Addgene tdTomato-Clathrin-15 - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: tdTomato-Clathrin-15


Map View

2000 1500 1000 500 End (2191) BsaBI * (2171) BclI * (2166) XbaI * (2156) BamHI (2144) DrdI (2131) BtsI - BtsαI (2081) DraIII (2025) BsaI (2003) BpmI (1934) BsrDI (1773) TsoI (1752) ApaI (1682) PspOMI (1678) BfuAI - PaqCI - BspMI (1654) NaeI (1651) NgoMIV (1649) BsiEI (1581) NotI - EagI (1578) EciI (1577) MmeI (1518) HincII (1504) AccI (1503) SalI (1502) ApoI - EcoRI (1492) BstBI (1490) HindIII (1485) SacI (1483) Eco53kI (1481) XhoI - PaeR7I (1476) BglII (1472) BpuEI (1467) BspEI (1463) TatI - BsrGI (1455) MspA1I (738) BmtI (17) NheI (13) AatII (6) ZraI (4) Start (0) tdTomato Kozak sequence tdTomato-Clathrin-15 2191 bp

Sequence View

BmtINheIStart (0) ZraIAatII 60 1 5 MVSKGEEVI tdTomato Kozak sequence DVSPLAYRVATMVSKGEEVI *RVPDGGHHALALLDD t g a c g t c a g t c c g c t a g c g t a c c g g g t c g c c a c c a t g g t g a g c a a g g g c g a g g a g g t c a t a c t g c a g t c a g g c g a t c g c a t g g c c c a g c g g t g g t a c c a c t c g t t c c c g c t c c t c c a g t a

120 10 15 20 25 KEFMRFKVRMEGSMNGHEFE tdTomato KEFMRFKVRMEGSMNGHEFE FLEHAELHAHLAGHVAVLEL c a a a g a g t t c a t g c g c t t c a a g g t g c g c a t g g a g g g c t c c a t g a a c g g c c a c g a g t t c g a g t t t c t c a a g t a c g c g a a g t t c c a c g c g t a c c t c c c g a g g t a c t t g c c g g t g c t c a a g c t

180 30 35 40 45 IEGEGEGRPYEGTQTAKLKV tdTomato IEGEGEGRPYEGTQTAKLKV DLALALAAGVLAGLGGLQLH g a t c g a g g g c g a g g g c g a g g g c c g c c c c t a c g a g g g c a c c c a g a c c g c c a a g c t g a a g g t c t a g c t c c c g c t c c c g c t c c c g g c g g g g a t g c t c c c g t g g g t c t g g c g g t t c g a c t t c c a

240 50 55 60 65 TKGGPLPFAWDILSPQFMYG tdTomato TKGGPLPFAWDILSPQFMYG GLAAGQGEGPVDQGGLEHVA g a c c a a g g g c g g c c c c c t g c c c t t c g c c t g g g a c a t c c t g t c c c c c c a g t t c a t g t a c g g c t g g t t c c c g c c g g g g g a c g g g a a g c g g a c c c t g t a g g a c a g g g g g g t c a a g t a c a t g c c

300 70 75 80 85 SKAYVKHPADIPDYKKLSFP tdTomato SKAYVKHPADIPDYKKLSFP GLRVHLVGGVDGIVLLQGEG c t c c a a g g c g t a c g t g a a g c a c c c c g c c g a c a t c c c c g a t t a c a a g a a g c t g t c c t t c c c g a g g t t c c g c a t g c a c t t c g t g g g g c g g c t g t a g g g g c t a a t g t t c t t c g a c a g g a a g g g

360 90 95 100 105 EGFKWERVMNFEDGGLVTVT tdTomato EGFKWERVMNFEDGGLVTVT LAELPLAHHVELVATQHGHG c g a g g g c t t c a a g t g g g a g c g c g t g a t g a a c t t c g a g g a c g g c g g t c t g g t g a c c g t g a c g c t c c c g a a g t t c a c c c t c g c g c a c t a c t t g a a g c t c c t g c c g c c a g a c c a c t g g c a c t g

420 110 115 120 125 QDSSLQDGTLIYKVKMRGTN tdTomato QDSSLQDGTLIYKVKMRGTN LVGGQLVARQDVLHLHAAGV c c a g g a c t c c t c c c t g c a g g a c g g c a c g c t g a t c t a c a a g g t g a a g a t g c g c g g c a c c a a g g t c c t g a g g a g g g a c g t c c t g c c g t g c g a c t a g a t g t t c c a c t t c t a c g c g c c g t g g t t

480 130 135 140 145 FPPDGPVMQKKTMGWEASTE tdTomato FPPDGPVMQKKTMGWEASTE EGGVAGYHLLLGHAPLGGGL c t t c c c c c c c g a c g g c c c c g t a a t g c a g a a g a a g a c c a t g g g c t g g g a g g c c t c c a c c g a g a a g g g g g g g c t g c c g g g g c a t t a c g t c t t c t t c t g g t a c c c g a c c c t c c g g a g g t g g c t

540 150 155 160 165 RLYPRDGVLKGEIHQALKLK tdTomato RLYPRDGVLKGEIHQALKLK AQVGAVAHQLALDVLGQLQL g c g c c t g t a c c c c c g c g a c g g c g t g c t g a a g g g c g a g a t c c a c c a g g c c c t g a a g c t g a a c g c g g a c a t g g g g g c g c t g c c g c a c g a c t t c c c g c t c t a g g t g g t c c g g g a c t t c g a c t t

600 170 175 180 185 DGGHYLVEFKTIYMAKKPVQ tdTomato DGGHYLVEFKTIYMAKKPVQ VAAVVQHLELGDVHGLLGHL g g a c g g c g g c c a c t a c c t g g t g g a g t t c a a g a c c a t c t a c a t g g c c a a g a a g c c c g t g c a c c t g c c g c c g g t g a t g g a c c a c c t c a a g t t c t g g t a g a t g t a c c g g t t c t t c g g g c a c g t

660 190 195 200 205 LPGYYYVDTKLDITSHNEDY tdTomato LPGYYYVDTKLDITSHNEDY QGAVVVHVGLQVDGGVVLVV a c t g c c c g g c t a c t a c t a c g t g g a c a c c a a g c t g g a c a t c a c c t c c c a c a a c g a g g a c t a t g a c g g g c c g a t g a t g a t g c a c c t g t g g t t c g a c c t g t a g t g g a g g g t g t t g c t c c t g a t

720 210 215 220 225 TIVEQYERSEGRHHLFLGHG tdTomato TIVEQYERSEGRHHLFLGHG GDHFLVLAGLAAVVQEQPMA c a c c a t c g t g g a a c a g t a c g a g c g c t c c g a g g g c c g c c a c c a c c t g t t c c t g g g g c a t g g g t g g t a g c a c c t t g t c a t g c t c g c g a g g c t c c c g g c g g t g g t g g a c a a g g a c c c c g t a c c

MspA1I 780 230 235 240 245 TGSTGSGSSGTASSEDNNMA tdTomato TGSTGSGSSGTASSEDNNMA GAAGAAAAGAGGGGLVVVHG c a c c g g c a g c a c c g g c a g c g g c a g c t c c g g c a c c g c c t c c t c c g a g g a c a a c a a c a t g g c g t g g c c g t c g t g g c c g t c g c c g t c g a g g c c g t g g c g g a g g a g g c t c c t g t t g t t g t a c c g

840 250 255 260 265 VIKEFMRFKVRMEGSMNGHE tdTomato VIKEFMRFKVRMEGSMNGHE DDFLEHAELHAHLAGHVAVL c g t c a t c a a a g a g t t c a t g c g c t t c a a g g t g c g c a t g g a g g g c t c c a t g a a c g g c c a c g a g c a g t a g t t t c t c a a g t a c g c g a a g t t c c a c g c g t a c c t c c c g a g g t a c t t g c c g g t g c t

900 270 275 280 285 FEIEGEGEGRPYEGTQTAKL tdTomato FEIEGEGEGRPYEGTQTAKL ELDLALALAAGVLAGLGGLQ g t t c g a g a t c g a g g g c g a g g g c g a g g g c c g c c c c t a c g a g g g c a c c c a g a c c g c c a a g c t c a a g c t c t a g c t c c c g c t c c c g c t c c c g g c g g g g a t g c t c c c g t g g g t c t g g c g g t t c g a

960 290 295 300 305 KVTKGGPLPFAWDILSPQFM tdTomato KVTKGGPLPFAWDILSPQFM LHGLAAGQGEGPVDQGGLEH g a a g g t g a c c a a g g g c g g c c c c c t g c c c t t c g c c t g g g a c a t c c t g t c c c c c c a g t t c a t c t t c c a c t g g t t c c c g c c g g g g g a c g g g a a g c g g a c c c t g t a g g a c a g g g g g g t c a a g t a

1020 310 315 320 325 YGSKAYVKHPADIPDYKKLS tdTomato YGSKAYVKHPADIPDYKKLS VAGLRVHLVGGVDGIVLLQG g t a c g g c t c c a a g g c g t a c g t g a a g c a c c c c g c c g a c a t c c c c g a t t a c a a g a a g c t g t c c a t g c c g a g g t t c c g c a t g c a c t t c g t g g g g c g g c t g t a g g g g c t a a t g t t c t t c g a c a g

1080 330 335 340 345 FPEGFKWERVMNFEDGGLVT tdTomato FPEGFKWERVMNFEDGGLVT EGLAELPLAHHVELVATQHG c t t c c c c g a g g g c t t c a a g t g g g a g c g c g t g a t g a a c t t c g a g g a c g g c g g t c t g g t g a c g a a g g g g c t c c c g a a g t t c a c c c t c g c g c a c t a c t t g a a g c t c c t g c c g c c a g a c c a c t g

1140 350 355 360 365 VTQDSSLQDGTLIYKVKMRG tdTomato VTQDSSLQDGTLIYKVKMRG HGLVGGQLVARQDVLHLHAA c g t g a c c c a g g a c t c c t c c c t g c a g g a c g g c a c g c t g a t c t a c a a g g t g a a g a t g c g c g g g c a c t g g g t c c t g a g g a g g g a c g t c c t g c c g t g c g a c t a g a t g t t c c a c t t c t a c g c g c c

1200 370 375 380 385 TNFPPDGPVMQKKTMGWEAS tdTomato TNFPPDGPVMQKKTMGWEAS GVEGGVAGYHLLLGHAPLGG c a c c a a c t t c c c c c c c g a c g g c c c c g t a a t g c a g a a g a a g a c c a t g g g c t g g g a g g c c t c g t g g t t g a a g g g g g g g c t g c c g g g g c a t t a c g t c t t c t t c t g g t a c c c g a c c c t c c g g a g

1260 390 395 400 405 TERLYPRDGVLKGEIHQALK tdTomato TERLYPRDGVLKGEIHQALK GLAQVGAVAHQLALDVLGQL c a c c g a g c g c c t g t a c c c c c g c g a c g g c g t g c t g a a g g g c g a g a t c c a c c a g g c c c t g a a g t g g c t c g c g g a c a t g g g g g c g c t g c c g c a c g a c t t c c c g c t c t a g g t g g t c c g g g a c t t

1320 410 415 420 425 LKDGGHYLVEFKTIYMAKKP tdTomato LKDGGHYLVEFKTIYMAKKP QLVAAVVQHLELGDVHGLLG g c t g a a g g a c g g c g g c c a c t a c c t g g t g g a g t t c a a g a c c a t c t a c a t g g c c a a g a a g c c c g a c t t c c t g c c g c c g g t g a t g g a c c a c c t c a a g t t c t g g t a g a t g t a c c g g t t c t t c g g

1380 430 435 440 445 VQLPGYYYVDTKLDITSHNE tdTomato VQLPGYYYVDTKLDITSHNE HLQGAVVVHVGLQVDGGVVL c g t g c a a c t g c c c g g c t a c t a c t a c g t g g a c a c c a a g c t g g a c a t c a c c t c c c a c a a c g a g c a c g t t g a c g g g c c g a t g a t g a t g c a c c t g t g g t t c g a c c t g t a g t g g a g g g t g t t g c t

1440 450 455 460 465 DYTIVEQYERSEGRHHLFLY tdTomato DYTIVEQYERSEGRHHLFLY VVGDHFLVLAGLAAVVQEQV g g a c t a c a c c a t c g t g g a a c a g t a c g a g c g c t c c g a g g g c c g c c a c c a c c t g t t c c t g t a c c t g a t g t g g t a g c a c c t t g t c a t g c t c g c g a g g c t c c c g g c g g t g g t g g a c a a g g a c a t

BspEIBpuEIBglIIPaeR7IXhoIEco53kISacIHindIIIBstBIEcoRIApoIBsrGITatI 1500 470 475 GMDELYK (in frame with tdTomato) SGLRSRAQASNSA tdTomato GMDELYKSGLRSRAQASNSA AHVLQVLGSESRSSLSRIRC c g g c a t g g a c g a g c t g t a c a a g t c c g g a c t c a g a t c t c g a g c t c a a g c t t c g a a t t c t g c g c c g t a c c t g c t c g a c a t g t t c a g g c c t g a g t c t a g a g c t c g a g t t c g a a g c t t a a g a c g

MmeISalIAccIHincII 1560 (in frame with tdTomato) VDMADDFGFFSSSESGAPEA VDMADDFGFFSSSESGAPEA DVHSIVKAEERRRLTTGRLR a g t c g a c a t g g c t g a t g a c t t t g g c t t c t t c t c g t c g t c g g a g a g t g g t g c c c c g g a g g c t c a g c t g t a c c g a c t a c t g a a a c c g a a g a a g a g c a g c a g c c t c t c a c c a c g g g g c c t c c g

EciIEagINotIBsiEI 1620 (in frame with tdTomato) AEEDPAAAFLAQQESEIAGI AEEDPAAAFLAQQESEIAGI RLLVRRGGEQGLLLALNCAY g g c g g a g g a g g a c c c g g c g g c c g c c t t c c t g g c c c a g c a g g a g a g c g a g a t t g c a g g c a t c c g c c t c c t c c t g g g c c g c c g g c g g a a g g a c c g g g t c g t c c t c t c g c t c t a a c g t c c g t a

PspOMINgoMIVNaeIBspMIPaqCIBfuAI 1680 (in frame with tdTomato) ENDEGFGAPAGSHAAPAQPG ENDEGFGAPAGSHAAPAQPG LVVLAEPCRGAAM a g a g a a c g a c g a g g g c t t c g g g g c a c c t g c c g g c a g c c a t g c g g c c c c c g c a c a g c c g g g t c t c t t g c t g c t c c c g a a g c c c c g t g g a c g g c c g t c g g t a c g c c g g g g g c g t g t c g g c c c

ApaI 1740 (in frame with tdTomato) PTSGAGSEDMGTTVNGDVFQ PTSGAGSEDMGTTVNGDVFQ c c c c a c g a g t g g g g c t g g t t c t g a g g a c a t g g g g a c c a c a g t c a a t g g a g a t g t g t t t c a g g g g t g c t c a c c c c g a c c a a g a c t c c t g t a c c c c t g g t g t c a g t t a c c t c t a c a c a a a g t

BsrDITsoI 1800 (in frame with tdTomato) EANGPADGYAAIAQADRLTQ EANGPADGYAAIAQADRLTQ g g a g g c c a a c g g t c c t g c t g a t g g c t a c g c a g c c a t t g c c c a g g c t g a c a g g c t g a c c c a c c t c c g g t t g c c a g g a c g a c t a c c g a t g c g t c g g t a a c g g g t c c g a c t g t c c g a c t g g g t

1860 (in frame with tdTomato) EPESIRKWREEQRKRLQELD EPESIRKWREEQRKRLQELD g g a g c c t g a g a g c a t c c g c a a g t g g c g a g a g g a g c a g a g g a a a c g g c t g c a a g a g c t g g a c c t c g g a c t c t c g t a g g c g t t c a c c g c t c t c c t c g t c t c c t t t g c c g a c g t t c t c g a c c t

1920 (in frame with tdTomato) AASKVTEQEWREKAKKDLEE AASKVTEQEWREKAKKDLEE t g c t g c a t c t a a g g t c a c g g a a c a g g a a t g g c g g g a g a a g g c c a a g a a g g a c c t g g a g g a a c g a c g t a g a t t c c a g t g c c t t g t c c t t a c c g c c c t c t t c c g g t t c t t c c t g g a c c t c c t

BpmI 1980 (in frame with tdTomato) WNQRQSEQVEKNKINNRASE WNQRQSEQVEKNKINNRASE g t g g a a c c a g c g c c a g a g t g a a c a a g t a g a g a a g a a c a a g a t c a a c a a c c g g g c a t c c g a c a c c t t g g t c g c g g t c t c a c t t g t t c a t c t c t t c t t g t t c t a g t t g t t g g c c c g t a g g c t

DraIIIBsaI 2040 (in frame with tdTomato) EAFVKESKEETPGTEWEKVA EAFVKESKEETPGTEWEKVA g g a g g c t t t c g t g a a g g a a t c c a a g g a g g a g a c c c c a g g c a c a g a g t g g g a g a a g g t g g c c c t c c g a a a g c a c t t c c t t a g g t t c c t c c t c t g g g g t c c g t g t c t c a c c c t c t t c c a c c g

BtsαIBtsI 2100 (in frame with tdTomato) QLCDFNPKSSKQCKDVSRLR QLCDFNPKSSKQCKDVSRLR c c a g c t a t g t g a c t t c a a c c c c a a g a g c a g c a a g c a g t g c a a a g a t g t g t c c c g c c t g c g g g t c g a t a c a c t g a a g t t g g g g t t c t c g t c g t t c g t c a c g t t t c t a c a c a g g g c g g a c g c

XbaI*BamHIDrdI 2160 (in frame with tdTomato) SVLMSLKQTPLSR* SVLMSLKQTPLSR* c t c g g t g c t c a t g t c c c t g a a g c a g a c g c c a c t g t c c c g c t a g g g a t c c a c c g g a t c t a g g a g c c a c g a g t a c a g g g a c t t c g t c t g c g g t g a c a g g g c g a t c c c t a g g t g g c c t a g a t c

End (2191) BsaBI*BclI* 2191 a t a a c t g a t c a t a a t c a g c c a t a c c a c a t t g t a t t g a c t a g t a t t a g t c g g t a t g g t g t a a c

Restriction Enzymes

Instructions: By default, all cutters are shown. Filter on number of cut sites or search by enzyme name.

Filter

Features

Primers

BLAST

BLAST (Basic Local Alignment Search Tool) finds regions of similarity between biological sequences. Click on the buttons below to submit a BLAST search to NCBI. The results will appear in a new window. See your recent BLAST results on NCBI's website.

  • Nucleotide-Nucleotide BLAST (BLASTN)

  • Translated Nucleotide-Protein BLAST (BLASTX)

  • Sequence alignment using BLAST (BLAST2)

Sequence Analyzer Guide

Map

Displays a graphical map based on nucleotide sequence data labeled with restriction enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site)

To select a portion of sequence, click one location on the plasmid and then a second location to display the sequence between the two locations.

Sequence

Displays both strands of base paired nucleotide sequences with annotated enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site).

To select a portion of sequence, click one location on the sequence and then a second location to display the sequence between the two locations.

Enzymes

List of restriction enzymes that can cut a given nucleotide sequence. Table lists enzyme name and the sequence location of the cut.

Features

List of common features detected in a given nucleotide sequence. Table lists feature name, location, size, color used to indicate its position on the map, and direction (if relevant).

Primers

List of commonly used primers detected in a given nucleotide sequence. Table lists primer name, sequence, length, binding site location, and direction.

BLAST

Use Basic Local Alignment Search Tool (BLAST) via the NCBI website to determine similarity between a given sequence and nucleotide (BLASTN) or protein (BLASTX) sequence databases. Additionally, align a custom nucleotide sequence against a given sequence using BLAST2.

File Downloads

GenBank

File contains the nucleotide sequence and annotated features in GenBank flat file format. Open the file with a text editor or plasmid mapping software to view the sequence.

SnapGene

File contains the nucleotide sequence and enhanced annotations from SnapGene Server. Open the file with SnapGene software or the free Viewer to view the plasmid map, sequence, and perform additional sequence analysis.