Rmu_sc0000389.1_g000047

1-deoxy-D-xylulose-5-phosphate synthase 2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000389.1
OG0000901
Physical Location & Seq
Forward (+)
238206 .. 241596
3391 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000389.1_g000047.1.cds

Sequence Viewer

Length: 2217 bp
atgctcaacaggtcacgcccttctgccccttcccctgtctccacccagattccattagctatggcggtctctggtacattcattagaccaaatcagtacttctcttcatgcgtcaatactccaagtccaagaccaagactaaatcccagttgcagaaaacagttctgtttgaaggcttcagctggtaactcagacggcgaggaccgcaagttgacaaggaaggagaaagacggaggatgtaagatcgagtacactactgaaaaaccagccacgccattgctggacacaatcaattacccagctcacatgaagaatctatcaacacaggatctcgaacaactagcagcagagctcagaatggatattgttcacagtgtttcacagacaggtgggcatctcagttctagcttgggtgtggtggagctatcagtggcactgcatcatgtgttcagcacccctgacgataaaatcatatgggatgttggtcatcaggcttatcctcataaaattctcacaggaaggaggtccaagatgcatacaatgaggaaaacttcaggtcttgcaggatttcccaaaagggatgagagcgttcatgatgcttttggtgtcgggcacagttctacaagcatatctgctggtttaggtatggcagtcgcaagagatctacttgggaaggacaacagtatcatttcagtgattggagatggagccatgacagcaggacaagcatatgaagccatgaacaacgcaggataccttgacgctaatctgatcgtcatactgaatgacaataagcaagtctctttacccaccgccacccttgatggccctgcaacgccagttggagccctcagcagtgctctaaccaaactccaagcaagcacccagtttcgcaaacttcgagaagctgcaaaaagcattacgaagcaaatcggaggacaaacacatgaagttgcagctaaagtagatgagtatgcaagaggaatgattagtgcttctggatccactctcttcgaggagcttggattgtattatattggtccagtagacggtcacaatgttgcagacttggtcaacattttccagagagtgaaagccatgcctgccccggggccagttttgatccacatcataacagagaaaggaaaaggctaccccccagccgaggccgcagctgatagaatgcatggggttgtcaagtttgacccaccaacaggccagcaatttaagaccaaatcccctacgctttcatatactcagtactttgctgaatctctgataaaggaagctgaaacagatgagaaaattgtagcgatccatgcagcaatgggtggcggcactggtctaaattacttccagaagaggtttccagatcgttgctttgatgtggggattgctgagcaacatgctgtcacatttgcagctggtttagctgcagaaggtctcaagccattctgtgctatctactcaacattcctgcaacgaggatatgatcaggtggtccatgatgtagatcttcaaaaactacctgtccgctttgcaatggatcgagctggcttggttggtgcagatggtcccacccactgtggagcatttgatatcacatacatggcttgcttgcccaatatggtggttatggctccatctgatgaagctgaactgatgcacatggtcgccacagcagcagttatagatgatagaccaagctgctttagatttccaagaggcaatggtattggagcagttcttcctgcccataacaaaggaactccaattgagattgggaaaggaagagtactgatggaaggcagtagagttgcaattttgggatatggttctatagttcagcaatgtgtgggagcagcaaacatgctgaaaaccagggacatatccgtgacagtcgcagatgcaaggttttgtaaacctttggatacagagctaatcaagcaattggccaaggagcatgaaatccttattacggtggaagaaggttcaattggaggttttggatcgcatgtatcacactacctaagtttgagtggtattctagatggaccactcaagttgagagcaatggtacttcctgatagatacattgatcatggagcaccccaggatcaacttgaagaagcaggcctctcatcaaggcagatctcagcaacagtattgtctctcttagggaggccaaaagaagctcttcagttcgtttcaggatga
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00730 ko00900 ko01100 ko01110 ko01130 map00730 map00900 map01100 map01110 map01130
Pfam Domains
Protein Families
DXP_synthase_N Transket_pyr Transketolase_C

Protein Analysis

738

Amino Acids

79.2

Weight (kDa)

7.11

Isoelectric Point (pI)

38.87

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 1047
AciI CCGC 6 cut(s) 65, 205, 813, 1170, 1335, 1534
AclWI GGATC 8 cut(s) 336, 996, 1009, 1117, 1309, 1554, 2017, 2124
AcoI YGGCCR 1 cut(s) 1953
AcsI RAATTY 1 cut(s) 507
AcuI CTGAAG 3 cut(s) 162, 537, 2183
AfaI GTAC 6 cut(s) 76, 98, 251, 1262, 1797, 2079
AfiI CCNNNNNNNGG 5 cut(s) 1049, 1109, 1165, 1214, 1978
AgsI TTSAA 4 cut(s) 172, 1520, 1995, 2126
AjnI CCWGG 2 cut(s) 1880, 2112
AjuI GAANNNNNNNTTGG 2 cut(s) 1980, 2012
Alw21I GWGCWC 3 cut(s) 354, 862, 2110
Alw26I GTCTC 5 cut(s) 43, 73, 805, 1448, 2175
AlwI GGATC 8 cut(s) 336, 996, 1009, 1117, 1309, 1554, 2017, 2124
Ama87I CYCGRG 1 cut(s) 1108
AoxI GGCC 7 cut(s) 826, 1112, 1167, 1216, 1953, 2134, 2183
ApoI RAATTY 1 cut(s) 507
Asp700I GAANNNNTTC 1 cut(s) 2196
AspS9I GGNCC 8 cut(s) 202, 525, 827, 1040, 1112, 1501, 1574, 2054
AsuC2I CCSGG 2 cut(s) 1109, 1110
AvaI CYCGRG 1 cut(s) 1108
AvaII GGWCC 6 cut(s) 202, 525, 1040, 1501, 1574, 2054
BaeGI GKGCMC 1 cut(s) 615
BaeI ACNNNNGTAYC 2 cut(s) 667, 700
BalI TGGCCA 1 cut(s) 1955
BamHI GGATCC 1 cut(s) 1001
BanII GRGCYC 2 cut(s) 354, 850
Bbv12I GWGCWC 3 cut(s) 354, 862, 2110
BbvCI CCTCAGC 1 cut(s) 851
BccI CCATC 6 cut(s) 698, 818, 1565, 1651, 1795, 2045
BceAI ACGGC 1 cut(s) 211
BciT130I CCWGG 2 cut(s) 1882, 2114
BciVI GTATCC 2 cut(s) 746, 1924
BclI TGATCA 2 cut(s) 1492, 2098
BcnI CCSGG 2 cut(s) 1109, 1110
BcoDI GTCTC 5 cut(s) 43, 73, 805, 1448, 2175
BfaI CTAG 3 cut(s) 341, 405, 2048
BfmI CTRYAG 2 cut(s) 1434, 1839
BfuI GTATCC 2 cut(s) 746, 1924
BglII AGATCT 3 cut(s) 661, 1513, 2151
BlpI GCTNAGC 1 cut(s) 1398
BmcAI AGTACT 3 cut(s) 98, 1262, 1797
Bme1390I CCNGG 4 cut(s) 1109, 1110, 1882, 2114
Bme18I GGWCC 6 cut(s) 202, 525, 1040, 1501, 1574, 2054
BmeT110I CYCGRG 1 cut(s) 1108
BmgT120I GGNCC 8 cut(s) 202, 525, 827, 1040, 1112, 1501, 1574, 2054
BmiI GGNNCC 6 cut(s) 709, 847, 1003, 1113, 1576, 1641
BmrFI CCNGG 4 cut(s) 1109, 1110, 1882, 2114
BmrI ACTGGG 2 cut(s) 141, 880
BmsI GCATC 6 cut(s) 403, 448, 522, 586, 1653, 1897
BmuI ACTGGG 2 cut(s) 141, 880
Bpu10I CCTNAGC 1 cut(s) 851
Bpu1102I GCTNAGC 1 cut(s) 1398
BpuEI CTTGAG 2 cut(s) 1430, 2045
BpuMI CCSGG 2 cut(s) 1109, 1110
BsaBI GATNNNNATC 2 cut(s) 1127, 1512
BsaI GGTCTC 2 cut(s) 73, 1448
BsaJI CCNNGG 7 cut(s) 1107, 1108, 1109, 1164, 1881, 1956, 2112
Bsc4I CCNNNNNNNGG 5 cut(s) 1049, 1109, 1165, 1214, 1978
Bse1I ACTGG 6 cut(s) 147, 839, 886, 1043, 1115, 1345
Bse3DI GCAATG 6 cut(s) 275, 1332, 1548, 1735, 1856, 2079
Bse8I GATNNNNATC 2 cut(s) 1127, 1512
BseBI CCWGG 2 cut(s) 1882, 2114
BseDI CCNNGG 7 cut(s) 1107, 1108, 1109, 1164, 1881, 1956, 2112
BseGI GGATG 3 cut(s) 242, 484, 586
BseJI GATNNNNATC 2 cut(s) 1127, 1512
BseLI CCNNNNNNNGG 5 cut(s) 1049, 1109, 1165, 1214, 1978
BseMI GCAATG 6 cut(s) 275, 1332, 1548, 1735, 1856, 2079
BseMII CTCAG 7 cut(s) 204, 367, 412, 865, 1271, 1389, 2169
BseNI ACTGG 6 cut(s) 147, 839, 886, 1043, 1115, 1345
BseRI GAGGAG 1 cut(s) 1031
BseSI GKGCMC 1 cut(s) 615
BseYI CCCAGC 2 cut(s) 298, 1159
BsgI GTGCAG 1 cut(s) 1587
BshFI GGCC 7 cut(s) 828, 1114, 1169, 1218, 1955, 2136, 2185
BsiHKAI GWGCWC 3 cut(s) 354, 862, 2110
BsiHKCI CYCGRG 1 cut(s) 1108
BsiSI CCGG 1 cut(s) 1109
BslFI GGGAC 2 cut(s) 1560, 1898
BslI CCNNNNNNNGG 5 cut(s) 1049, 1109, 1165, 1214, 1978
BsmAI GTCTC 5 cut(s) 43, 73, 805, 1448, 2175
BsmFI GGGAC 2 cut(s) 1560, 1898
BsmI GAATGC 1 cut(s) 1188
BsnI GGCC 7 cut(s) 828, 1114, 1169, 1218, 1955, 2136, 2185
Bso31I GGTCTC 2 cut(s) 73, 1448
BsoBI CYCGRG 1 cut(s) 1108
Bsp1286I GDGCHC 5 cut(s) 354, 615, 850, 862, 2110
Bsp1720I GCTNAGC 1 cut(s) 1398
BspACI CCGC 6 cut(s) 65, 205, 813, 1170, 1335, 1534
BspANI GGCC 7 cut(s) 828, 1114, 1169, 1218, 1955, 2136, 2185
BspCNI CTCAG 7 cut(s) 203, 366, 411, 864, 1270, 1390, 2168
BspHI TCATGA 1 cut(s) 592
BspLI GGNNCC 6 cut(s) 709, 847, 1003, 1113, 1576, 1641
BspMAI CTGCAG 1 cut(s) 1438
BspPI GGATC 8 cut(s) 336, 996, 1009, 1117, 1309, 1554, 2017, 2124
BspQI GCTCTTC 1 cut(s) 2202
BspTNI GGTCTC 2 cut(s) 73, 1448
BsrDI GCAATG 6 cut(s) 275, 1332, 1548, 1735, 1856, 2079
BsrI ACTGG 6 cut(s) 147, 839, 886, 1043, 1115, 1345
BssECI CCNNGG 7 cut(s) 1107, 1108, 1109, 1164, 1881, 1956, 2112
BssT1I CCWWGG 1 cut(s) 1956
Bst2UI CCWGG 2 cut(s) 1882, 2114
Bst4CI ACNGT 9 cut(s) 162, 374, 617, 683, 1052, 1586, 1900, 1981, 2164
Bst6I CTCTTC 5 cut(s) 109, 1016, 1355, 1786, 2202
BstC8I GCNNGC 7 cut(s) 880, 1104, 1220, 1555, 1615, 1619, 2134
BstDEI CTNAG 9 cut(s) 190, 353, 398, 851, 1257, 1398, 2030, 2155, 2176
BstF5I GGATG 3 cut(s) 242, 484, 586
BstMAI GTCTC 5 cut(s) 43, 73, 805, 1448, 2175
BstNI CCWGG 2 cut(s) 1882, 2114
BstNSI RCATGY 3 cut(s) 1409, 1873, 2018
BstSCI CCNGG 4 cut(s) 1107, 1108, 1880, 2112
BstSFI CTRYAG 2 cut(s) 1434, 1839
BstSLI GKGCMC 1 cut(s) 615
BstX2I RGATCY 5 cut(s) 328, 661, 1001, 1513, 2151
BstXI CCANNNNNNTGG 1 cut(s) 1630
BstYI RGATCY 5 cut(s) 328, 661, 1001, 1513, 2151
BsuI GTATCC 2 cut(s) 746, 1924
BsuRI GGCC 7 cut(s) 828, 1114, 1169, 1218, 1955, 2136, 2185
BtsCI GGATG 3 cut(s) 242, 484, 586
BtsI GCAGTG 2 cut(s) 434, 862
BtsIMutI CAGTG 7 cut(s) 379, 434, 435, 699, 862, 1338, 1582
Cac8I GCNNGC 7 cut(s) 880, 1104, 1220, 1555, 1615, 1619, 2134
CciI TCATGA 1 cut(s) 592
Cfr13I GGNCC 8 cut(s) 202, 525, 827, 1040, 1112, 1501, 1574, 2054
Cfr9I CCCGGG 1 cut(s) 1108
CseI GACGC 2 cut(s) 100, 770
Csp6I GTAC 6 cut(s) 75, 97, 250, 1261, 1796, 2078
CspCI CAANNNNNGTGG 2 cut(s) 2046, 2081
CviQI GTAC 6 cut(s) 75, 97, 250, 1261, 1796, 2078
DdeI CTNAG 9 cut(s) 190, 353, 398, 851, 1257, 1398, 2030, 2155, 2176
EaeI YGGCCR 1 cut(s) 1953
Eam1104I CTCTTC 5 cut(s) 109, 1016, 1355, 1786, 2202
EarI CTCTTC 5 cut(s) 109, 1016, 1355, 1786, 2202
Ecl136II GAGCTC 1 cut(s) 352
Eco130I CCWWGG 1 cut(s) 1956
Eco147I AGGCCT 1 cut(s) 2136
Eco24I GRGCYC 2 cut(s) 354, 850
Eco31I GGTCTC 2 cut(s) 73, 1448
Eco32I GATATC 1 cut(s) 1600
Eco47I GGWCC 6 cut(s) 202, 525, 1040, 1501, 1574, 2054
Eco53kI GAGCTC 1 cut(s) 352
Eco57I CTGAAG 3 cut(s) 162, 537, 2183
Eco88I CYCGRG 1 cut(s) 1108
EcoICRI GAGCTC 1 cut(s) 352
EcoRII CCWGG 2 cut(s) 1880, 2112
EcoRV GATATC 1 cut(s) 1600
EcoT14I CCWWGG 1 cut(s) 1956
EcoT22I ATGCAT 2 cut(s) 537, 1188
EcoT38I GRGCYC 2 cut(s) 354, 850
ErhI CCWWGG 1 cut(s) 1956
FalI AAGNNNNNCTT 2 cut(s) 2181, 2213
FaqI GGGAC 2 cut(s) 1560, 1898
FauNDI CATATG 2 cut(s) 473, 730
FbaI TGATCA 2 cut(s) 1492, 2098
FblI GTMKAC 1 cut(s) 1047
FokI GGATG 3 cut(s) 249, 491, 593
FriOI GRGCYC 2 cut(s) 354, 850
FspBI CTAG 3 cut(s) 341, 405, 2048
GsaI CCCAGC 2 cut(s) 302, 1163
HaeIII GGCC 7 cut(s) 828, 1114, 1169, 1218, 1955, 2136, 2185
HapII CCGG 1 cut(s) 1109
HgaI GACGC 2 cut(s) 100, 770
HincII GTYRAC 2 cut(s) 213, 1075
HindII GTYRAC 2 cut(s) 213, 1075
HinfI GANTC 3 cut(s) 49, 313, 1271
HpaII CCGG 1 cut(s) 1109
Hpy166II GTNNAC 6 cut(s) 213, 252, 370, 1048, 1075, 1922
Hpy188I TCNGA 6 cut(s) 193, 356, 771, 935, 1278, 1648
Hpy8I GTNNAC 6 cut(s) 213, 252, 370, 1048, 1075, 1922
HpyAV CCTTC 9 cut(s) 30, 39, 166, 214, 513, 667, 1433, 1799, 1982
HpyCH4III ACNGT 9 cut(s) 162, 374, 617, 683, 1052, 1586, 1900, 1981, 2164
HpyF3I CTNAG 9 cut(s) 190, 353, 398, 851, 1257, 1398, 2030, 2155, 2176
Ksp22I TGATCA 2 cut(s) 1492, 2098
LguI GCTCTTC 1 cut(s) 2202
LweI GCATC 6 cut(s) 403, 448, 522, 586, 1653, 1897
MaeI CTAG 3 cut(s) 341, 405, 2048
MaeIII GTNAC 5 cut(s) 12, 185, 1052, 1411, 1894
MfeI CAATTG 3 cut(s) 1773, 1949, 1995
MflI RGATCY 5 cut(s) 328, 661, 1001, 1513, 2151
MhlI GDGCHC 5 cut(s) 354, 615, 850, 862, 2110
MlsI TGGCCA 1 cut(s) 1955
MluCI AATT 9 cut(s) 292, 507, 1223, 1305, 1348, 1773, 1821, 1949, 1995
MluNI TGGCCA 1 cut(s) 1955
MmeI TCCRAC 1 cut(s) 823
Mox20I TGGCCA 1 cut(s) 1955
Mph1103I ATGCAT 2 cut(s) 537, 1188
MroXI GAANNNNTTC 1 cut(s) 2196
MscI TGGCCA 1 cut(s) 1955
MseI TTAA 1 cut(s) 1227
MslI CAYNNNNRTG 3 cut(s) 692, 1607, 1892
Msp20I TGGCCA 1 cut(s) 1955
MspA1I CMGCKG 3 cut(s) 182, 1175, 1424
MspI CCGG 1 cut(s) 1109
MspR9I CCNGG 4 cut(s) 1109, 1110, 1882, 2114
MunI CAATTG 3 cut(s) 1773, 1949, 1995
Mva1269I GAATGC 1 cut(s) 1188
MvaI CCWGG 2 cut(s) 1882, 2114
NciI CCSGG 2 cut(s) 1109, 1110
NdeI CATATG 2 cut(s) 473, 730
NlaIV GGNNCC 6 cut(s) 709, 847, 1003, 1113, 1576, 1641
NmeAIII GCCGAG 1 cut(s) 1189
NmuCI GTSAC 4 cut(s) 12, 1052, 1411, 1894
NsiI ATGCAT 2 cut(s) 537, 1188
NspI RCATGY 3 cut(s) 1409, 1873, 2018
PagI TCATGA 1 cut(s) 592
PceI AGGCCT 1 cut(s) 2136
PciSI GCTCTTC 1 cut(s) 2202
PcsI WCGNNNNNNNCGW 1 cut(s) 898
PctI GAATGC 1 cut(s) 1188
PdmI GAANNNNTTC 1 cut(s) 2196
PfeI GAWTC 3 cut(s) 49, 313, 1271
PflFI GACNNNGTC 1 cut(s) 1070
Psp124BI GAGCTC 1 cut(s) 354
Psp6I CCWGG 2 cut(s) 1880, 2112
PspFI CCCAGC 2 cut(s) 298, 1159
PspGI CCWGG 2 cut(s) 1880, 2112
PspN4I GGNNCC 6 cut(s) 709, 847, 1003, 1113, 1576, 1641
PspPI GGNCC 8 cut(s) 202, 525, 827, 1040, 1112, 1501, 1574, 2054
PstI CTGCAG 1 cut(s) 1438
PsuI RGATCY 5 cut(s) 328, 661, 1001, 1513, 2151
PsyI GACNNNGTC 1 cut(s) 1070
PvuII CAGCTG 3 cut(s) 182, 1175, 1424
RsaI GTAC 6 cut(s) 76, 98, 251, 1262, 1797, 2079
RsaNI GTAC 6 cut(s) 75, 97, 250, 1261, 1796, 2078
RseI CAYNNNNRTG 3 cut(s) 692, 1607, 1892
SacI GAGCTC 1 cut(s) 354
SapI GCTCTTC 1 cut(s) 2202
SaqAI TTAA 1 cut(s) 1227
Sau96I GGNCC 8 cut(s) 202, 525, 827, 1040, 1112, 1501, 1574, 2054
ScaI AGTACT 3 cut(s) 98, 1262, 1797
ScrFI CCNGG 4 cut(s) 1109, 1110, 1882, 2114
SduI GDGCHC 5 cut(s) 354, 615, 850, 862, 2110
SfaNI GCATC 6 cut(s) 403, 448, 522, 586, 1653, 1897
SfcI CTRYAG 2 cut(s) 1434, 1839
SinI GGWCC 6 cut(s) 202, 525, 1040, 1501, 1574, 2054
SmaI CCCGGG 1 cut(s) 1110
SmiMI CAYNNNNRTG 3 cut(s) 692, 1607, 1892
SmlI CTYRAG 2 cut(s) 1445, 2060
SmoI CTYRAG 2 cut(s) 1445, 2060
Sse9I AATT 9 cut(s) 292, 507, 1223, 1305, 1348, 1773, 1821, 1949, 1995
SseBI AGGCCT 1 cut(s) 2136
SsiI CCGC 6 cut(s) 65, 205, 813, 1170, 1335, 1534
SspMI CTAG 3 cut(s) 341, 405, 2048
SstI GAGCTC 1 cut(s) 354
StuI AGGCCT 1 cut(s) 2136
StyD4I CCNGG 4 cut(s) 1107, 1108, 1880, 2112
StyI CCWWGG 1 cut(s) 1956
TaaI ACNGT 9 cut(s) 162, 374, 617, 683, 1052, 1586, 1900, 1981, 2164
TaqI TCGA 5 cut(s) 246, 333, 901, 1014, 1549
TasI AATT 9 cut(s) 292, 507, 1223, 1305, 1348, 1773, 1821, 1949, 1995
TatI WGTACW 4 cut(s) 96, 249, 1260, 1795
TauI GCSGC 2 cut(s) 1172, 1338
TfiI GAWTC 3 cut(s) 49, 313, 1271
Tru1I TTAA 1 cut(s) 1227
Tru9I TTAA 1 cut(s) 1227
TscAI CASTG 7 cut(s) 379, 435, 441, 699, 862, 1345, 1589
TseFI GTSAC 4 cut(s) 12, 1052, 1411, 1894
Tsp45I GTSAC 4 cut(s) 12, 1052, 1411, 1894
TspGWI ACGGA 2 cut(s) 246, 1882
TspMI CCCGGG 1 cut(s) 1108
TspRI CASTG 7 cut(s) 379, 435, 441, 699, 862, 1345, 1589
Tth111I GACNNNGTC 1 cut(s) 1070
VpaK11BI GGWCC 6 cut(s) 202, 525, 1040, 1501, 1574, 2054
XapI RAATTY 1 cut(s) 507
XbaI TCTAGA 1 cut(s) 2047
XceI RCATGY 3 cut(s) 1409, 1873, 2018
XcmI CCANNNNNNNNNTGG 1 cut(s) 277
XmaI CCCGGG 1 cut(s) 1108
XmiI GTMKAC 1 cut(s) 1047
XmnI GAANNNNTTC 1 cut(s) 2196
XspI CTAG 3 cut(s) 341, 405, 2048
ZrmI AGTACT 3 cut(s) 98, 1262, 1797
Zsp2I ATGCAT 2 cut(s) 537, 1188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.