Rh6CG213500

ATP-dependent Clp protease proteolytic subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0013343
Physical Location & Seq
Reverse (-)
35410862 .. 35415848
4987 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG213500.1

Sequence Viewer

Length: 792 bp
ATGGTAGCATCAGCTTTCTCGGCGCCTCTGAGCTTCTCATTCGCTTCGCTCCCTTCCTTTTCCGTCAGAAAACCGACGAGGTCCACCGTCTTTGCGACCTTGCGGACTCCGTACGGTGATGCTGCCGGTTTATCTAGTGGTTCATCTCTAAAGCTTGACCGCAAGTATGTTGGTGATACTAGTACAAGTTACGGTGCAATAGAAGCCAAAAAGGGGAATCCGCCAGTGCTGCCAGCAGTTATGACCCCGGGAGGACCTTTAGACCTCTCTTCTGTGCTATTCAGAAATCGTATAATCTTCATTGGGCAGCCTGTCAACTCCTTGGTGGCTCAACGAGTCATATCCCAGCTTGTCACTCTGGCTACTATTGATGAGGAAGCAGATATCCTGGTTTATTTGAACTGCCCTGGTGGGAGTACATACTCTGTGTTGGCAATTTATGACTGCATGTCTTGGATCAAACCTAAGGTTGGTGTCGTATGTTTTGGAGTAGCTGCAAGCCAAGGAGCACTTCTTCTTGCTGGAGGAGAAAAGGGAATGCGCTATGCAATGCCAAATGCACGAATTATGATACACCAACCTCAAAGTGGATGTGGGGGTCATGTAGAAGATGTGAGGCGCCAAGTTAATGAAGCAGTTCAAACTCGCCATAAAGTCGACAAAATGTATGTCGCTTTTACCGGCCAATCTCTAGAGACAGTGCAGCAATACACCGAGAGGGATCGTTTTTTATCTGTTTCTGAGGCTTTGGAGTTTGGACTAATTGATGGTGTGCTGGAAACAGAATACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04112 ko04212 map04112 map04212
Pfam Domains
Protein Families
CLP_protease

Protein Analysis

263

Amino Acids

28.31

Weight (kDa)

7.65

Isoelectric Point (pI)

40.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CLP_protease PF00574 88 - 261 1.9e-65 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: OG0013343)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G11750 AT1G11750
fragaria_vesca FvH4_2g13930
malus_domestica MD05G1045200.v1.1 MD10G1052100.v1.1
prunus_persica Prupe.8G061700_v2.0.a1 Prupe.8G061700_v2.0.a1
pyrus_communis pycom10g03680
rosa_chinensis RchiOBHm_Chr6g0275681
rosa_laevigata RLG00000013447
rosa_multiflora Rmu_sc0016068.1_g000003 Rmu_sc0018708.1_g000009
rosa_roxburghii Rroxscaffold_7G00193030
rosa_rugosa Rorug06G0095600
rosa_samantha Rh6AG207500 Rh6CG213500 Rh6DG203200
rosa_wichuraiana Rw6G018090

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 22, 618
AccI GTMKAC 1 cut(s) 657
AciI CCGC 3 cut(s) 103, 160, 221
AclWI GGATC 2 cut(s) 464, 729
AcoI YGGCCR 1 cut(s) 682
AcyI GRCGYC 2 cut(s) 23, 619
AfaI GTAC 3 cut(s) 113, 184, 418
AfiI CCNNNNNNNGG 3 cut(s) 213, 470, 587
AgsI TTSAA 2 cut(s) 400, 641
AhdI GACNNNNNGTC 1 cut(s) 448
AhlI ACTAGT 1 cut(s) 179
AjnI CCWGG 2 cut(s) 387, 406
AjuI GAANNNNNNNTTGG 2 cut(s) 495, 527
AluBI AGCT 5 cut(s) 14, 33, 154, 349, 494
AluI AGCT 5 cut(s) 14, 33, 154, 349, 494
Alw21I GWGCWC 1 cut(s) 511
Alw26I GTCTC 1 cut(s) 689
AlwI GGATC 2 cut(s) 464, 729
Ama87I CYCGRG 1 cut(s) 247
AoxI GGCC 1 cut(s) 682
ApeKI GCWGC 5 cut(s) 122, 229, 307, 494, 703
ArsI GACNNNNNNTTYG 2 cut(s) 654, 686
Asp700I GAANNNNTTC 1 cut(s) 636
AspLEI GCGC 3 cut(s) 25, 543, 621
AspS9I GGNCC 2 cut(s) 81, 254
AsuC2I CCSGG 2 cut(s) 248, 249
AsuHPI GGTGA 2 cut(s) 128, 185
AvaI CYCGRG 1 cut(s) 247
AvaII GGWCC 2 cut(s) 81, 254
AxyI CCTNAGG 1 cut(s) 465
BanI GGYRCC 2 cut(s) 22, 618
Bbv12I GWGCWC 1 cut(s) 511
BbvI GCAGC 5 cut(s) 109, 216, 319, 481, 715
BccI CCATC 1 cut(s) 761
BciT130I CCWGG 2 cut(s) 389, 408
BcnI CCSGG 2 cut(s) 248, 249
BcoDI GTCTC 1 cut(s) 689
BcuI ACTAGT 1 cut(s) 179
BfaI CTAG 3 cut(s) 135, 180, 692
BfoI RGCGCY 2 cut(s) 26, 622
BisI GCNGC 5 cut(s) 123, 230, 308, 495, 704
BlsI GCNGC 5 cut(s) 124, 231, 309, 496, 705
Bme1390I CCNGG 4 cut(s) 248, 249, 389, 408
Bme18I GGWCC 2 cut(s) 81, 254
BmeRI GACNNNNNGTC 1 cut(s) 448
BmeT110I CYCGRG 1 cut(s) 247
BmgT120I GGNCC 2 cut(s) 81, 254
BmiI GGNNCC 2 cut(s) 24, 620
BmrFI CCNGG 4 cut(s) 248, 249, 389, 408
BmsI GCATC 2 cut(s) 17, 109
BpmI CTGGAG 1 cut(s) 543
BpuMI CCSGG 2 cut(s) 248, 249
BsaHI GRCGYC 2 cut(s) 23, 619
BsaJI CCNNGG 5 cut(s) 246, 247, 321, 406, 502
Bsc4I CCNNNNNNNGG 3 cut(s) 213, 470, 587
Bse118I RCCGGY 2 cut(s) 125, 680
Bse1I ACTGG 1 cut(s) 224
Bse21I CCTNAGG 1 cut(s) 465
Bse3DI GCAATG 1 cut(s) 555
BseBI CCWGG 2 cut(s) 389, 408
BseDI CCNNGG 5 cut(s) 246, 247, 321, 406, 502
BseGI GGATG 1 cut(s) 596
BseLI CCNNNNNNNGG 3 cut(s) 213, 470, 587
BseMI GCAATG 1 cut(s) 555
BseMII CTCAG 2 cut(s) 20, 732
BseNI ACTGG 1 cut(s) 224
BseRI GAGGAG 1 cut(s) 540
BseXI GCAGC 5 cut(s) 109, 216, 319, 481, 715
BseYI CCCAGC 1 cut(s) 345
BsgI GTGCAG 1 cut(s) 722
BshFI GGCC 1 cut(s) 684
BshNI GGYRCC 2 cut(s) 22, 618
BsiHKAI GWGCWC 1 cut(s) 511
BsiHKCI CYCGRG 1 cut(s) 247
BsiSI CCGG 3 cut(s) 126, 248, 681
BsiWI CGTACG 1 cut(s) 111
BslI CCNNNNNNNGG 3 cut(s) 213, 470, 587
BsmAI GTCTC 1 cut(s) 689
BsmI GAATGC 1 cut(s) 543
BsnI GGCC 1 cut(s) 684
BsoBI CYCGRG 1 cut(s) 247
Bsp1286I GDGCHC 1 cut(s) 511
Bsp143I GATC 2 cut(s) 456, 721
BspACI CCGC 3 cut(s) 103, 160, 221
BspANI GGCC 1 cut(s) 684
BspCNI CTCAG 2 cut(s) 21, 733
BspLI GGNNCC 2 cut(s) 24, 620
BspPI GGATC 2 cut(s) 464, 729
BspT107I GGYRCC 2 cut(s) 22, 618
BsrDI GCAATG 1 cut(s) 555
BsrFI RCCGGY 2 cut(s) 125, 680
BsrI ACTGG 1 cut(s) 224
BssAI RCCGGY 2 cut(s) 125, 680
BssECI CCNNGG 5 cut(s) 246, 247, 321, 406, 502
BssMI GATC 2 cut(s) 456, 721
BssNI GRCGYC 2 cut(s) 23, 619
BssT1I CCWWGG 2 cut(s) 321, 502
Bst2UI CCWGG 2 cut(s) 389, 408
Bst4CI ACNGT 4 cut(s) 88, 116, 194, 700
Bst6I CTCTTC 1 cut(s) 274
BstACI GRCGYC 2 cut(s) 23, 619
BstC8I GCNNGC 2 cut(s) 234, 499
BstDEI CTNAG 3 cut(s) 29, 465, 741
BstF5I GGATG 1 cut(s) 596
BstH2I RGCGCY 2 cut(s) 26, 622
BstHHI GCGC 3 cut(s) 25, 543, 621
BstKTI GATC 2 cut(s) 459, 724
BstMAI GTCTC 1 cut(s) 689
BstMBI GATC 2 cut(s) 456, 721
BstMWI GCNNNNNNNGC 3 cut(s) 20, 203, 229
BstNI CCWGG 2 cut(s) 389, 408
BstNSI RCATGY 1 cut(s) 451
BstSCI CCNGG 4 cut(s) 246, 247, 387, 406
BstV1I GCAGC 5 cut(s) 109, 216, 319, 481, 715
Bsu36I CCTNAGG 1 cut(s) 465
BsuRI GGCC 1 cut(s) 684
BtsCI GGATG 1 cut(s) 596
BtsIMutI CAGTG 2 cut(s) 231, 705
Cac8I GCNNGC 2 cut(s) 234, 499
CfoI GCGC 3 cut(s) 25, 543, 621
Cfr10I RCCGGY 2 cut(s) 125, 680
Cfr13I GGNCC 2 cut(s) 81, 254
Cfr9I CCCGGG 1 cut(s) 247
Csp6I GTAC 3 cut(s) 112, 183, 417
CspCI CAANNNNNGTGG 2 cut(s) 73, 108
CviAII CATG 2 cut(s) 448, 602
CviQI GTAC 3 cut(s) 112, 183, 417
DdeI CTNAG 3 cut(s) 29, 465, 741
DinI GGCGCC 2 cut(s) 24, 620
DpnI GATC 2 cut(s) 458, 723
DpnII GATC 2 cut(s) 456, 721
DriI GACNNNNNGTC 1 cut(s) 448
EaeI YGGCCR 1 cut(s) 682
Eam1104I CTCTTC 1 cut(s) 274
Eam1105I GACNNNNNGTC 1 cut(s) 448
EarI CTCTTC 1 cut(s) 274
EciI GGCGGA 1 cut(s) 210
Eco130I CCWWGG 2 cut(s) 321, 502
Eco32I GATATC 1 cut(s) 385
Eco47I GGWCC 2 cut(s) 81, 254
Eco81I CCTNAGG 1 cut(s) 465
Eco88I CYCGRG 1 cut(s) 247
EcoO109I RGGNCCY 1 cut(s) 254
EcoRII CCWGG 2 cut(s) 387, 406
EcoRV GATATC 1 cut(s) 385
EcoT14I CCWWGG 2 cut(s) 321, 502
EgeI GGCGCC 2 cut(s) 24, 620
EheI GGCGCC 2 cut(s) 24, 620
ErhI CCWWGG 2 cut(s) 321, 502
FaeI CATG 2 cut(s) 451, 605
FalI AAGNNNNNCTT 2 cut(s) 495, 527
FatI CATG 2 cut(s) 447, 601
FblI GTMKAC 1 cut(s) 657
Fnu4HI GCNGC 5 cut(s) 123, 230, 308, 495, 704
FokI GGATG 1 cut(s) 603
Fsp4HI GCNGC 5 cut(s) 123, 230, 308, 495, 704
FspBI CTAG 3 cut(s) 135, 180, 692
GlaI GCGC 3 cut(s) 24, 542, 620
GluI GCNGC 5 cut(s) 123, 230, 308, 495, 704
GsaI CCCAGC 1 cut(s) 349
GsuI CTGGAG 1 cut(s) 543
HaeII RGCGCY 2 cut(s) 26, 622
HaeIII GGCC 1 cut(s) 684
HapII CCGG 3 cut(s) 126, 248, 681
HhaI GCGC 3 cut(s) 25, 543, 621
Hin1I GRCGYC 2 cut(s) 23, 619
Hin1II CATG 2 cut(s) 451, 605
Hin6I GCGC 3 cut(s) 23, 541, 619
HinP1I GCGC 3 cut(s) 23, 541, 619
HincII GTYRAC 2 cut(s) 316, 658
HindII GTYRAC 2 cut(s) 316, 658
HindIII AAGCTT 1 cut(s) 152
HinfI GANTC 3 cut(s) 106, 217, 336
HpaII CCGG 3 cut(s) 126, 248, 681
HphI GGTGA 2 cut(s) 128, 185
Hpy166II GTNNAC 3 cut(s) 84, 316, 658
Hpy188I TCNGA 4 cut(s) 30, 68, 284, 742
Hpy188III TCNNGA 1 cut(s) 692
Hpy8I GTNNAC 3 cut(s) 84, 316, 658
Hpy99I CGWCG 1 cut(s) 79
HpyAV CCTTC 1 cut(s) 63
HpyCH4III ACNGT 4 cut(s) 88, 116, 194, 700
HpyCH4V TGCA 6 cut(s) 197, 447, 497, 548, 560, 703
HpyF10VI GCNNNNNNNGC 3 cut(s) 20, 203, 229
HpyF3I CTNAG 3 cut(s) 29, 465, 741
Hsp92I GRCGYC 2 cut(s) 23, 619
Hsp92II CATG 2 cut(s) 451, 605
HspAI GCGC 3 cut(s) 23, 541, 619
KasI GGCGCC 2 cut(s) 22, 618
Kzo9I GATC 2 cut(s) 456, 721
LmnI GCTCC 2 cut(s) 54, 506
Lsp1109I GCAGC 5 cut(s) 109, 216, 319, 481, 715
LweI GCATC 2 cut(s) 17, 109
MaeI CTAG 3 cut(s) 135, 180, 692
MaeIII GTNAC 2 cut(s) 188, 352
MalI GATC 2 cut(s) 458, 723
MboI GATC 2 cut(s) 456, 721
MboII GAAGA 4 cut(s) 261, 289, 506, 620
MhlI GDGCHC 1 cut(s) 511
MluCI AATT 3 cut(s) 435, 564, 762
Mly113I GGCGCC 2 cut(s) 23, 619
MlyI GAGTC 2 cut(s) 100, 345
MroXI GAANNNNTTC 1 cut(s) 636
MseI TTAA 1 cut(s) 627
MspI CCGG 3 cut(s) 126, 248, 681
MspR9I CCNGG 4 cut(s) 248, 249, 389, 408
Mva1269I GAATGC 1 cut(s) 543
MvaI CCWGG 2 cut(s) 389, 408
MwoI GCNNNNNNNGC 3 cut(s) 20, 203, 229
NarI GGCGCC 2 cut(s) 23, 619
NciI CCSGG 2 cut(s) 248, 249
NdeII GATC 2 cut(s) 456, 721
NlaIII CATG 2 cut(s) 451, 605
NlaIV GGNNCC 2 cut(s) 24, 620
NmuCI GTSAC 1 cut(s) 352
NspI RCATGY 1 cut(s) 451
PctI GAATGC 1 cut(s) 543
PdmI GAANNNNTTC 1 cut(s) 636
PfeI GAWTC 1 cut(s) 217
Pfl23II CGTACG 1 cut(s) 111
PflFI GACNNNGTC 1 cut(s) 79
PkrI GCNGC 5 cut(s) 124, 231, 309, 496, 705
PleI GAGTC 2 cut(s) 100, 344
PluTI GGCGCC 2 cut(s) 26, 622
PpsI GAGTC 2 cut(s) 100, 344
PpuMI RGGWCCY 1 cut(s) 254
Psp5II RGGWCCY 1 cut(s) 254
Psp6I CCWGG 2 cut(s) 387, 406
PspFI CCCAGC 1 cut(s) 345
PspGI CCWGG 2 cut(s) 387, 406
PspLI CGTACG 1 cut(s) 111
PspN4I GGNNCC 2 cut(s) 24, 620
PspPI GGNCC 2 cut(s) 81, 254
PspPPI RGGWCCY 1 cut(s) 254
PsyI GACNNNGTC 1 cut(s) 79
RsaI GTAC 3 cut(s) 113, 184, 418
RsaNI GTAC 3 cut(s) 112, 183, 417
SalI GTCGAC 1 cut(s) 656
SaqAI TTAA 1 cut(s) 627
SatI GCNGC 5 cut(s) 123, 230, 308, 495, 704
Sau3AI GATC 2 cut(s) 456, 721
Sau96I GGNCC 2 cut(s) 81, 254
SchI GAGTC 2 cut(s) 100, 345
ScrFI CCNGG 4 cut(s) 248, 249, 389, 408
SduI GDGCHC 1 cut(s) 511
SfaNI GCATC 2 cut(s) 17, 109
SfoI GGCGCC 2 cut(s) 24, 620
SinI GGWCC 2 cut(s) 81, 254
SmaI CCCGGG 1 cut(s) 249
SpeI ACTAGT 1 cut(s) 179
Sse9I AATT 3 cut(s) 435, 564, 762
SsiI CCGC 3 cut(s) 103, 160, 221
SspDI GGCGCC 2 cut(s) 22, 618
SspMI CTAG 3 cut(s) 135, 180, 692
StyD4I CCNGG 4 cut(s) 246, 247, 387, 406
StyI CCWWGG 2 cut(s) 321, 502
TaaI ACNGT 4 cut(s) 88, 116, 194, 700
TaqI TCGA 1 cut(s) 657
TasI AATT 3 cut(s) 435, 564, 762
TatI WGTACW 2 cut(s) 182, 416
TfiI GAWTC 1 cut(s) 217
Tru1I TTAA 1 cut(s) 627
Tru9I TTAA 1 cut(s) 627
TscAI CASTG 2 cut(s) 231, 705
TseFI GTSAC 1 cut(s) 352
TseI GCWGC 5 cut(s) 122, 229, 307, 494, 703
Tsp45I GTSAC 1 cut(s) 352
TspDTI ATGAA 3 cut(s) 132, 289, 645
TspGWI ACGGA 2 cut(s) 52, 99
TspMI CCCGGG 1 cut(s) 247
TspRI CASTG 2 cut(s) 231, 705
Tth111I GACNNNGTC 1 cut(s) 79
VpaK11BI GGWCC 2 cut(s) 81, 254
XbaI TCTAGA 1 cut(s) 691
XceI RCATGY 1 cut(s) 451
XcmI CCANNNNNNNNNTGG 1 cut(s) 584
XmaI CCCGGG 1 cut(s) 247
XmiI GTMKAC 1 cut(s) 657
XmnI GAANNNNTTC 1 cut(s) 636
XspI CTAG 3 cut(s) 135, 180, 692
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.