Rw3G005540

ATP-dependent Clp protease proteolytic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0010248
Physical Location & Seq
Forward (+)
4577669 .. 4581167
3499 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G005540.1

Sequence Viewer

Length: 1029 bp
ATGGCGAGCAGTTTGCAGATACCAGTCTGCATACCCACCTGTTCATCCTCACGAAAGTCTCGAAATTTCACAGCCTTCTGCTCCATTAACGCCAAAGCAAAAGCCAAAATCCCCATCCCTCCTATAAACCCTAGGGACCCCTTTCTCTCCAGGCTCGCCTCCGTGGCTCGCAATTCGCCGGAAACCTTGCTCAACCGTCCGGCCAACAACTCCGACTCCCTTCCCTACTTGGATATATTCGACGAGCCTAAGCTCATGGCCACCCCTGCCCAAGTGGAAAGATCAGTTTCTTACAATGAACATAGACCAAAGAAGCCGCCTCCAGATTTGCCCTCATTGCTACTCCATGGAAGAATAGTTTATATTGGCATGCCTCTTGTACCTGCAGTCACAGAGCTTATTGTTGCAGAACTGATGTATCTGCAATGGATGGATCCTAAACAACCAATCTATATTTATATTAATTCAACTGGAACAACACGTGATGATGGTGAAACGGTTGGCATGGAATCGGAGGGTTTTGCTATCTATGATGCGATGATGCAGTTGAAAAATGAGATACATACGGTTGCTGTCGGGGCTGCTATAGGTCAAGCTTGTCTGTTGCTTGCTGCAGGAACTAAGGGCAACCGGTTCATGATGCCACATGCCAAAGCCATGATCCAGCAGCCTCGTGTCCCGTCATCTGGACTGATGCCTGCTAGTGATGTTCTTATTCGTGCAAAAGAGGTAATAACAAATAGGGACACTCTTGTAAAACTCCTGTCCAAGCACACAGGAAATTCCGTGGAGGCTGTATCTAATCTTATGAGAAGACCATATTATATGGATTCTACAACCGCTAAACAATTTGGTGTGATTGACAAGATCCTGTGGCGTGGTCAAGAAAAGATAATGGCAGATGTAGCCTCCCCTGAGGATTGGGACAAGAATGCTGGCATCAAATGTAGTGATGCCAAATTGAATCAACTCTGGTGCAATCTACAGGGCGCGCAAACACGCTTGAACTTACACAGTGACTGTTTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
CLP_protease

Protein Analysis

342

Amino Acids

37.81

Weight (kDa)

8.87

Isoelectric Point (pI)

43.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CLP_protease PF00574 112 - 291 3.1e-43 Clp protease
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 391
AccII CGCG 1 cut(s) 992
AciI CCGC 2 cut(s) 317, 840
AclWI GGATC 4 cut(s) 428, 441, 655, 862
AcoI YGGCCR 2 cut(s) 201, 258
AcsI RAATTY 2 cut(s) 64, 781
AcvI CACGTG 1 cut(s) 482
AfaI GTAC 1 cut(s) 381
AfiI CCNNNNNNNGG 1 cut(s) 686
AflIII ACRYGT 1 cut(s) 479
AgeI ACCGGT 1 cut(s) 630
AgsI TTSAA 4 cut(s) 468, 550, 964, 1006
AjnI CCWGG 1 cut(s) 149
AluBI AGCT 3 cut(s) 253, 397, 596
AluI AGCT 3 cut(s) 253, 397, 596
Alw26I GTCTC 1 cut(s) 63
AlwI GGATC 4 cut(s) 428, 441, 655, 862
AlwNI CAGNNNCTG 1 cut(s) 1020
AoxI GGCC 2 cut(s) 201, 258
ApeKI GCWGC 3 cut(s) 581, 611, 667
ApoI RAATTY 2 cut(s) 64, 781
AseI ATTAAT 1 cut(s) 462
AsiGI ACCGGT 1 cut(s) 630
AspA2I CCTAGG 1 cut(s) 131
AspLEI GCGC 2 cut(s) 992, 994
AspS9I GGNCC 1 cut(s) 136
AsuHPI GGTGA 1 cut(s) 503
AvaII GGWCC 1 cut(s) 136
AvrII CCTAGG 1 cut(s) 131
AxyI CCTNAGG 1 cut(s) 915
BaeI ACNNNNGTAYC 2 cut(s) 401, 434
BalI TGGCCA 1 cut(s) 260
BamHI GGATCC 1 cut(s) 433
BauI CACGAG 1 cut(s) 672
BbrPI CACGTG 1 cut(s) 482
BbsI GAAGAC 1 cut(s) 820
BbvI GCAGC 3 cut(s) 568, 598, 679
BccI CCATC 3 cut(s) 122, 424, 482
BcgI CGANNNNNNTGC 1 cut(s) 29
BciT130I CCWGG 1 cut(s) 151
BcoDI GTCTC 1 cut(s) 63
BfaI CTAG 2 cut(s) 132, 702
BfmI CTRYAG 4 cut(s) 384, 585, 612, 983
BfuAI ACCTGC 1 cut(s) 391
BglI GCCNNNNNGGC 1 cut(s) 164
BisI GCNGC 4 cut(s) 317, 582, 612, 668
BlnI CCTAGG 1 cut(s) 131
BlsI GCNGC 4 cut(s) 318, 583, 613, 669
Bme1390I CCNGG 1 cut(s) 151
Bme18I GGWCC 1 cut(s) 136
BmgT120I GGNCC 1 cut(s) 136
BmiI GGNNCC 3 cut(s) 137, 138, 435
BmrFI CCNGG 1 cut(s) 151
BmsI GCATC 6 cut(s) 523, 531, 630, 684, 943, 948
BpiI GAAGAC 1 cut(s) 820
BpmI CTGGAG 2 cut(s) 133, 306
Bpu10I CCTNAGC 1 cut(s) 249
BsaAI YACGTR 1 cut(s) 482
BsaJI CCNNGG 4 cut(s) 131, 162, 346, 786
BsaWI WCCGGW 1 cut(s) 630
BsaXI ACNNNNNCTCC 2 cut(s) 200, 230
Bsc4I CCNNNNNNNGG 1 cut(s) 686
Bse118I RCCGGY 1 cut(s) 630
Bse1I ACTGG 2 cut(s) 23, 475
Bse21I CCTNAGG 1 cut(s) 915
Bse3DI GCAATG 2 cut(s) 335, 431
BseBI CCWGG 1 cut(s) 151
BseDI CCNNGG 4 cut(s) 131, 162, 346, 786
BseGI GGATG 3 cut(s) 44, 114, 435
BseLI CCNNNNNNNGG 1 cut(s) 686
BseMI GCAATG 2 cut(s) 335, 431
BseMII CTCAG 1 cut(s) 906
BseNI ACTGG 2 cut(s) 23, 475
BsePI GCGCGC 1 cut(s) 990
BseXI GCAGC 3 cut(s) 568, 598, 679
Bsh1236I CGCG 1 cut(s) 992
BshFI GGCC 2 cut(s) 203, 260
BshTI ACCGGT 1 cut(s) 630
BsiSI CCGG 3 cut(s) 179, 200, 631
BslFI GGGAC 4 cut(s) 149, 662, 758, 938
BslI CCNNNNNNNGG 1 cut(s) 686
BsmAI GTCTC 1 cut(s) 63
BsmFI GGGAC 4 cut(s) 149, 662, 758, 938
BsmI GAATGC 1 cut(s) 937
BsnI GGCC 2 cut(s) 203, 260
Bsp143I GATC 4 cut(s) 281, 433, 660, 867
Bsp19I CCATGG 1 cut(s) 346
BspACI CCGC 2 cut(s) 317, 840
BspANI GGCC 2 cut(s) 203, 260
BspCNI CTCAG 1 cut(s) 907
BspFNI CGCG 1 cut(s) 992
BspHI TCATGA 1 cut(s) 636
BspLI GGNNCC 3 cut(s) 137, 138, 435
BspMAI CTGCAG 2 cut(s) 388, 616
BspMI ACCTGC 1 cut(s) 391
BspPI GGATC 4 cut(s) 428, 441, 655, 862
BsrDI GCAATG 2 cut(s) 335, 431
BsrFI RCCGGY 1 cut(s) 630
BsrI ACTGG 2 cut(s) 23, 475
BssAI RCCGGY 1 cut(s) 630
BssECI CCNNGG 4 cut(s) 131, 162, 346, 786
BssHII GCGCGC 1 cut(s) 990
BssMI GATC 4 cut(s) 281, 433, 660, 867
BssSI CACGAG 1 cut(s) 672
BssT1I CCWWGG 2 cut(s) 131, 346
Bst2BI CACGAG 1 cut(s) 672
Bst2UI CCWGG 1 cut(s) 151
Bst4CI ACNGT 5 cut(s) 197, 499, 568, 1016, 1022
BstBAI YACGTR 1 cut(s) 482
BstC8I GCNNGC 8 cut(s) 7, 156, 169, 371, 609, 699, 937, 992
BstDEI CTNAG 3 cut(s) 249, 621, 915
BstDSI CCRYGG 3 cut(s) 162, 346, 786
BstF5I GGATG 3 cut(s) 44, 114, 435
BstFNI CGCG 1 cut(s) 992
BstHHI GCGC 2 cut(s) 992, 994
BstKTI GATC 4 cut(s) 284, 436, 663, 870
BstMAI GTCTC 1 cut(s) 63
BstMBI GATC 4 cut(s) 281, 433, 660, 867
BstMWI GCNNNNNNNGC 5 cut(s) 164, 266, 337, 578, 905
BstNI CCWGG 1 cut(s) 151
BstNSI RCATGY 2 cut(s) 373, 650
BstSCI CCNGG 1 cut(s) 149
BstSFI CTRYAG 4 cut(s) 384, 585, 612, 983
BstUI CGCG 1 cut(s) 992
BstV1I GCAGC 3 cut(s) 568, 598, 679
BstV2I GAAGAC 1 cut(s) 820
BstX2I RGATCY 2 cut(s) 433, 867
BstYI RGATCY 2 cut(s) 433, 867
Bsu36I CCTNAGG 1 cut(s) 915
BsuRI GGCC 2 cut(s) 203, 260
BtgI CCRYGG 3 cut(s) 162, 346, 786
BtgZI GCGATG 1 cut(s) 551
BtsCI GGATG 3 cut(s) 44, 114, 435
BtsIMutI CAGTG 1 cut(s) 1021
BveI ACCTGC 1 cut(s) 391
Cac8I GCNNGC 8 cut(s) 7, 156, 169, 371, 609, 699, 937, 992
CaiI CAGNNNCTG 1 cut(s) 1020
CciI TCATGA 1 cut(s) 636
CfoI GCGC 2 cut(s) 992, 994
Cfr10I RCCGGY 1 cut(s) 630
Cfr13I GGNCC 1 cut(s) 136
Csp6I GTAC 1 cut(s) 380
CspAI ACCGGT 1 cut(s) 630
CviAII CATG 7 cut(s) 256, 347, 370, 505, 637, 647, 658
CviQI GTAC 1 cut(s) 380
DdeI CTNAG 3 cut(s) 249, 621, 915
DpnI GATC 4 cut(s) 283, 435, 662, 869
DpnII GATC 4 cut(s) 281, 433, 660, 867
EaeI YGGCCR 2 cut(s) 201, 258
Eco130I CCWWGG 2 cut(s) 131, 346
Eco47I GGWCC 1 cut(s) 136
Eco72I CACGTG 1 cut(s) 482
Eco81I CCTNAGG 1 cut(s) 915
EcoO109I RGGNCCY 1 cut(s) 136
EcoRII CCWGG 1 cut(s) 149
EcoT14I CCWWGG 2 cut(s) 131, 346
ErhI CCWWGG 2 cut(s) 131, 346
FaeI CATG 7 cut(s) 259, 350, 373, 508, 640, 650, 661
FaqI GGGAC 4 cut(s) 149, 662, 758, 938
FatI CATG 7 cut(s) 255, 346, 369, 504, 636, 646, 657
Fnu4HI GCNGC 4 cut(s) 317, 582, 612, 668
FokI GGATG 3 cut(s) 31, 101, 442
Fsp4HI GCNGC 4 cut(s) 317, 582, 612, 668
FspBI CTAG 2 cut(s) 132, 702
GlaI GCGC 2 cut(s) 991, 993
GluI GCNGC 4 cut(s) 317, 582, 612, 668
GsuI CTGGAG 2 cut(s) 133, 306
HaeIII GGCC 2 cut(s) 203, 260
HapII CCGG 3 cut(s) 179, 200, 631
HhaI GCGC 2 cut(s) 992, 994
Hin1II CATG 7 cut(s) 259, 350, 373, 508, 640, 650, 661
Hin6I GCGC 2 cut(s) 990, 992
HinP1I GCGC 2 cut(s) 990, 992
HindIII AAGCTT 1 cut(s) 594
HinfI GANTC 4 cut(s) 215, 509, 830, 964
HpaII CCGG 3 cut(s) 179, 200, 631
HphI GGTGA 1 cut(s) 503
Hpy188I TCNGA 2 cut(s) 214, 514
Hpy188III TCNNGA 6 cut(s) 51, 60, 323, 637, 687, 884
Hpy99I CGWCG 1 cut(s) 245
HpyAV CCTTC 2 cut(s) 85, 230
HpyCH4III ACNGT 5 cut(s) 197, 499, 568, 1016, 1022
HpyCH4IV ACGT 1 cut(s) 481
HpyCH4V TGCA 9 cut(s) 16, 30, 386, 407, 424, 544, 614, 722, 978
HpyF10VI GCNNNNNNNGC 5 cut(s) 164, 266, 337, 578, 905
HpyF3I CTNAG 3 cut(s) 249, 621, 915
HpySE526I ACGT 1 cut(s) 481
Hsp92II CATG 7 cut(s) 259, 350, 373, 508, 640, 650, 661
HspAI GCGC 2 cut(s) 990, 992
KflI GGGWCCC 1 cut(s) 136
Kzo9I GATC 4 cut(s) 281, 433, 660, 867
LmnI GCTCC 1 cut(s) 86
Lsp1109I GCAGC 3 cut(s) 568, 598, 679
LweI GCATC 6 cut(s) 523, 531, 630, 684, 943, 948
MaeI CTAG 2 cut(s) 132, 702
MaeII ACGT 1 cut(s) 481
MaeIII GTNAC 2 cut(s) 388, 1016
MalI GATC 4 cut(s) 283, 435, 662, 869
MboI GATC 4 cut(s) 281, 433, 660, 867
MboII GAAGA 2 cut(s) 363, 825
MflI RGATCY 2 cut(s) 433, 867
MlsI TGGCCA 1 cut(s) 260
MluCI AATT 6 cut(s) 64, 172, 463, 781, 848, 959
MluNI TGGCCA 1 cut(s) 260
MlyI GAGTC 1 cut(s) 209
MmeI TCCRAC 1 cut(s) 237
Mox20I TGGCCA 1 cut(s) 260
MscI TGGCCA 1 cut(s) 260
MseI TTAA 2 cut(s) 87, 462
Msp20I TGGCCA 1 cut(s) 260
MspI CCGG 3 cut(s) 179, 200, 631
MspR9I CCNGG 1 cut(s) 151
Mva1269I GAATGC 1 cut(s) 937
MvaI CCWGG 1 cut(s) 151
MvnI CGCG 1 cut(s) 992
MwoI GCNNNNNNNGC 5 cut(s) 164, 266, 337, 578, 905
NcoI CCATGG 1 cut(s) 346
NdeII GATC 4 cut(s) 281, 433, 660, 867
NlaIII CATG 7 cut(s) 259, 350, 373, 508, 640, 650, 661
NlaIV GGNNCC 3 cut(s) 137, 138, 435
NmuCI GTSAC 2 cut(s) 388, 1016
NspI RCATGY 2 cut(s) 373, 650
PaeI GCATGC 1 cut(s) 373
PagI TCATGA 1 cut(s) 636
PauI GCGCGC 1 cut(s) 990
PcsI WCGNNNNNNNCGW 1 cut(s) 58
PctI GAATGC 1 cut(s) 937
PfeI GAWTC 3 cut(s) 509, 830, 964
PinAI ACCGGT 1 cut(s) 630
PkrI GCNGC 4 cut(s) 318, 583, 613, 669
PleI GAGTC 1 cut(s) 209
PmaCI CACGTG 1 cut(s) 482
PmlI CACGTG 1 cut(s) 482
PpsI GAGTC 1 cut(s) 209
Ppu21I YACGTR 1 cut(s) 482
PpuMI RGGWCCY 1 cut(s) 136
PshBI ATTAAT 1 cut(s) 462
Psp5II RGGWCCY 1 cut(s) 136
Psp6I CCWGG 1 cut(s) 149
PspCI CACGTG 1 cut(s) 482
PspGI CCWGG 1 cut(s) 149
PspN4I GGNNCC 3 cut(s) 137, 138, 435
PspPI GGNCC 1 cut(s) 136
PspPPI RGGWCCY 1 cut(s) 136
PstI CTGCAG 2 cut(s) 388, 616
PstNI CAGNNNCTG 1 cut(s) 1020
PsuI RGATCY 2 cut(s) 433, 867
PteI GCGCGC 1 cut(s) 990
RsaI GTAC 1 cut(s) 381
RsaNI GTAC 1 cut(s) 380
SaqAI TTAA 2 cut(s) 87, 462
SatI GCNGC 4 cut(s) 317, 582, 612, 668
Sau3AI GATC 4 cut(s) 281, 433, 660, 867
Sau96I GGNCC 1 cut(s) 136
SchI GAGTC 1 cut(s) 209
ScrFI CCNGG 1 cut(s) 151
SetI ASST 9 cut(s) 41, 188, 255, 385, 399, 484, 592, 598, 732
SfaNI GCATC 6 cut(s) 523, 531, 630, 684, 943, 948
SfcI CTRYAG 4 cut(s) 384, 585, 612, 983
SinI GGWCC 1 cut(s) 136
SphI GCATGC 1 cut(s) 373
Sse9I AATT 6 cut(s) 64, 172, 463, 781, 848, 959
SsiI CCGC 2 cut(s) 317, 840
SspMI CTAG 2 cut(s) 132, 702
StyD4I CCNGG 1 cut(s) 149
StyI CCWWGG 2 cut(s) 131, 346
TaaI ACNGT 5 cut(s) 197, 499, 568, 1016, 1022
TaiI ACGT 1 cut(s) 484
TaqI TCGA 2 cut(s) 61, 240
TasI AATT 6 cut(s) 64, 172, 463, 781, 848, 959
TauI GCSGC 1 cut(s) 319
TfiI GAWTC 3 cut(s) 509, 830, 964
Tru1I TTAA 2 cut(s) 87, 462
Tru9I TTAA 2 cut(s) 87, 462
TscAI CASTG 1 cut(s) 1021
TseFI GTSAC 2 cut(s) 388, 1016
TseI GCWGC 3 cut(s) 581, 611, 667
Tsp45I GTSAC 2 cut(s) 388, 1016
TspDTI ATGAA 3 cut(s) 33, 312, 625
TspGWI ACGGA 2 cut(s) 151, 775
TspRI CASTG 1 cut(s) 1021
VpaK11BI GGWCC 1 cut(s) 136
VspI ATTAAT 1 cut(s) 462
XapI RAATTY 2 cut(s) 64, 781
XceI RCATGY 2 cut(s) 373, 650
XmaJI CCTAGG 1 cut(s) 131
XspI CTAG 2 cut(s) 132, 702
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.