Rh1CG004800

Clp protease-related protein At4g12060

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0014395
Physical Location & Seq
Reverse (-)
796892 .. 812547
15656 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG004800.1

Sequence Viewer

Length: 1215 bp
ATGCACCATATTACAAAAACTTCCTTTGAAACGGACCAGCAAGAATCACCACCTCATAATTCCGGCTCATCTTTGATCGATGCTGATGCAGTGAACATCCGAGGAGATCAGAAATGCTCGTCGTCGTCCTCAACCATCAAAGCCAACAGTACAAATCACGAACAGAGCAAGGACAAGTCATCAATAGAAAACTCTTGTTTCTATTCCCATTTGTTATTGAAGAAGAAGAAGAAGTCGTCCAGCGACAAAGACAAAGACAGCAAAGAGATGGGTTGTAGTAGTACTACTTCATCATCTTCTTCTTCTCCACATAATTCATCACCTCTATCTCAATCGGTGCCCTTGGAAAAGAGTACTAAAAAACAACATTTAAGCATGTTCCGCAATTTGATCAACTGTGGTGCTGTGGACACGAACGACACCGTATTCGTCAGGTTGAATCGGGACAGTAAGACATATTCCACTAACAATAAGCCTCTTAATCGCAGCAGGCAAGACATTATTATTCGAAAAGAAAAGAGGGAGAAAGCAGTTGGAAAGCTGACCCTTACTGAGAAAGGATTCTTTGGCGAGTGCGTGAGGGCGCATACTGGCATGGCCAGACCTAAGCTTGCCTCAAATTGGAAGCTCTATCTCCTACTCTACGACGAAGGTTACTCCGACGGGACCTTGTCATGGTTGAAATGGCCACAGACTGTCGCCACCGTTCTCTTCAGCCTCCCAACAGGGAAACCAGAGAGGATTTCTTCTGGGAAAAGCTCACAATGGTCGGCTAGAGCGATTAAGTCGTTTGCTATGGGTGAATTGGAAGCAAGGAAGCTCAAGTATCCCAATACTGGCACGGAAGCCCTTCTGATGGGAATTTTAGTCGAGGGAACAAGTATAGCTGCGAAGTTTCTCAGAGCTAATGGAATCACGCTTTTCAAGGTTCGAGAAGAAACTGTAAAGTTACTTGGAAAGTCAGACATGTACTTTTTCAGCCCCGAGCATCCTCCATTGACTGAGCCAGCTCAGAGGGCCCTTGACTGGGCTGTAGATCAAAAACTGAAGTCAGGAGACGGTGGGGAAATAACAGTAACTCATCTGCTTCTCGGGATTTGGTCTGAAAAAGAGTCAGCAGGTCACAAGATCTTGGTGTCCCTGGGTTTTGATGATGAGAAAGCAAAAGAGCTTTCTGTATCTATGGACAAGGATTATGTTCCTAGCTATAAATAA

Protein Analysis

404

Amino Acids

44.8

Weight (kDa)

9.25

Isoelectric Point (pI)

41.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Clp_N PF02861 260 - 379 9.2e-14 Clp repeat (R) N-terminal domain
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: OG0014395)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G05577
fragaria_vesca FvH4_2g11530
malus_domestica MD07G1001300.v1.1 MD07G1001400.v1.1
prunus_persica Prupe.2G001400_v2.0.a1 Prupe.2G001400_v2.0.a1
pyrus_communis pycom07g00180
rosa_chinensis RchiOBHm_Chr1g0313061
rosa_laevigata RLG00000030824
rosa_multiflora Rmu_sc0001606.1_g000003
rosa_roxburghii Rroxscaffold_4G00332510
rosa_rugosa RorugPtG0000700
rosa_samantha Rh1AG000600 Rh1CG002200 Rh1CG004800 Rh1DG000300
rosa_wichuraiana Rw0G008490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1109
AccB1I GGYRCC 1 cut(s) 337
AciI CCGC 1 cut(s) 382
AcoI YGGCCR 2 cut(s) 597, 686
AcsI RAATTY 1 cut(s) 861
AcuI CTGAAG 2 cut(s) 697, 1067
AfaI GTAC 4 cut(s) 151, 283, 355, 971
AfiI CCNNNNNNNGG 6 cut(s) 621, 675, 836, 856, 1026, 1027
AflIII ACRYGT 1 cut(s) 966
AgsI TTSAA 5 cut(s) 29, 220, 439, 682, 925
AjnI CCWGG 1 cut(s) 1140
Alw26I GTCTC 1 cut(s) 1050
Ama87I CYCGRG 2 cut(s) 983, 1091
AoxI GGCC 3 cut(s) 597, 686, 1017
ApaI GGGCCC 1 cut(s) 1021
ApeKI GCWGC 2 cut(s) 486, 887
ApoI RAATTY 1 cut(s) 861
ArsI GACNNNNNNTTYG 2 cut(s) 410, 442
Asp700I GAANNNNTTC 2 cut(s) 560, 849
AspLEI GCGC 1 cut(s) 586
AspS9I GGNCC 4 cut(s) 34, 666, 1017, 1018
AsuHPI GGTGA 3 cut(s) 39, 312, 812
AsuII TTCGAA 1 cut(s) 508
AvaI CYCGRG 2 cut(s) 983, 1091
AvaII GGWCC 2 cut(s) 34, 666
BaeGI GKGCMC 2 cut(s) 342, 1021
BalI TGGCCA 2 cut(s) 599, 688
BanI GGYRCC 1 cut(s) 337
BanII GRGCYC 1 cut(s) 1021
BarI GAAGNNNNNNTAC 2 cut(s) 271, 303
BbvI GCAGC 2 cut(s) 498, 874
BccI CCATC 3 cut(s) 143, 262, 850
BcgI CGANNNNNNTGC 2 cut(s) 68, 102
BciT130I CCWGG 1 cut(s) 1142
BciVI GTATCC 1 cut(s) 837
BclI TGATCA 1 cut(s) 390
BcoDI GTCTC 1 cut(s) 1050
BfaI CTAG 2 cut(s) 774, 1203
BfmI CTRYAG 1 cut(s) 1032
BfuAI ACCTGC 1 cut(s) 1109
BfuI GTATCC 1 cut(s) 837
BglII AGATCT 1 cut(s) 1128
BisI GCNGC 2 cut(s) 487, 888
BlsI GCNGC 2 cut(s) 488, 889
BmcAI AGTACT 2 cut(s) 283, 355
Bme1390I CCNGG 1 cut(s) 1142
Bme18I GGWCC 2 cut(s) 34, 666
BmeT110I CYCGRG 2 cut(s) 983, 1091
BmgT120I GGNCC 4 cut(s) 34, 666, 1017, 1018
BmiI GGNNCC 3 cut(s) 339, 667, 1019
BmrFI CCNGG 1 cut(s) 1142
BmrI ACTGGG 1 cut(s) 1036
BmsI GCATC 3 cut(s) 70, 76, 997
BmuI ACTGGG 1 cut(s) 1036
Bpu10I CCTNAGC 1 cut(s) 606
Bpu14I TTCGAA 1 cut(s) 508
BpuEI CTTGAG 1 cut(s) 806
Bsa29I ATCGAT 1 cut(s) 78
BsaJI CCNNGG 4 cut(s) 100, 342, 1140, 1141
Bsc4I CCNNNNNNNGG 6 cut(s) 621, 675, 836, 856, 1026, 1027
Bse1I ACTGG 3 cut(s) 595, 841, 1031
BseBI CCWGG 1 cut(s) 1142
BseCI ATCGAT 1 cut(s) 78
BseDI CCNNGG 4 cut(s) 100, 342, 1140, 1141
BseGI GGATG 2 cut(s) 96, 988
BseLI CCNNNNNNNGG 6 cut(s) 621, 675, 836, 856, 1026, 1027
BseMII CTCAG 4 cut(s) 543, 913, 993, 1025
BseNI ACTGG 3 cut(s) 595, 841, 1031
BseRI GAGGAG 1 cut(s) 117
BseSI GKGCMC 2 cut(s) 342, 1021
BseXI GCAGC 2 cut(s) 498, 874
BshFI GGCC 3 cut(s) 599, 688, 1019
BshNI GGYRCC 1 cut(s) 337
BshVI ATCGAT 1 cut(s) 78
BsiHKCI CYCGRG 2 cut(s) 983, 1091
BsiSI CCGG 1 cut(s) 63
BslFI GGGAC 3 cut(s) 458, 679, 1123
BslI CCNNNNNNNGG 6 cut(s) 621, 675, 836, 856, 1026, 1027
BsmAI GTCTC 1 cut(s) 1050
BsmBI CGTCTC 1 cut(s) 1050
BsmFI GGGAC 3 cut(s) 458, 679, 1123
BsnI GGCC 3 cut(s) 599, 688, 1019
BsoBI CYCGRG 2 cut(s) 983, 1091
Bsp119I TTCGAA 1 cut(s) 508
Bsp120I GGGCCC 1 cut(s) 1017
Bsp1286I GDGCHC 2 cut(s) 342, 1021
Bsp143I GATC 5 cut(s) 75, 106, 390, 1036, 1128
BspACI CCGC 1 cut(s) 382
BspANI GGCC 3 cut(s) 599, 688, 1019
BspCNI CTCAG 4 cut(s) 544, 912, 994, 1024
BspDI ATCGAT 1 cut(s) 78
BspLI GGNNCC 3 cut(s) 339, 667, 1019
BspMI ACCTGC 1 cut(s) 1109
BspT104I TTCGAA 1 cut(s) 508
BspT107I GGYRCC 1 cut(s) 337
BsrI ACTGG 3 cut(s) 595, 841, 1031
BssECI CCNNGG 4 cut(s) 100, 342, 1140, 1141
BssMI GATC 5 cut(s) 75, 106, 390, 1036, 1128
BssT1I CCWWGG 1 cut(s) 342
Bst2UI CCWGG 1 cut(s) 1142
Bst4CI ACNGT 9 cut(s) 149, 398, 424, 449, 697, 706, 943, 1061, 1075
Bst6I CTCTTC 1 cut(s) 716
BstBI TTCGAA 1 cut(s) 508
BstC8I GCNNGC 3 cut(s) 491, 612, 1008
BstDEI CTNAG 5 cut(s) 552, 606, 899, 1002, 1011
BstF5I GGATG 2 cut(s) 96, 988
BstHHI GCGC 1 cut(s) 586
BstKTI GATC 5 cut(s) 78, 109, 393, 1039, 1131
BstMAI GTCTC 1 cut(s) 1050
BstMBI GATC 5 cut(s) 75, 106, 390, 1036, 1128
BstMWI GCNNNNNNNGC 2 cut(s) 381, 1016
BstNI CCWGG 1 cut(s) 1142
BstNSI RCATGY 2 cut(s) 379, 970
BstSCI CCNGG 1 cut(s) 1140
BstSFI CTRYAG 1 cut(s) 1032
BstSLI GKGCMC 2 cut(s) 342, 1021
BstV1I GCAGC 2 cut(s) 498, 874
BstX2I RGATCY 1 cut(s) 1128
BstYI RGATCY 1 cut(s) 1128
Bsu15I ATCGAT 1 cut(s) 78
BsuI GTATCC 1 cut(s) 837
BsuRI GGCC 3 cut(s) 599, 688, 1019
BsuTUI ATCGAT 1 cut(s) 78
BtsCI GGATG 2 cut(s) 96, 988
BtsI GCAGTG 1 cut(s) 96
BtsIMutI CAGTG 1 cut(s) 96
BveI ACCTGC 1 cut(s) 1109
Cac8I GCNNGC 3 cut(s) 491, 612, 1008
CfoI GCGC 1 cut(s) 586
Cfr13I GGNCC 4 cut(s) 34, 666, 1017, 1018
ClaI ATCGAT 1 cut(s) 78
Csp6I GTAC 4 cut(s) 150, 282, 354, 970
CviAII CATG 4 cut(s) 376, 595, 675, 967
CviQI GTAC 4 cut(s) 150, 282, 354, 970
DdeI CTNAG 5 cut(s) 552, 606, 899, 1002, 1011
DpnI GATC 5 cut(s) 77, 108, 392, 1038, 1130
DpnII GATC 5 cut(s) 75, 106, 390, 1036, 1128
EaeI YGGCCR 2 cut(s) 597, 686
Eam1104I CTCTTC 1 cut(s) 716
EarI CTCTTC 1 cut(s) 716
Eco130I CCWWGG 1 cut(s) 342
Eco24I GRGCYC 1 cut(s) 1021
Eco47I GGWCC 2 cut(s) 34, 666
Eco57I CTGAAG 2 cut(s) 697, 1067
Eco88I CYCGRG 2 cut(s) 983, 1091
EcoO109I RGGNCCY 3 cut(s) 666, 1017, 1018
EcoRII CCWGG 1 cut(s) 1140
EcoT14I CCWWGG 1 cut(s) 342
EcoT38I GRGCYC 1 cut(s) 1021
ErhI CCWWGG 1 cut(s) 342
Esp3I CGTCTC 1 cut(s) 1050
FaeI CATG 4 cut(s) 379, 598, 678, 970
FaqI GGGAC 3 cut(s) 458, 679, 1123
FatI CATG 4 cut(s) 375, 594, 674, 966
FbaI TGATCA 1 cut(s) 390
Fnu4HI GCNGC 2 cut(s) 487, 888
FokI GGATG 2 cut(s) 83, 975
FriOI GRGCYC 1 cut(s) 1021
Fsp4HI GCNGC 2 cut(s) 487, 888
FspBI CTAG 2 cut(s) 774, 1203
GlaI GCGC 1 cut(s) 585
GluI GCNGC 2 cut(s) 487, 888
HaeIII GGCC 3 cut(s) 599, 688, 1019
HapII CCGG 1 cut(s) 63
HhaI GCGC 1 cut(s) 586
Hin1II CATG 4 cut(s) 379, 598, 678, 970
Hin6I GCGC 1 cut(s) 584
HinP1I GCGC 1 cut(s) 584
HindIII AAGCTT 1 cut(s) 608
HinfI GANTC 5 cut(s) 44, 439, 561, 912, 1112
HpaII CCGG 1 cut(s) 63
HphI GGTGA 3 cut(s) 39, 312, 812
Hpy166II GTNNAC 2 cut(s) 94, 409
Hpy188I TCNGA 8 cut(s) 101, 111, 661, 855, 902, 964, 1014, 1105
Hpy188III TCNNGA 5 cut(s) 158, 443, 932, 1053, 1093
Hpy8I GTNNAC 2 cut(s) 94, 409
Hpy99I CGWCG 4 cut(s) 124, 127, 650, 665
HpyAV CCTTC 2 cut(s) 644, 860
HpyCH4III ACNGT 9 cut(s) 149, 398, 424, 449, 697, 706, 943, 1061, 1075
HpyCH4V TGCA 2 cut(s) 4, 89
HpyF10VI GCNNNNNNNGC 2 cut(s) 381, 1016
HpyF3I CTNAG 5 cut(s) 552, 606, 899, 1002, 1011
Hsp92II CATG 4 cut(s) 379, 598, 678, 970
HspAI GCGC 1 cut(s) 584
Ksp22I TGATCA 1 cut(s) 390
Kzo9I GATC 5 cut(s) 75, 106, 390, 1036, 1128
Lsp1109I GCAGC 2 cut(s) 498, 874
LweI GCATC 3 cut(s) 70, 76, 997
MaeI CTAG 2 cut(s) 774, 1203
MaeIII GTNAC 4 cut(s) 653, 948, 1075, 1121
MalI GATC 5 cut(s) 77, 108, 392, 1038, 1130
MboI GATC 5 cut(s) 75, 106, 390, 1036, 1128
MflI RGATCY 1 cut(s) 1128
MhlI GDGCHC 2 cut(s) 342, 1021
MlsI TGGCCA 2 cut(s) 599, 688
MluCI AATT 6 cut(s) 58, 313, 385, 619, 803, 861
MluNI TGGCCA 2 cut(s) 599, 688
MlyI GAGTC 1 cut(s) 1121
MmeI TCCRAC 2 cut(s) 514, 684
Mox20I TGGCCA 2 cut(s) 599, 688
MroXI GAANNNNTTC 2 cut(s) 560, 849
MscI TGGCCA 2 cut(s) 599, 688
MseI TTAA 3 cut(s) 371, 480, 783
Msp20I TGGCCA 2 cut(s) 599, 688
MspI CCGG 1 cut(s) 63
MspR9I CCNGG 1 cut(s) 1142
MvaI CCWGG 1 cut(s) 1142
MwoI GCNNNNNNNGC 2 cut(s) 381, 1016
NdeII GATC 5 cut(s) 75, 106, 390, 1036, 1128
NlaIII CATG 4 cut(s) 379, 598, 678, 970
NlaIV GGNNCC 3 cut(s) 339, 667, 1019
NmuCI GTSAC 1 cut(s) 1121
NspI RCATGY 2 cut(s) 379, 970
NspV TTCGAA 1 cut(s) 508
PasI CCCWGGG 1 cut(s) 1141
PciI ACATGT 1 cut(s) 966
PcsI WCGNNNNNNNCGW 1 cut(s) 776
PdmI GAANNNNTTC 2 cut(s) 560, 849
PfeI GAWTC 4 cut(s) 44, 439, 561, 912
PflFI GACNNNGTC 1 cut(s) 670
PkrI GCNGC 2 cut(s) 488, 889
PleI GAGTC 1 cut(s) 1120
PpsI GAGTC 1 cut(s) 1120
PpuMI RGGWCCY 1 cut(s) 666
PscI ACATGT 1 cut(s) 966
Psp5II RGGWCCY 1 cut(s) 666
Psp6I CCWGG 1 cut(s) 1140
PspGI CCWGG 1 cut(s) 1140
PspN4I GGNNCC 3 cut(s) 339, 667, 1019
PspOMI GGGCCC 1 cut(s) 1017
PspPI GGNCC 4 cut(s) 34, 666, 1017, 1018
PspPPI RGGWCCY 1 cut(s) 666
PsuI RGATCY 1 cut(s) 1128
PsyI GACNNNGTC 1 cut(s) 670
RsaI GTAC 4 cut(s) 151, 283, 355, 971
RsaNI GTAC 4 cut(s) 150, 282, 354, 970
SaqAI TTAA 3 cut(s) 371, 480, 783
SatI GCNGC 2 cut(s) 487, 888
Sau3AI GATC 5 cut(s) 75, 106, 390, 1036, 1128
Sau96I GGNCC 4 cut(s) 34, 666, 1017, 1018
ScaI AGTACT 2 cut(s) 283, 355
SchI GAGTC 1 cut(s) 1121
ScrFI CCNGG 1 cut(s) 1142
SduI GDGCHC 2 cut(s) 342, 1021
SfaNI GCATC 3 cut(s) 70, 76, 997
SfcI CTRYAG 1 cut(s) 1032
SfuI TTCGAA 1 cut(s) 508
SinI GGWCC 2 cut(s) 34, 666
SmlI CTYRAG 1 cut(s) 821
SmoI CTYRAG 1 cut(s) 821
Sse9I AATT 6 cut(s) 58, 313, 385, 619, 803, 861
SsiI CCGC 1 cut(s) 382
SspMI CTAG 2 cut(s) 774, 1203
StyD4I CCNGG 1 cut(s) 1140
StyI CCWWGG 1 cut(s) 342
TaaI ACNGT 9 cut(s) 149, 398, 424, 449, 697, 706, 943, 1061, 1075
TaqI TCGA 4 cut(s) 78, 508, 870, 931
TasI AATT 6 cut(s) 58, 313, 385, 619, 803, 861
TatI WGTACW 4 cut(s) 149, 281, 353, 969
TfiI GAWTC 4 cut(s) 44, 439, 561, 912
Tru1I TTAA 3 cut(s) 371, 480, 783
Tru9I TTAA 3 cut(s) 371, 480, 783
TscAI CASTG 1 cut(s) 96
TseFI GTSAC 1 cut(s) 1121
TseI GCWGC 2 cut(s) 486, 887
Tsp45I GTSAC 1 cut(s) 1121
TspDTI ATGAA 2 cut(s) 279, 306
TspGWI ACGGA 2 cut(s) 47, 857
TspRI CASTG 1 cut(s) 96
Tth111I GACNNNGTC 1 cut(s) 670
VpaK11BI GGWCC 2 cut(s) 34, 666
XapI RAATTY 1 cut(s) 861
XceI RCATGY 2 cut(s) 379, 970
XmnI GAANNNNTTC 2 cut(s) 560, 849
XspI CTAG 2 cut(s) 774, 1203
ZrmI AGTACT 2 cut(s) 283, 355
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.