctggccccagtgctgcaatgataccgcgagacccacgctcaccggctccagatttatcagcaataaaccagccagccggaagggccgagcgcagaagtggtcctgcaactttatccgcctccatccagtctattaattgttgccgggaagcgatgctatgccctcccgaatggtagaccggggtcacgacgttactatggcgctctgggtgcgagtggccgaggtctaaatagtcgttatttggtcggtcggccttcccggctcgcgtcttcaccaggacgttgaaataggcggaggtaggtcagataattaacaacggcccttcgBsaIBsrDIAmpR4,0404,0604,0804,1004,1204,1404,1604,1804,200
    tagagtaagtagttcgccagttaatagtttgcgcaacgttgttgccattgctacaggcatcgtggtgtcacgctcgtcgtttggtatggcttcattcagctccggttcccaacgatcaaggcgagttacatgatcccccatgttgtgcaaaaaagcggttagctccttcggtcctatctcattcatcaagcggtcaattatcaaacgcgttgcaacaacggtaacgatgtccgtagcaccacagtgcgagcagcaaaccataccgaagtaagtcgaggccaagggttgctagttccgctcaatgtactagggggtacaacacgttttttcgccaatcgaggaagccaggaAclIFspIBsrDIAmpR4,2204,2404,2604,2804,3004,3204,3404,360
    ccgatcgttgtcagaagtaagttggccgcagtgttatcactcatggttatggcagcactgcataattctcttactgtcatgccatccgtaagatgcttttctgtgactggtgagtactcaaccaagtcattctgagaatagtgtatgcggcgaccgagttgctcttgcccggcgtggctagcaacagtcttcattcaaccggcgtcacaatagtgagtaccaataccgtcgtgacgtattaagagaatgacagtacggtaggcattctacgaaaagacactgaccactcatgagttggttcagtaagactcttatcacatacgccgctggctcaacgagaacgggccgcaAmpR4,3804,4004,4204,4404,4604,4804,5004,5204,540
    caatacgggataataccgcgccacatagcagaactttaaaagtgctcatcattggaaaacgttcttcggggcgaaaactctcaaggatcttaccgctgttgagatccagttcgatgtaacccactcgtgcacccaactgatcttcagcatcttttactttcaccagcgtttctgggttatgccctattatggcgcggtgtatcgtcttgaaattttcacgagtagtaaccttttgcaagaagccccgcttttgagagttcctagaatggcgacaactctaggtcaagctacattgggtgagcacgtgggttgactagaagtcgtagaaaatgaaagtggtcgcaaagaccAclIXmnIAmpR4,5604,5804,6004,6204,6404,6604,6804,7004,720
    gtgagcaaaaacaggaaggcaaaatgccgcaaaaaagggaataagggcgacacggaaatgttgaatactcatactcttcctttttcaatattattgaagcatttatcagggttattgtctcatgagcggatacatatttgaatgtatttagaaaaataaacaaataggggttccgcactcgtttttgtccttccgttttacggcgttttttcccttattcccgctgtgcctttacaacttatgagtatgagaaggaaaaagttataataacttcgtaaatagtcccaataacagagtactcgcctatgtataaacttacataaatctttttatttgtttatccccaaggcSspI4,7404,7604,7804,8004,8204,8404,8604,8804,900
    cgcacatttccccgaaaagtgccacctaaattgtaagcgttaatattttgttaaaattcgcgttaaatttttgttaaatcagctcattttttaaccaataggccgaaatcggcaaaatcccttataaatcaaaagaatagaccgagatagggttgagtgttgttccagtttggaagcgtgtaaaggggcttttcacggtggatttaacattcgcaattataaaacaattttaagcgcaatttaaaaacaatttagtcgagtaaaaaattggttatccggctttagccgttttagggaatatttagttttcttatctggctctatcccaactcacaacaaggtcaaaccttPsiISspICspCIF1 ori4,9204,9404,9604,9805,0005,0205,0405,060
    caagagtccactattaaagaacgtggactccaacgtcaaagggcgaaaaaccgtctatcagggcgttctcaggtgataatttcttgcacctgaggttgcagtttcccgctttttggcagatagtcccgAloIF1 ori5,0805,1005,120
    • Plasmid
    • Assembly history
    • Relevant Items
    • Metadata
    • Description
    • Linear Map
    Editing disabled on read-only sequence.
    5139 bp37504000425045004750500025050075010001250RBCS2 PromotorAmpRaaacLacZ alpha,F1 ori,BsaAI,BtgZI,NgoMIV,NaeI,FspIM13-fwd,T7,PvuII,Eco53kI,SacI,AleI,BstXI,EagI,NotI,XbaI,SpeI,BamHI,TspMI,+1Fragment (chromosome_15 (PU6.4_Primer_rev -PU6.4_Primer_fwd)),SmaI,AfeI,+2BsmI,BssHII,BarI,PstIPU6.4AgeI,SgrAISgrAI,BarI,BstZ17Iactt,sgPSY1SaCas9 Scaffold,TspMI,XmaI,SmaI,PstI,EcoRIEcoRV5´UTR HSP70A,HindIII,SphI,AscI,BssHIIAhdIBsaIBsrDIFspIAclIBsrDIAclI,XmnISspISspI,CspCI,PsiI,AloI

    Welcome to Benchling!

    Sign in to view data.

    New digest

    Saved digests

    Enzyme AatII
    Enzyme lists
    Cut sites visible on maps
    Find enzyme
    Clear selected
    Name Cuts
    Selected Color
    Show enzymes that cut

    Primers

    Pairs

    Create primers
    Attach existing
    Detach all primers
    Primer Position Product size

    Version history

     Show full history
    Change User Timestamp

    Sequence Alignments

    Create new alignment
    Saved alignments

    Sequence Info

    Tags

    Name
    Parent version
    Folder
    Topology
    Start index
    Locked
    Created
    --
    Length
    --
    Export data
    Download
    Split Workspace
    Bases
    5139