Rw5G011680

ATP-dependent Clp protease proteolytic subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0013478
Physical Location & Seq
Forward (+)
13463301 .. 13465757
2457 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G011680.1

Sequence Viewer

Length: 891 bp
ATGGACGTTCTCTCAATCTCATCCCCTCTATTCTCCTCAACTCCCAAGCTCTCCCACTCCTTCGCCCCAAAACCCATCTCCTACTTCCCCACTTCTTCATCTTCACGACTCCCAACCATCAAATCCGTCTCTCTCCAAACCCCAAAACCCTCTTTCGCCTCTTCCAAGCCCCAGTCAGCTAACCCTTCTCTGCTTCTCAACTCCGCGCCGCAGACGCCGGCGACGGCCATGAGAGGCGCCGAGGGCGACGCCATGGGGCTCCTGCTCAGGGAGAGGATTGTCTTTTTGGGTAGTAGTATTGATGACTTTGTGGCTGACGCCATTATCAGCCAGCTGCTTTTGTTGGATGCTCAGGACCCCAAGAAGGATATCAAGCTCTTCATTAACTCCACTGGTGGCTCTCTCAGTGCCACAATGGCTATATATGACGTCGTTCAGCTTGTGAGGGCTGATGTCTCCACAATTGCGCTCGGCATTGCAGCATCTACAGCTTCAATAATCCTTGGTGGTGGCACCAAAGGCAAGCGTTTTGCAATGCCCAATACACGGGTTATGATTCATCAACCTCTTGGAGGAGCTAGTGGCCAGGCAATAGATGTAGAAATTCAAGCTCGAGAAGTCATGCACAATAAAGACAATGTCACAAGAATTATTTCACAAGTAACTGGTCGTTCATACGAACAAGTTGAAAAAGATATTGACAGAGATCGCTATATGTCCCCCATAGAAGCAGTAGAATATGGAATAATTGACGGAGTTATTGACGGAGATAGTATTATTCCTCTGGAGCCTGTCCCAGACAAAGTAAAACCAAGAATGAGTTATGAGGAAATTAGTAAAGATCCAATGAAGTTCTTGACGCCAGACGTCCCTGATGACGAGATATATTAG

Protein Analysis

296

Amino Acids

31.89

Weight (kDa)

5.19

Isoelectric Point (pI)

42.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CLP_protease PF00574 83 - 255 4.1e-72 Clp protease
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0013478)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G45390
fragaria_vesca FvH4_3g11210 FvH4_3g11210
malus_domestica MD05G1265700.v1.1
prunus_persica Prupe.4G099800_v2.0.a1
pyrus_communis pycom05g24980 pycom10g20380
rosa_chinensis RchiOBHm_Chr5g0018161
rosa_laevigata RLG00000032342
rosa_multiflora Rmu_sc0006594.1_g000017 Rmu_sc0013020.1_g000003
rosa_roxburghii Rroxscaffold_1G00059490
rosa_rugosa Rorug05G0040800
rosa_samantha Rh5AG133700 Rh5BG132200 Rh5CG144400 Rh5DG134100
rosa_wichuraiana Rw5G011680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 2 cut(s) 432, 870
AccB1I GGYRCC 2 cut(s) 236, 512
AccII CGCG 1 cut(s) 206
AciI CCGC 2 cut(s) 204, 209
AclWI GGATC 1 cut(s) 836
AcoI YGGCCR 2 cut(s) 225, 583
AcsI RAATTY 1 cut(s) 603
AcyI GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
AfiI CCNNNNNNNGG 4 cut(s) 268, 364, 546, 572
AgsI TTSAA 3 cut(s) 495, 608, 689
AjnI CCWGG 1 cut(s) 585
AluBI AGCT 8 cut(s) 49, 179, 334, 376, 439, 491, 578, 611
AluI AGCT 8 cut(s) 49, 179, 334, 376, 439, 491, 578, 611
Alw26I GTCTC 2 cut(s) 133, 460
AlwI GGATC 1 cut(s) 836
Ama87I CYCGRG 1 cut(s) 612
AoxI GGCC 2 cut(s) 225, 583
ApeKI GCWGC 2 cut(s) 334, 479
ApoI RAATTY 1 cut(s) 603
Asp700I GAANNNNTTC 1 cut(s) 652
AspLEI GCGC 3 cut(s) 208, 239, 469
AspS9I GGNCC 1 cut(s) 355
AvaI CYCGRG 1 cut(s) 612
AvaII GGWCC 1 cut(s) 355
BalI TGGCCA 1 cut(s) 585
BanI GGYRCC 2 cut(s) 236, 512
BanII GRGCYC 1 cut(s) 261
BbvI GCAGC 2 cut(s) 321, 491
BccI CCATC 2 cut(s) 83, 125
BceAI ACGGC 1 cut(s) 240
BciT130I CCWGG 1 cut(s) 587
BcoDI GTCTC 2 cut(s) 133, 460
BfaI CTAG 1 cut(s) 579
BfmI CTRYAG 1 cut(s) 486
BfoI RGCGCY 1 cut(s) 240
BglI GCCNNNNNGGC 1 cut(s) 416
BisI GCNGC 3 cut(s) 209, 335, 480
BlsI GCNGC 3 cut(s) 210, 336, 481
Bme1390I CCNGG 1 cut(s) 587
Bme18I GGWCC 1 cut(s) 355
BmeT110I CYCGRG 1 cut(s) 612
BmgT120I GGNCC 1 cut(s) 355
BmiI GGNNCC 5 cut(s) 238, 260, 357, 514, 789
BmrFI CCNGG 1 cut(s) 587
BmrI ACTGGG 1 cut(s) 166
BmsI GCATC 2 cut(s) 337, 491
BmuI ACTGGG 1 cut(s) 166
BpmI CTGGAG 1 cut(s) 806
Bpu10I CCTNAGC 2 cut(s) 266, 351
BsaHI GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
BsaJI CCNNGG 3 cut(s) 240, 252, 502
Bsc4I CCNNNNNNNGG 4 cut(s) 268, 364, 546, 572
Bse118I RCCGGY 1 cut(s) 217
Bse1I ACTGG 3 cut(s) 172, 397, 670
Bse3DI GCAATG 2 cut(s) 474, 540
BseBI CCWGG 1 cut(s) 587
BseDI CCNNGG 3 cut(s) 240, 252, 502
BseGI GGATG 2 cut(s) 20, 352
BseLI CCNNNNNNNGG 4 cut(s) 268, 364, 546, 572
BseMI GCAATG 2 cut(s) 474, 540
BseMII CTCAG 3 cut(s) 280, 365, 418
BseNI ACTGG 3 cut(s) 172, 397, 670
BseRI GAGGAG 2 cut(s) 25, 588
BseXI GCAGC 2 cut(s) 321, 491
Bsh1236I CGCG 1 cut(s) 206
BshFI GGCC 2 cut(s) 227, 585
BshNI GGYRCC 2 cut(s) 236, 512
BsiHKCI CYCGRG 1 cut(s) 612
BsiSI CCGG 1 cut(s) 218
BslFI GGGAC 3 cut(s) 703, 779, 854
BslI CCNNNNNNNGG 4 cut(s) 268, 364, 546, 572
BsmAI GTCTC 2 cut(s) 133, 460
BsmBI CGTCTC 1 cut(s) 133
BsmFI GGGAC 3 cut(s) 703, 779, 854
BsnI GGCC 2 cut(s) 227, 585
BsoBI CYCGRG 1 cut(s) 612
Bsp1286I GDGCHC 1 cut(s) 261
Bsp143I GATC 2 cut(s) 706, 841
Bsp19I CCATGG 1 cut(s) 252
BspACI CCGC 2 cut(s) 204, 209
BspANI GGCC 2 cut(s) 227, 585
BspCNI CTCAG 3 cut(s) 279, 364, 417
BspFNI CGCG 1 cut(s) 206
BspLI GGNNCC 5 cut(s) 238, 260, 357, 514, 789
BspPI GGATC 1 cut(s) 836
BspQI GCTCTTC 1 cut(s) 383
BspT107I GGYRCC 2 cut(s) 236, 512
BsrDI GCAATG 2 cut(s) 474, 540
BsrFI RCCGGY 1 cut(s) 217
BsrI ACTGG 3 cut(s) 172, 397, 670
BssAI RCCGGY 1 cut(s) 217
BssECI CCNNGG 3 cut(s) 240, 252, 502
BssMI GATC 2 cut(s) 706, 841
BssNI GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
BssT1I CCWWGG 2 cut(s) 252, 502
Bst2UI CCWGG 1 cut(s) 587
Bst6I CTCTTC 2 cut(s) 166, 383
BstACI GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
BstC8I GCNNGC 3 cut(s) 219, 332, 524
BstDEI CTNAG 3 cut(s) 266, 351, 404
BstDSI CCRYGG 1 cut(s) 252
BstENI CCTNNNNNAGG 1 cut(s) 570
BstF5I GGATG 2 cut(s) 20, 352
BstFNI CGCG 1 cut(s) 206
BstH2I RGCGCY 1 cut(s) 240
BstHHI GCGC 3 cut(s) 208, 239, 469
BstKTI GATC 2 cut(s) 709, 844
BstMAI GTCTC 2 cut(s) 133, 460
BstMBI GATC 2 cut(s) 706, 841
BstMWI GCNNNNNNNGC 5 cut(s) 214, 243, 416, 488, 519
BstNI CCWGG 1 cut(s) 587
BstSCI CCNGG 1 cut(s) 585
BstSFI CTRYAG 1 cut(s) 486
BstUI CGCG 1 cut(s) 206
BstV1I GCAGC 2 cut(s) 321, 491
BstX2I RGATCY 1 cut(s) 841
BstYI RGATCY 1 cut(s) 841
BsuRI GGCC 2 cut(s) 227, 585
BtgI CCRYGG 1 cut(s) 252
BtsCI GGATG 2 cut(s) 20, 352
BtsIMutI CAGTG 2 cut(s) 390, 412
Cac8I GCNNGC 3 cut(s) 219, 332, 524
CfoI GCGC 3 cut(s) 208, 239, 469
Cfr10I RCCGGY 1 cut(s) 217
Cfr13I GGNCC 1 cut(s) 355
CseI GACGC 4 cut(s) 223, 257, 326, 868
CviAII CATG 3 cut(s) 229, 253, 622
DdeI CTNAG 3 cut(s) 266, 351, 404
DinI GGCGCC 1 cut(s) 238
DpnI GATC 2 cut(s) 708, 843
DpnII GATC 2 cut(s) 706, 841
EaeI YGGCCR 2 cut(s) 225, 583
Eam1104I CTCTTC 2 cut(s) 166, 383
EarI CTCTTC 2 cut(s) 166, 383
Eco130I CCWWGG 2 cut(s) 252, 502
Eco24I GRGCYC 1 cut(s) 261
Eco32I GATATC 1 cut(s) 370
Eco47I GGWCC 1 cut(s) 355
Eco88I CYCGRG 1 cut(s) 612
EcoNI CCTNNNNNAGG 1 cut(s) 570
EcoO109I RGGNCCY 1 cut(s) 355
EcoRII CCWGG 1 cut(s) 585
EcoRV GATATC 1 cut(s) 370
EcoT14I CCWWGG 2 cut(s) 252, 502
EcoT38I GRGCYC 1 cut(s) 261
EgeI GGCGCC 1 cut(s) 238
EheI GGCGCC 1 cut(s) 238
ErhI CCWWGG 2 cut(s) 252, 502
Esp3I CGTCTC 1 cut(s) 133
FaeI CATG 3 cut(s) 232, 256, 625
FaqI GGGAC 3 cut(s) 703, 779, 854
FatI CATG 3 cut(s) 228, 252, 621
Fnu4HI GCNGC 3 cut(s) 209, 335, 480
FokI GGATG 2 cut(s) 7, 359
FriOI GRGCYC 1 cut(s) 261
Fsp4HI GCNGC 3 cut(s) 209, 335, 480
FspBI CTAG 1 cut(s) 579
GlaI GCGC 3 cut(s) 207, 238, 468
GluI GCNGC 3 cut(s) 209, 335, 480
GsuI CTGGAG 1 cut(s) 806
HaeII RGCGCY 1 cut(s) 240
HaeIII GGCC 2 cut(s) 227, 585
HapII CCGG 1 cut(s) 218
HgaI GACGC 4 cut(s) 223, 257, 326, 868
HhaI GCGC 3 cut(s) 208, 239, 469
Hin1I GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
Hin1II CATG 3 cut(s) 232, 256, 625
Hin6I GCGC 3 cut(s) 206, 237, 467
HinP1I GCGC 3 cut(s) 206, 237, 467
HinfI GANTC 2 cut(s) 108, 556
HpaII CCGG 1 cut(s) 218
Hpy188III TCNNGA 5 cut(s) 105, 353, 614, 785, 856
Hpy99I CGWCG 3 cut(s) 226, 251, 434
HpyAV CCTTC 3 cut(s) 70, 195, 358
HpyCH4IV ACGT 3 cut(s) 6, 429, 867
HpyCH4V TGCA 3 cut(s) 479, 533, 625
HpyF10VI GCNNNNNNNGC 5 cut(s) 214, 243, 416, 488, 519
HpyF3I CTNAG 3 cut(s) 266, 351, 404
HpySE526I ACGT 3 cut(s) 6, 429, 867
Hsp92I GRCGYC 7 cut(s) 215, 237, 249, 318, 429, 860, 867
Hsp92II CATG 3 cut(s) 232, 256, 625
HspAI GCGC 3 cut(s) 206, 237, 467
KasI GGCGCC 1 cut(s) 236
KroI GCCGGC 1 cut(s) 217
KroNI GCCGGC 1 cut(s) 219
Kzo9I GATC 2 cut(s) 706, 841
LguI GCTCTTC 1 cut(s) 383
LmnI GCTCC 3 cut(s) 264, 575, 787
Lsp1109I GCAGC 2 cut(s) 321, 491
LweI GCATC 2 cut(s) 337, 491
MaeI CTAG 1 cut(s) 579
MaeII ACGT 3 cut(s) 6, 429, 867
MaeIII GTNAC 2 cut(s) 640, 661
MalI GATC 2 cut(s) 708, 843
MboI GATC 2 cut(s) 706, 841
MboII GAAGA 4 cut(s) 87, 93, 153, 370
MfeI CAATTG 1 cut(s) 462
MflI RGATCY 1 cut(s) 841
MhlI GDGCHC 1 cut(s) 261
MlsI TGGCCA 1 cut(s) 585
MluCI AATT 5 cut(s) 462, 603, 648, 747, 831
MluNI TGGCCA 1 cut(s) 585
Mly113I GGCGCC 1 cut(s) 237
MlyI GAGTC 1 cut(s) 102
MmeI TCCRAC 1 cut(s) 324
Mox20I TGGCCA 1 cut(s) 585
MreI CGCCGGCG 1 cut(s) 217
MroNI GCCGGC 1 cut(s) 217
MroXI GAANNNNTTC 1 cut(s) 652
MscI TGGCCA 1 cut(s) 585
MseI TTAA 1 cut(s) 384
Msp20I TGGCCA 1 cut(s) 585
MspA1I CMGCKG 1 cut(s) 334
MspI CCGG 1 cut(s) 218
MspR9I CCNGG 1 cut(s) 587
MunI CAATTG 1 cut(s) 462
MvaI CCWGG 1 cut(s) 587
MvnI CGCG 1 cut(s) 206
MwoI GCNNNNNNNGC 5 cut(s) 214, 243, 416, 488, 519
NaeI GCCGGC 1 cut(s) 219
NarI GGCGCC 1 cut(s) 237
NcoI CCATGG 1 cut(s) 252
NdeII GATC 2 cut(s) 706, 841
NgoMIV GCCGGC 1 cut(s) 217
NlaIII CATG 3 cut(s) 232, 256, 625
NlaIV GGNNCC 5 cut(s) 238, 260, 357, 514, 789
NmeAIII GCCGAG 2 cut(s) 265, 450
NmuCI GTSAC 1 cut(s) 640
PaeR7I CTCGAG 1 cut(s) 612
PciSI GCTCTTC 1 cut(s) 383
PdiI GCCGGC 1 cut(s) 219
PdmI GAANNNNTTC 1 cut(s) 652
PfeI GAWTC 1 cut(s) 556
PflFI GACNNNGTC 1 cut(s) 638
PkrI GCNGC 3 cut(s) 210, 336, 481
PleI GAGTC 1 cut(s) 102
PluTI GGCGCC 1 cut(s) 240
PpsI GAGTC 1 cut(s) 102
PpuMI RGGWCCY 1 cut(s) 355
Psp5II RGGWCCY 1 cut(s) 355
Psp6I CCWGG 1 cut(s) 585
PspGI CCWGG 1 cut(s) 585
PspN4I GGNNCC 5 cut(s) 238, 260, 357, 514, 789
PspPI GGNCC 1 cut(s) 355
PspPPI RGGWCCY 1 cut(s) 355
PsuI RGATCY 1 cut(s) 841
PsyI GACNNNGTC 1 cut(s) 638
PvuII CAGCTG 1 cut(s) 334
SapI GCTCTTC 1 cut(s) 383
SaqAI TTAA 1 cut(s) 384
SatI GCNGC 3 cut(s) 209, 335, 480
Sau3AI GATC 2 cut(s) 706, 841
Sau96I GGNCC 1 cut(s) 355
SchI GAGTC 1 cut(s) 102
ScrFI CCNGG 1 cut(s) 587
SduI GDGCHC 1 cut(s) 261
SfaNI GCATC 2 cut(s) 337, 491
SfcI CTRYAG 1 cut(s) 486
SfoI GGCGCC 1 cut(s) 238
Sfr274I CTCGAG 1 cut(s) 612
SgrAI CRCCGGYG 1 cut(s) 217
SinI GGWCC 1 cut(s) 355
SlaI CTCGAG 1 cut(s) 612
SmlI CTYRAG 1 cut(s) 612
SmoI CTYRAG 1 cut(s) 612
Sse9I AATT 5 cut(s) 462, 603, 648, 747, 831
SsiI CCGC 2 cut(s) 204, 209
SspDI GGCGCC 1 cut(s) 236
SspMI CTAG 1 cut(s) 579
StyD4I CCNGG 1 cut(s) 585
StyI CCWWGG 2 cut(s) 252, 502
TaiI ACGT 3 cut(s) 9, 432, 870
TaqI TCGA 1 cut(s) 613
TasI AATT 5 cut(s) 462, 603, 648, 747, 831
TauI GCSGC 1 cut(s) 211
TfiI GAWTC 1 cut(s) 556
Tru1I TTAA 1 cut(s) 384
Tru9I TTAA 1 cut(s) 384
TscAI CASTG 2 cut(s) 397, 412
TseFI GTSAC 1 cut(s) 640
TseI GCWGC 2 cut(s) 334, 479
Tsp45I GTSAC 1 cut(s) 640
TspDTI ATGAA 5 cut(s) 87, 370, 548, 663, 863
TspGWI ACGGA 3 cut(s) 115, 768, 780
TspRI CASTG 2 cut(s) 397, 412
Tth111I GACNNNGTC 1 cut(s) 638
VpaK11BI GGWCC 1 cut(s) 355
XagI CCTNNNNNAGG 1 cut(s) 570
XapI RAATTY 1 cut(s) 603
XhoI CTCGAG 1 cut(s) 612
XmnI GAANNNNTTC 1 cut(s) 652
XspI CTAG 1 cut(s) 579
ZraI GACGTC 2 cut(s) 430, 868
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.