Rroxscaffold_5G00387040

ATP-dependent Clp protease proteolytic subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0014077
Physical Location & Seq
Forward (+)
65793893 .. 65796279
2387 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00387040.1

Sequence Viewer

Length: 882 bp
ATGATGAGGAGCCTAATCTCAGGCGCCAAGCTCGTCGCGACCAGCAGAGCACGAGTGTCGAGTCCATGGGGAACGAGCACGACGACGACGTCTTCGCGGTGCTACAGTCTGATCCCAATGGTGATAGAGCACTCGTCTCGAGGTGAGCGAGCGTACGACATCTTCTCTCGCCTTCTCAAGGAGCGCATAGTCTGCATCAACGGTCCCATCAACGACGACACCGCCCATGTGGTCGTCGCCCAGCTTCTCTTTCTTGAGTCTGAGAACCCATCCAAGCCCATCAATATGTACCTCAATTCTCCTGGTGGCCATGTCACTGCAGGCAAGGTCCCCAGTTGTGGGTTTAAGGGATTAGAAAGTATTTGGCATTCAATGAAAATGGTGTCTGAGTTTCGGCAGAAGCTACCTTGTAAGGTAGCTGTGGCTGTGGGGTTATCTTCTTATGGAATAAGATGTGGTCTTGCAATTTATGATACTATGCAGTACATTCGGTCACCGATCAATACAATTTGTTTGGGTCAAGCTGCATCAATGGCTTCACTTCTCTTAGCTGCGGGTGCCAAGGGTGAGAGGCGGTCACTTCCCAATGCCACAATTATGATTCATCAGCCTTCAGGTGGGTACAGCGGACAAGCGAAAGATATGACAATTCACACAAAGCAGATTGTCCGTGTGTGGGATTCACTCAATGCATTGTATTCAAAGCATACAGGGCAGTCAAAAGAGATGATCGAGAAGAATATGGATAGGGATCACTTCATGACCGCAGTAGAGGCAAAGGAGTTTGGAATAATTGATGAAGTCATTGATGAAAGACCAATGGCTCTGGTCACTGATGCTGTTGGCAAAGAAGGCAAAGAAAAGGACAAGAGTTCAAACTAG

Protein Analysis

293

Amino Acids

32.07

Weight (kDa)

9.06

Isoelectric Point (pI)

35.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CLP_protease PF00574 47 - 108 2.9e-21 Clp protease
CLP_protease PF00574 150 - 271 5.5e-53 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: OG0014077)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G23140
fragaria_vesca FvH4_4g36920
malus_domestica MD13G1005300.v1.1 MD16G1002600.v1.1
prunus_persica Prupe.1G347500_v2.0.a1
pyrus_communis pycom13g00450 pycom16g00330
rosa_chinensis RchiOBHm_Chr4g0446681
rosa_laevigata RLG00000005640
rosa_multiflora Rmu_sc0001753.1_g000041
rosa_roxburghii Rroxscaffold_5G00387040
rosa_rugosa Rorug04G0373600
rosa_samantha Rh4AG435100 Rh4BG444100 Rh4CG461400 Rh4DG442900
rosa_wichuraiana Rw4G037200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 88
AatII GACGTC 1 cut(s) 92
AccB1I GGYRCC 2 cut(s) 23, 557
AccII CGCG 2 cut(s) 38, 97
AciI CCGC 6 cut(s) 97, 222, 554, 574, 627, 765
AclWI GGATC 2 cut(s) 106, 759
AcoI YGGCCR 1 cut(s) 307
AcuI CTGAAG 1 cut(s) 597
AcyI GRCGYC 2 cut(s) 24, 89
AfaI GTAC 4 cut(s) 155, 290, 485, 623
AfiI CCNNNNNNNGG 5 cut(s) 178, 338, 339, 617, 676
AgsI TTSAA 3 cut(s) 372, 702, 876
AjnI CCWGG 1 cut(s) 301
AluBI AGCT 6 cut(s) 31, 244, 403, 419, 524, 551
AluI AGCT 6 cut(s) 31, 244, 403, 419, 524, 551
Alw21I GWGCWC 3 cut(s) 52, 80, 132
Alw26I GTCTC 1 cut(s) 141
AlwI GGATC 2 cut(s) 106, 759
Ama87I CYCGRG 1 cut(s) 138
AoxI GGCC 1 cut(s) 307
ApeKI GCWGC 2 cut(s) 524, 551
ArsI GACNNNNNNTTYG 2 cut(s) 76, 108
AspLEI GCGC 2 cut(s) 26, 186
AspS9I GGNCC 2 cut(s) 203, 328
AsuHPI GGTGA 4 cut(s) 133, 155, 486, 578
AvaI CYCGRG 1 cut(s) 138
AvaII GGWCC 2 cut(s) 203, 328
BalI TGGCCA 1 cut(s) 309
BanI GGYRCC 2 cut(s) 23, 557
BarI GAAGNNNNNNTAC 2 cut(s) 146, 178
BauI CACGAG 1 cut(s) 51
BbsI GAAGAC 1 cut(s) 84
Bbv12I GWGCWC 3 cut(s) 52, 80, 132
BbvI GCAGC 2 cut(s) 511, 538
BccI CCATC 3 cut(s) 215, 277, 287
BcgI CGANNNNNNTGC 6 cut(s) 39, 73, 119, 153, 470, 504
BciT130I CCWGG 1 cut(s) 303
BcoDI GTCTC 1 cut(s) 141
BfaI CTAG 1 cut(s) 880
BfmI CTRYAG 2 cut(s) 103, 318
BfoI RGCGCY 1 cut(s) 27
BisI GCNGC 2 cut(s) 525, 552
BlsI GCNGC 2 cut(s) 526, 553
Bme1390I CCNGG 1 cut(s) 303
Bme18I GGWCC 2 cut(s) 203, 328
BmeT110I CYCGRG 1 cut(s) 138
BmgT120I GGNCC 2 cut(s) 203, 328
BmiI GGNNCC 5 cut(s) 11, 25, 205, 330, 559
BmrFI CCNGG 1 cut(s) 303
BmrI ACTGGG 1 cut(s) 327
BmsI GCATC 3 cut(s) 204, 536, 826
BmuI ACTGGG 1 cut(s) 327
BpiI GAAGAC 1 cut(s) 84
BpuEI CTTGAG 2 cut(s) 161, 275
BsaBI GATNNNNATC 1 cut(s) 750
BsaHI GRCGYC 2 cut(s) 24, 89
BsaJI CCNNGG 2 cut(s) 65, 561
Bsc4I CCNNNNNNNGG 5 cut(s) 178, 338, 339, 617, 676
Bse1I ACTGG 1 cut(s) 333
Bse8I GATNNNNATC 1 cut(s) 750
BseBI CCWGG 1 cut(s) 303
BseDI CCNNGG 2 cut(s) 65, 561
BseGI GGATG 1 cut(s) 269
BseJI GATNNNNATC 1 cut(s) 750
BseLI CCNNNNNNNGG 5 cut(s) 178, 338, 339, 617, 676
BseMII CTCAG 3 cut(s) 33, 252, 378
BseNI ACTGG 1 cut(s) 333
BseRI GAGGAG 1 cut(s) 22
BseXI GCAGC 2 cut(s) 511, 538
BseYI CCCAGC 1 cut(s) 240
Bsh1236I CGCG 2 cut(s) 38, 97
BshFI GGCC 1 cut(s) 309
BshNI GGYRCC 2 cut(s) 23, 557
BsiHKAI GWGCWC 3 cut(s) 52, 80, 132
BsiHKCI CYCGRG 1 cut(s) 138
BsiWI CGTACG 1 cut(s) 153
BslFI GGGAC 2 cut(s) 189, 314
BslI CCNNNNNNNGG 5 cut(s) 178, 338, 339, 617, 676
BsmAI GTCTC 1 cut(s) 141
BsmBI CGTCTC 1 cut(s) 141
BsmFI GGGAC 2 cut(s) 189, 314
BsmI GAATGC 1 cut(s) 367
BsnI GGCC 1 cut(s) 309
BsoBI CYCGRG 1 cut(s) 138
Bsp1286I GDGCHC 3 cut(s) 52, 80, 132
Bsp143I GATC 4 cut(s) 111, 498, 729, 751
Bsp19I CCATGG 1 cut(s) 65
Bsp68I TCGCGA 1 cut(s) 38
BspACI CCGC 6 cut(s) 97, 222, 554, 574, 627, 765
BspANI GGCC 1 cut(s) 309
BspCNI CTCAG 3 cut(s) 32, 253, 379
BspFNI CGCG 2 cut(s) 38, 97
BspHI TCATGA 1 cut(s) 759
BspLI GGNNCC 5 cut(s) 11, 25, 205, 330, 559
BspMAI CTGCAG 1 cut(s) 322
BspPI GGATC 2 cut(s) 106, 759
BspT107I GGYRCC 2 cut(s) 23, 557
BsrI ACTGG 1 cut(s) 333
BssECI CCNNGG 2 cut(s) 65, 561
BssMI GATC 4 cut(s) 111, 498, 729, 751
BssNI GRCGYC 2 cut(s) 24, 89
BssSI CACGAG 1 cut(s) 51
BssT1I CCWWGG 2 cut(s) 65, 561
Bst2BI CACGAG 1 cut(s) 51
Bst2UI CCWGG 1 cut(s) 303
Bst4CI ACNGT 2 cut(s) 107, 203
BstACI GRCGYC 2 cut(s) 24, 89
BstAPI GCANNNNNTGC 1 cut(s) 192
BstC8I GCNNGC 2 cut(s) 150, 322
BstDEI CTNAG 4 cut(s) 19, 261, 387, 547
BstDSI CCRYGG 1 cut(s) 65
BstEII GGTNACC 1 cut(s) 492
BstENI CCTNNNNNAGG 1 cut(s) 176
BstF5I GGATG 1 cut(s) 269
BstFNI CGCG 2 cut(s) 38, 97
BstH2I RGCGCY 1 cut(s) 27
BstHHI GCGC 2 cut(s) 26, 186
BstKTI GATC 4 cut(s) 114, 501, 732, 754
BstMAI GTCTC 1 cut(s) 141
BstMBI GATC 4 cut(s) 111, 498, 729, 751
BstMWI GCNNNNNNNGC 6 cut(s) 192, 533, 557, 712, 773, 852
BstNI CCWGG 1 cut(s) 303
BstPI GGTNACC 1 cut(s) 492
BstSCI CCNGG 1 cut(s) 301
BstSFI CTRYAG 2 cut(s) 103, 318
BstUI CGCG 2 cut(s) 38, 97
BstV1I GCAGC 2 cut(s) 511, 538
BstV2I GAAGAC 1 cut(s) 84
BsuRI GGCC 1 cut(s) 309
BtgI CCRYGG 1 cut(s) 65
BtsCI GGATG 1 cut(s) 269
BtsI GCAGTG 1 cut(s) 315
BtsIMutI CAGTG 2 cut(s) 315, 831
BtuMI TCGCGA 1 cut(s) 38
Cac8I GCNNGC 2 cut(s) 150, 322
CciI TCATGA 1 cut(s) 759
CfoI GCGC 2 cut(s) 26, 186
Cfr13I GGNCC 2 cut(s) 203, 328
Csp6I GTAC 4 cut(s) 154, 289, 484, 622
CviAII CATG 4 cut(s) 66, 227, 311, 760
CviQI GTAC 4 cut(s) 154, 289, 484, 622
DdeI CTNAG 4 cut(s) 19, 261, 387, 547
DinI GGCGCC 1 cut(s) 25
DpnI GATC 4 cut(s) 113, 500, 731, 753
DpnII GATC 4 cut(s) 111, 498, 729, 751
DrdI GACNNNNNNGTC 1 cut(s) 88
DseDI GACNNNNNNGTC 1 cut(s) 88
EaeI YGGCCR 1 cut(s) 307
Eco130I CCWWGG 2 cut(s) 65, 561
Eco47I GGWCC 2 cut(s) 203, 328
Eco57I CTGAAG 1 cut(s) 597
Eco88I CYCGRG 1 cut(s) 138
Eco91I GGTNACC 1 cut(s) 492
EcoNI CCTNNNNNAGG 1 cut(s) 176
EcoO109I RGGNCCY 1 cut(s) 328
EcoO65I GGTNACC 1 cut(s) 492
EcoRII CCWGG 1 cut(s) 301
EcoT14I CCWWGG 2 cut(s) 65, 561
EcoT22I ATGCAT 1 cut(s) 694
EgeI GGCGCC 1 cut(s) 25
EheI GGCGCC 1 cut(s) 25
ErhI CCWWGG 2 cut(s) 65, 561
Esp3I CGTCTC 1 cut(s) 141
FaeI CATG 4 cut(s) 69, 230, 314, 763
FaqI GGGAC 2 cut(s) 189, 314
FatI CATG 4 cut(s) 65, 226, 310, 759
FauI CCCGC 1 cut(s) 547
Fnu4HI GCNGC 2 cut(s) 525, 552
FokI GGATG 1 cut(s) 256
Fsp4HI GCNGC 2 cut(s) 525, 552
FspBI CTAG 1 cut(s) 880
GlaI GCGC 2 cut(s) 25, 185
GluI GCNGC 2 cut(s) 525, 552
GsaI CCCAGC 1 cut(s) 244
HaeII RGCGCY 1 cut(s) 27
HaeIII GGCC 1 cut(s) 309
HhaI GCGC 2 cut(s) 26, 186
Hin1I GRCGYC 2 cut(s) 24, 89
Hin1II CATG 4 cut(s) 69, 230, 314, 763
Hin6I GCGC 2 cut(s) 24, 184
HinP1I GCGC 2 cut(s) 24, 184
HinfI GANTC 4 cut(s) 61, 257, 601, 680
HphI GGTGA 4 cut(s) 133, 155, 486, 578
Hpy188I TCNGA 3 cut(s) 111, 262, 388
Hpy188III TCNNGA 5 cut(s) 37, 138, 254, 733, 760
Hpy99I CGWCG 6 cut(s) 38, 85, 88, 91, 218, 239
HpyAV CCTTC 3 cut(s) 182, 621, 845
HpyCH4III ACNGT 2 cut(s) 107, 203
HpyCH4IV ACGT 1 cut(s) 89
HpyCH4V TGCA 6 cut(s) 195, 320, 464, 481, 527, 692
HpyF10VI GCNNNNNNNGC 6 cut(s) 192, 533, 557, 712, 773, 852
HpyF3I CTNAG 4 cut(s) 19, 261, 387, 547
HpySE526I ACGT 1 cut(s) 89
Hsp92I GRCGYC 2 cut(s) 24, 89
Hsp92II CATG 4 cut(s) 69, 230, 314, 763
HspAI GCGC 2 cut(s) 24, 184
KasI GGCGCC 1 cut(s) 23
Kzo9I GATC 4 cut(s) 111, 498, 729, 751
LmnI GCTCC 2 cut(s) 9, 181
Lsp1109I GCAGC 2 cut(s) 511, 538
LweI GCATC 3 cut(s) 204, 536, 826
MaeI CTAG 1 cut(s) 880
MaeII ACGT 1 cut(s) 89
MaeIII GTNAC 4 cut(s) 313, 492, 576, 829
MalI GATC 4 cut(s) 113, 500, 731, 753
MboI GATC 4 cut(s) 111, 498, 729, 751
MboII GAAGA 4 cut(s) 84, 154, 429, 748
MhlI GDGCHC 3 cut(s) 52, 80, 132
MlsI TGGCCA 1 cut(s) 309
MluCI AATT 6 cut(s) 295, 465, 507, 594, 648, 792
MluNI TGGCCA 1 cut(s) 309
Mly113I GGCGCC 1 cut(s) 24
MlyI GAGTC 2 cut(s) 70, 266
MnlI CCTC 4 cut(s) 134, 302, 564, 766
Mox20I TGGCCA 1 cut(s) 309
Mph1103I ATGCAT 1 cut(s) 694
MscI TGGCCA 1 cut(s) 309
MseI TTAA 1 cut(s) 345
MslI CAYNNNNRTG 2 cut(s) 284, 596
Msp20I TGGCCA 1 cut(s) 309
MspA1I CMGCKG 1 cut(s) 627
MspR9I CCNGG 1 cut(s) 303
Mva1269I GAATGC 1 cut(s) 367
MvaI CCWGG 1 cut(s) 303
MvnI CGCG 2 cut(s) 38, 97
MwoI GCNNNNNNNGC 6 cut(s) 192, 533, 557, 712, 773, 852
NarI GGCGCC 1 cut(s) 24
NcoI CCATGG 1 cut(s) 65
NdeII GATC 4 cut(s) 111, 498, 729, 751
NlaIII CATG 4 cut(s) 69, 230, 314, 763
NlaIV GGNNCC 5 cut(s) 11, 25, 205, 330, 559
NmuCI GTSAC 4 cut(s) 313, 492, 576, 829
NruI TCGCGA 1 cut(s) 38
NsiI ATGCAT 1 cut(s) 694
PaeR7I CTCGAG 1 cut(s) 138
PagI TCATGA 1 cut(s) 759
PcsI WCGNNNNNNNCGW 3 cut(s) 80, 86, 145
PctI GAATGC 1 cut(s) 367
PfeI GAWTC 2 cut(s) 601, 680
Pfl23II CGTACG 1 cut(s) 153
PflFI GACNNNGTC 1 cut(s) 88
PkrI GCNGC 2 cut(s) 526, 553
PleI GAGTC 2 cut(s) 69, 265
PluTI GGCGCC 1 cut(s) 27
PpsI GAGTC 2 cut(s) 69, 265
PpuMI RGGWCCY 1 cut(s) 328
Psp5II RGGWCCY 1 cut(s) 328
Psp6I CCWGG 1 cut(s) 301
PspEI GGTNACC 1 cut(s) 492
PspFI CCCAGC 1 cut(s) 240
PspGI CCWGG 1 cut(s) 301
PspLI CGTACG 1 cut(s) 153
PspN4I GGNNCC 5 cut(s) 11, 25, 205, 330, 559
PspPI GGNCC 2 cut(s) 203, 328
PspPPI RGGWCCY 1 cut(s) 328
PstI CTGCAG 1 cut(s) 322
PsyI GACNNNGTC 1 cut(s) 88
RruI TCGCGA 1 cut(s) 38
RsaI GTAC 4 cut(s) 155, 290, 485, 623
RsaNI GTAC 4 cut(s) 154, 289, 484, 622
RseI CAYNNNNRTG 2 cut(s) 284, 596
SaqAI TTAA 1 cut(s) 345
SatI GCNGC 2 cut(s) 525, 552
Sau3AI GATC 4 cut(s) 111, 498, 729, 751
Sau96I GGNCC 2 cut(s) 203, 328
SchI GAGTC 2 cut(s) 70, 266
ScrFI CCNGG 1 cut(s) 303
SduI GDGCHC 3 cut(s) 52, 80, 132
SfaNI GCATC 3 cut(s) 204, 536, 826
SfcI CTRYAG 2 cut(s) 103, 318
SfoI GGCGCC 1 cut(s) 25
Sfr274I CTCGAG 1 cut(s) 138
SinI GGWCC 2 cut(s) 203, 328
SlaI CTCGAG 1 cut(s) 138
SmiMI CAYNNNNRTG 2 cut(s) 284, 596
SmlI CTYRAG 3 cut(s) 138, 176, 254
SmoI CTYRAG 3 cut(s) 138, 176, 254
Sse9I AATT 6 cut(s) 295, 465, 507, 594, 648, 792
SsiI CCGC 6 cut(s) 97, 222, 554, 574, 627, 765
SspDI GGCGCC 1 cut(s) 23
SspMI CTAG 1 cut(s) 880
StyD4I CCNGG 1 cut(s) 301
StyI CCWWGG 2 cut(s) 65, 561
TaaI ACNGT 2 cut(s) 107, 203
TaiI ACGT 1 cut(s) 92
TaqI TCGA 3 cut(s) 59, 139, 732
TaqII GACCGA 1 cut(s) 480
TasI AATT 6 cut(s) 295, 465, 507, 594, 648, 792
TatI WGTACW 1 cut(s) 483
TfiI GAWTC 2 cut(s) 601, 680
Tru1I TTAA 1 cut(s) 345
Tru9I TTAA 1 cut(s) 345
TscAI CASTG 2 cut(s) 322, 838
TseFI GTSAC 4 cut(s) 313, 492, 576, 829
TseI GCWGC 2 cut(s) 524, 551
Tsp45I GTSAC 4 cut(s) 313, 492, 576, 829
TspDTI ATGAA 5 cut(s) 389, 593, 748, 813, 825
TspGWI ACGGA 1 cut(s) 659
TspRI CASTG 2 cut(s) 322, 838
Tth111I GACNNNGTC 1 cut(s) 88
VpaK11BI GGWCC 2 cut(s) 203, 328
XagI CCTNNNNNAGG 1 cut(s) 176
XhoI CTCGAG 1 cut(s) 138
XspI CTAG 1 cut(s) 880
ZraI GACGTC 1 cut(s) 90
Zsp2I ATGCAT 1 cut(s) 694
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.