RchiOBHm_Chr5g0050131

4-diphosphocytidyl-2-C-methyl-D-erythritol kinase, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0005876
Physical Location & Seq
Reverse (-)
48648956 .. 48655352
6397 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32776

Sequence Viewer

Length: 1203 bp
ATGCTGGCTGCACTGGGGGTTCCTATGGCTTTATCTCAGTTTCTCGGCCATAATCCAATCTTGCAGCCTTGTCCCAATTTGTTCGAAAACCGCAGAGTGCATTCGCTACGTACACATGGGTCGTCCTCATATTTCAACTCAAAGTCGAGAAATGTCAGCGTCATGGTTTCTGCCAACAGAAAACAAGTAGAGATAGTATACGATCCTGATGAAAGGATAAACAAGTTGGCAGATAAGGTGGAAAATGAGGCTCCGCCGCTTTCAAGGCTGTCACTGTTCTCGCCTTGCAAGATTAATGTTTTCTTGAGAATAACTAACAAAAGAGAAGATGGGTTTCATGACTTGGCATCTCTCTTTCATGTCATAAGCCTTGGAGATGTGATTAAGTTCTCTTTGTCACCCTCAAAATCCAAAGATCGTTTGTCGACCAATGTGTCAGGGGTTCCCCTTGATGATAGGAATTTGATTATCAAGGCCCTTAATCTCTACAGGAAGAAGACTGGTAGCGACAATTTCTTTTGGATTCATCTTGATAAGAAAGTGCCTACAGGAGCAGGACTTGGTGGTGGAAGCAGCAATGCTGCAACTGCGCTATGGGCAGCAAATCAGTTTAATGGTTGTCTTGCCACTGAGAAGGAGCTCCAAGAATGGTCGAGTGAGATTGGTTCAGATGTTCCCTTCTTTTTCTCTCAAGGTGCAGCCTATTGTACTGGTCGTGGTGAGGTTGTTCAAAATATTCCTCCACCTGTACCCTTTGACATTCCGATGGTTCTTATAAAGCCTCAGCAGGCATGTTCAACAGCTGAAGTTTACAAGCGCCTGCAGTTGGATACAACTAGTAGTGTTGATCCTTTAAAATTGCTGGAAAGAATCTCAGTGAATGGAATATCACAAGATGTTTGCATCAATGATTTAGAACCTCCAGCATTTCAAGTTCTTCCATCTCTTAAAAGATTGAAGCAGCGAGTACTTGCTGCTAGCCGTGGACAATATGATGCTGTTTTCATGTCTGGAAGTGGAAGCACTATTGTTGGGATTGGTTCTCCAGATCCTCCTCAGTTTGTATATGATGACAACGAATACAAGGATGTGTTTTTGTCAGAGGCCAACTTTCTCACTCGCGAAGAAAATCATTGGTACAGAGAACCTTCATCCAGAAGTGCTAGTGGCCCATCCTCTGATTTTTCCCAGTCTATTCCTTGA

Protein Analysis

400

Amino Acids

44.13

Weight (kDa)

7.05

Isoelectric Point (pI)

45.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
GHMP_kinases_N PF00288 154 - 231 3.1e-14 GHMP kinases N terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 776
AasI GACNNNNNNGTC 1 cut(s) 433
AccI GTMKAC 2 cut(s) 198, 425
AccII CGCG 1 cut(s) 1122
AciI CCGC 3 cut(s) 91, 254, 257
AclWI GGATC 3 cut(s) 197, 842, 1043
AcoI YGGCCR 1 cut(s) 46
AcsI RAATTY 1 cut(s) 460
AcuI CTGAAG 1 cut(s) 825
AfaI GTAC 5 cut(s) 112, 709, 750, 969, 1139
AfiI CCNNNNNNNGG 1 cut(s) 826
AgsI TTSAA 6 cut(s) 136, 264, 731, 798, 932, 958
AhlI ACTAGT 1 cut(s) 836
AluBI AGCT 2 cut(s) 640, 803
AluI AGCT 2 cut(s) 640, 803
Alw21I GWGCWC 1 cut(s) 642
AlwI GGATC 3 cut(s) 197, 842, 1043
AoxI GGCC 4 cut(s) 46, 474, 1104, 1168
ApeKI GCWGC 8 cut(s) 8, 64, 573, 581, 599, 698, 961, 974
ApoI RAATTY 1 cut(s) 460
AseI ATTAAT 1 cut(s) 294
AspLEI GCGC 2 cut(s) 592, 819
AspS9I GGNCC 2 cut(s) 475, 1169
AsuHPI GGTGA 2 cut(s) 390, 731
AsuII TTCGAA 1 cut(s) 84
AsuNHI GCTAGC 1 cut(s) 977
BanII GRGCYC 1 cut(s) 642
BbsI GAAGAC 1 cut(s) 503
Bbv12I GWGCWC 1 cut(s) 642
BbvCI CCTCAGC 1 cut(s) 783
BbvI GCAGC 7 cut(s) 76, 568, 585, 611, 710, 961, 973
BccI CCATC 4 cut(s) 323, 760, 949, 1180
BceAI ACGGC 1 cut(s) 966
BciVI GTATCC 1 cut(s) 823
BcuI ACTAGT 1 cut(s) 836
BfaI CTAG 3 cut(s) 837, 978, 1164
BfmI CTRYAG 3 cut(s) 487, 546, 821
BfoI RGCGCY 1 cut(s) 820
BfuI GTATCC 1 cut(s) 823
BisI GCNGC 9 cut(s) 9, 65, 257, 574, 582, 600, 699, 962, 975
BlsI GCNGC 9 cut(s) 10, 66, 258, 575, 583, 601, 700, 963, 976
BmcAI AGTACT 1 cut(s) 969
BmgT120I GGNCC 2 cut(s) 475, 1169
BmiI GGNNCC 3 cut(s) 21, 252, 444
BmrI ACTGGG 2 cut(s) 23, 1183
BmsI GCATC 3 cut(s) 356, 912, 985
BmtI GCTAGC 1 cut(s) 981
BmuI ACTGGG 2 cut(s) 23, 1183
BpiI GAAGAC 1 cut(s) 503
BpmI CTGGAG 2 cut(s) 906, 1029
Bpu10I CCTNAGC 1 cut(s) 783
Bpu14I TTCGAA 1 cut(s) 84
BpuEI CTTGAG 2 cut(s) 325, 675
BsaAI YACGTR 1 cut(s) 110
BsaJI CCNNGG 2 cut(s) 370, 982
Bsc4I CCNNNNNNNGG 1 cut(s) 826
Bse1I ACTGG 4 cut(s) 18, 505, 715, 1189
Bse3DI GCAATG 1 cut(s) 583
BseDI CCNNGG 2 cut(s) 370, 982
BseGI GGATG 3 cut(s) 1093, 1151, 1172
BseLI CCNNNNNNNGG 1 cut(s) 826
BseMI GCAATG 1 cut(s) 583
BseMII CTCAG 5 cut(s) 50, 621, 797, 888, 1070
BseNI ACTGG 4 cut(s) 18, 505, 715, 1189
BseRI GAGGAG 1 cut(s) 1044
BseXI GCAGC 7 cut(s) 76, 568, 585, 611, 710, 961, 973
BsgI GTGCAG 1 cut(s) 717
Bsh1236I CGCG 1 cut(s) 1122
BshFI GGCC 4 cut(s) 48, 476, 1106, 1170
BsiHKAI GWGCWC 1 cut(s) 642
BslFI GGGAC 1 cut(s) 57
BslI CCNNNNNNNGG 1 cut(s) 826
BsmFI GGGAC 1 cut(s) 57
BsmI GAATGC 1 cut(s) 100
BsnI GGCC 4 cut(s) 48, 476, 1106, 1170
Bsp119I TTCGAA 1 cut(s) 84
Bsp1286I GDGCHC 1 cut(s) 642
Bsp143I GATC 4 cut(s) 202, 415, 847, 1048
Bsp68I TCGCGA 1 cut(s) 1122
BspACI CCGC 3 cut(s) 91, 254, 257
BspANI GGCC 4 cut(s) 48, 476, 1106, 1170
BspCNI CTCAG 5 cut(s) 49, 622, 796, 887, 1069
BspFNI CGCG 1 cut(s) 1122
BspHI TCATGA 1 cut(s) 337
BspLI GGNNCC 3 cut(s) 21, 252, 444
BspMAI CTGCAG 1 cut(s) 825
BspOI GCTAGC 1 cut(s) 981
BspPI GGATC 3 cut(s) 197, 842, 1043
BspT104I TTCGAA 1 cut(s) 84
BsrDI GCAATG 1 cut(s) 583
BsrI ACTGG 4 cut(s) 18, 505, 715, 1189
BssECI CCNNGG 2 cut(s) 370, 982
BssMI GATC 4 cut(s) 202, 415, 847, 1048
BssNAI GTATAC 1 cut(s) 199
BssT1I CCWWGG 1 cut(s) 370
Bst1107I GTATAC 1 cut(s) 199
Bst4CI ACNGT 1 cut(s) 276
BstBAI YACGTR 1 cut(s) 110
BstBI TTCGAA 1 cut(s) 84
BstC8I GCNNGC 4 cut(s) 6, 789, 821, 979
BstDEI CTNAG 5 cut(s) 36, 630, 783, 874, 1056
BstDSI CCRYGG 1 cut(s) 982
BstF5I GGATG 3 cut(s) 1093, 1151, 1172
BstFNI CGCG 1 cut(s) 1122
BstH2I RGCGCY 1 cut(s) 820
BstHHI GCGC 2 cut(s) 592, 819
BstKTI GATC 4 cut(s) 205, 418, 850, 1051
BstMBI GATC 4 cut(s) 202, 415, 847, 1048
BstMWI GCNNNNNNNGC 3 cut(s) 265, 587, 596
BstNSI RCATGY 1 cut(s) 795
BstSFI CTRYAG 3 cut(s) 487, 546, 821
BstSNI TACGTA 1 cut(s) 110
BstUI CGCG 1 cut(s) 1122
BstV1I GCAGC 7 cut(s) 76, 568, 585, 611, 710, 961, 973
BstV2I GAAGAC 1 cut(s) 503
BstX2I RGATCY 1 cut(s) 1048
BstYI RGATCY 1 cut(s) 1048
BstZ17I GTATAC 1 cut(s) 199
BsuI GTATCC 1 cut(s) 823
BsuRI GGCC 4 cut(s) 48, 476, 1106, 1170
BtgI CCRYGG 1 cut(s) 982
BtsCI GGATG 3 cut(s) 1093, 1151, 1172
BtsIMutI CAGTG 4 cut(s) 11, 272, 627, 882
BtuMI TCGCGA 1 cut(s) 1122
Cac8I GCNNGC 4 cut(s) 6, 789, 821, 979
CciI TCATGA 1 cut(s) 337
CfoI GCGC 2 cut(s) 592, 819
Cfr13I GGNCC 2 cut(s) 475, 1169
CseI GACGC 1 cut(s) 148
Csp6I GTAC 5 cut(s) 111, 708, 749, 968, 1138
CviAII CATG 6 cut(s) 116, 163, 338, 359, 792, 1006
CviQI GTAC 5 cut(s) 111, 708, 749, 968, 1138
DdeI CTNAG 5 cut(s) 36, 630, 783, 874, 1056
DpnI GATC 4 cut(s) 204, 417, 849, 1050
DpnII GATC 4 cut(s) 202, 415, 847, 1048
DraI TTTAAA 1 cut(s) 855
DrdI GACNNNNNNGTC 1 cut(s) 433
DseDI GACNNNNNNGTC 1 cut(s) 433
EaeI YGGCCR 1 cut(s) 46
EciI GGCGGA 1 cut(s) 243
Ecl136II GAGCTC 1 cut(s) 640
Eco105I TACGTA 1 cut(s) 110
Eco130I CCWWGG 1 cut(s) 370
Eco24I GRGCYC 1 cut(s) 642
Eco53kI GAGCTC 1 cut(s) 640
Eco57I CTGAAG 1 cut(s) 825
EcoICRI GAGCTC 1 cut(s) 640
EcoO109I RGGNCCY 1 cut(s) 475
EcoT14I CCWWGG 1 cut(s) 370
EcoT38I GRGCYC 1 cut(s) 642
ErhI CCWWGG 1 cut(s) 370
FaeI CATG 6 cut(s) 119, 166, 341, 362, 795, 1009
FaqI GGGAC 1 cut(s) 57
FatI CATG 6 cut(s) 115, 162, 337, 358, 791, 1005
FblI GTMKAC 2 cut(s) 198, 425
Fnu4HI GCNGC 9 cut(s) 9, 65, 257, 574, 582, 600, 699, 962, 975
FokI GGATG 3 cut(s) 1100, 1138, 1159
FriOI GRGCYC 1 cut(s) 642
Fsp4HI GCNGC 9 cut(s) 9, 65, 257, 574, 582, 600, 699, 962, 975
FspBI CTAG 3 cut(s) 837, 978, 1164
GlaI GCGC 2 cut(s) 591, 818
GluI GCNGC 9 cut(s) 9, 65, 257, 574, 582, 600, 699, 962, 975
GsuI CTGGAG 2 cut(s) 906, 1029
HaeII RGCGCY 1 cut(s) 820
HaeIII GGCC 4 cut(s) 48, 476, 1106, 1170
HgaI GACGC 1 cut(s) 148
HhaI GCGC 2 cut(s) 592, 819
Hin1II CATG 6 cut(s) 119, 166, 341, 362, 795, 1009
Hin6I GCGC 2 cut(s) 590, 817
HinP1I GCGC 2 cut(s) 590, 817
HincII GTYRAC 1 cut(s) 426
HindII GTYRAC 1 cut(s) 426
HinfI GANTC 2 cut(s) 523, 870
HphI GGTGA 2 cut(s) 390, 731
Hpy166II GTNNAC 5 cut(s) 113, 199, 426, 811, 986
Hpy188I TCNGA 4 cut(s) 670, 765, 1102, 1180
Hpy188III TCNNGA 9 cut(s) 147, 206, 304, 338, 530, 1011, 1046, 1121, 1155
Hpy8I GTNNAC 5 cut(s) 113, 199, 426, 811, 986
HpyAV CCTTC 3 cut(s) 628, 688, 1158
HpyCH4III ACNGT 1 cut(s) 276
HpyCH4IV ACGT 1 cut(s) 109
HpyCH4V TGCA 8 cut(s) 11, 64, 100, 288, 584, 698, 823, 903
HpyF10VI GCNNNNNNNGC 3 cut(s) 265, 587, 596
HpyF3I CTNAG 5 cut(s) 36, 630, 783, 874, 1056
HpySE526I ACGT 1 cut(s) 109
Hsp92II CATG 6 cut(s) 119, 166, 341, 362, 795, 1009
HspAI GCGC 2 cut(s) 590, 817
Kzo9I GATC 4 cut(s) 202, 415, 847, 1048
LmnI GCTCC 4 cut(s) 256, 551, 637, 645
Lsp1109I GCAGC 7 cut(s) 76, 568, 585, 611, 710, 961, 973
LweI GCATC 3 cut(s) 356, 912, 985
MaeI CTAG 3 cut(s) 837, 978, 1164
MaeII ACGT 1 cut(s) 109
MaeIII GTNAC 2 cut(s) 270, 396
MalI GATC 4 cut(s) 204, 417, 849, 1050
MboI GATC 4 cut(s) 202, 415, 847, 1048
MboII GAAGA 5 cut(s) 338, 505, 508, 929, 1136
MflI RGATCY 1 cut(s) 1048
MhlI GDGCHC 1 cut(s) 642
MluCI AATT 4 cut(s) 76, 460, 511, 857
MmeI TCCRAC 1 cut(s) 807
MseI TTAA 6 cut(s) 294, 384, 480, 612, 854, 948
MslI CAYNNNNRTG 1 cut(s) 764
MspA1I CMGCKG 1 cut(s) 803
Mva1269I GAATGC 1 cut(s) 100
MvnI CGCG 1 cut(s) 1122
MwoI GCNNNNNNNGC 3 cut(s) 265, 587, 596
NdeII GATC 4 cut(s) 202, 415, 847, 1048
NheI GCTAGC 1 cut(s) 977
NlaIII CATG 6 cut(s) 119, 166, 341, 362, 795, 1009
NlaIV GGNNCC 3 cut(s) 21, 252, 444
NmeAIII GCCGAG 1 cut(s) 24
NmuCI GTSAC 2 cut(s) 270, 396
NruI TCGCGA 1 cut(s) 1122
NspI RCATGY 1 cut(s) 795
NspV TTCGAA 1 cut(s) 84
PagI TCATGA 1 cut(s) 337
PctI GAATGC 1 cut(s) 100
PfeI GAWTC 2 cut(s) 523, 870
PkrI GCNGC 9 cut(s) 10, 66, 258, 575, 583, 601, 700, 963, 976
Ppu21I YACGTR 1 cut(s) 110
PshBI ATTAAT 1 cut(s) 294
PsiI TTATAA 1 cut(s) 776
Psp124BI GAGCTC 1 cut(s) 642
PspN4I GGNNCC 3 cut(s) 21, 252, 444
PspPI GGNCC 2 cut(s) 475, 1169
PstI CTGCAG 1 cut(s) 825
PsuI RGATCY 1 cut(s) 1048
PvuII CAGCTG 1 cut(s) 803
RruI TCGCGA 1 cut(s) 1122
RsaI GTAC 5 cut(s) 112, 709, 750, 969, 1139
RsaNI GTAC 5 cut(s) 111, 708, 749, 968, 1138
RseI CAYNNNNRTG 1 cut(s) 764
SacI GAGCTC 1 cut(s) 642
SalI GTCGAC 1 cut(s) 424
SaqAI TTAA 6 cut(s) 294, 384, 480, 612, 854, 948
SatI GCNGC 9 cut(s) 9, 65, 257, 574, 582, 600, 699, 962, 975
Sau3AI GATC 4 cut(s) 202, 415, 847, 1048
Sau96I GGNCC 2 cut(s) 475, 1169
ScaI AGTACT 1 cut(s) 969
SduI GDGCHC 1 cut(s) 642
SetI ASST 9 cut(s) 112, 240, 642, 697, 726, 748, 805, 922, 1150
SfaNI GCATC 3 cut(s) 356, 912, 985
SfcI CTRYAG 3 cut(s) 487, 546, 821
SfuI TTCGAA 1 cut(s) 84
SmiMI CAYNNNNRTG 1 cut(s) 764
SmlI CTYRAG 2 cut(s) 304, 690
SmoI CTYRAG 2 cut(s) 304, 690
SnaBI TACGTA 1 cut(s) 110
SpeI ACTAGT 1 cut(s) 836
Sse9I AATT 4 cut(s) 76, 460, 511, 857
SsiI CCGC 3 cut(s) 91, 254, 257
SspI AATATT 1 cut(s) 736
SspMI CTAG 3 cut(s) 837, 978, 1164
SstI GAGCTC 1 cut(s) 642
StyI CCWWGG 1 cut(s) 370
TaaI ACNGT 1 cut(s) 276
TaiI ACGT 1 cut(s) 112
TaqI TCGA 4 cut(s) 84, 146, 425, 653
TasI AATT 4 cut(s) 76, 460, 511, 857
TatI WGTACW 2 cut(s) 707, 967
TauI GCSGC 1 cut(s) 259
TfiI GAWTC 2 cut(s) 523, 870
Tru1I TTAA 6 cut(s) 294, 384, 480, 612, 854, 948
Tru9I TTAA 6 cut(s) 294, 384, 480, 612, 854, 948
TscAI CASTG 4 cut(s) 18, 279, 634, 882
TseFI GTSAC 2 cut(s) 270, 396
TseI GCWGC 8 cut(s) 8, 64, 573, 581, 599, 698, 961, 974
Tsp45I GTSAC 2 cut(s) 270, 396
TspDTI ATGAA 6 cut(s) 225, 326, 347, 515, 994, 1140
TspRI CASTG 4 cut(s) 18, 279, 634, 882
VspI ATTAAT 1 cut(s) 294
XapI RAATTY 1 cut(s) 460
XceI RCATGY 1 cut(s) 795
XmiI GTMKAC 2 cut(s) 198, 425
XspI CTAG 3 cut(s) 837, 978, 1164
ZrmI AGTACT 1 cut(s) 969
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.