Rorug03G0199700

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000343
Physical Location & Seq
Forward (+)
17585976 .. 17587262
1287 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0199700.1

Sequence Viewer

Length: 1074 bp
ATGACTTCAACATGTTTGAGATTCTTTGCAGTATTAACAAGGTTCCCTCCTTGTGTCTTTCTTTGCGAGTCCTTGAGGTATTTAACCCTGGACATGAAGTGTGCAGTTCTTGAAGCTCCCTCCTTTTCTACTTCTCCTACCTCTAATCTTGTGTCCTTGATTTTGAGAAATGTAACTATAGAAGATGATGGAGGGTTTTGCAAATGGGTCTCCTACTATTGTAGGTTTATTAAGAAATTGGGGCTGGAACGGGTTTATGGGTTGGAAAACATCACCATTGAAAGTTTGTCTTTGGATTCATTCTCGGTCCAGTGTCCCTGTTATTTTGACATTGACCGTCTTGTAATAGCTGGTGATAAAATTGAAAATATAGATATAGATTGGGAGTATGATTCAGACAAGCGCAGCAATAAAAGTTTGTTGAATATTTCGGCCCCAAATCTGAAGTGTCTGAAATGGGTTGAGAATATGTTGAATCATCAGCATCTTGGGGAAATGAATTGTTTGGAACAAGTTGAGATTTCTCTTACTTCGTATGATGTAAATGATTTGGATAGCGTTTCTGAGCAGCTCTTGTGCAGTATAAGCAGTGTTAAAGTTCTTCTTCTAGACCAAGTGACTGCCAAGGGAAGGTTCACACCTGCCCCATTGGGCAGTGCTTGGTACTTGCTTATGTCTATTTGGGGCAGTATTGATGACAACCTTGCGCCAGCCATGACCCCTCTTTTCAGGGCTGTACCTAATTTGGCTATTTTGAACGTATCATCATCTCCCGAGCTTCCTTTTCGTCGTGGTGGTGATAAGGTATCTGGATTTGATAGGAGATATTGGGAACTCCAAGAGCTTGATTTTGTTTCTAAGCTGGAGGAGGTAACCATAGAGCTTACCACTGGGTCCAAGGGATTTGAATTAGCGAGGTACATGCTTGAGCATACTGGTAATTTGAAGAAAATGTTTGTTATTACTACACCCGATCAATCAAGTTTAGTACCGGAAATACGGAGAACCAACCGTACTTCCAATGCTAGAGTTGTCTTTCTGGAAAAACGAAATCTGCCTTGTCGTCGTGTTTAA
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

357

Amino Acids

40.55

Weight (kDa)

5.48

Isoelectric Point (pI)

52.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LRR_At5g56370 PF24758 13 - 177 4.7e-06 FBD-associated F-box protein At5g56370, LRR repeats
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

Orthologous Genes (Group: OG0000343)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G48090 AT5G48090 AT5G48090 AT5G55390 AT5G55390 AT5G55390
fragaria_vesca FvH4_3g23690 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160
malus_domestica MD03G1191000.v1.1 MD11G1207800.v1.1 MD11G1208000.v1.1
prunus_persica Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227600_v2.0.a1 Prupe.4G227700_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1
pyrus_communis pycom01g03400 pycom03g14420 pycom11g18100 pycom11g18140 pycom11g18150 pycom11g18160
rosa_chinensis RchiOBHm_Chr2g0145981 RchiOBHm_Chr4g0405241 RchiOBHm_Chr4g0405271 RchiOBHm_Chr5g0016201 RchiOBHm_Chr5g0041831 RchiOBHm_Chr5g0041871 RchiOBHm_Chr5g0041881 RchiOBHm_Chr5g0059241
rosa_laevigata RLG00000002117 RLG00000008861 RLG00000008862 RLG00000011000 RLG00000033216 RLG00000034097 RLG00000034101
rosa_multiflora Rmu_sc0000161.1_g000001 Rmu_sc0000861.1_g000040 Rmu_sc0007522.1_g000003 Rmu_sc0009443.1_g000015 Rmu_sc0022129.1_g000001 Rmu_sc0042315.1_g000001
rosa_roxburghii Rroxscaffold_1G00038660 Rroxscaffold_1G00038690 Rroxscaffold_5G00349560 Rroxscaffold_5G00349610 Rroxscaffold_6G00388370 Rroxscaffold_7G00188740
rosa_rugosa Rorug03G0199700 Rorug04G0055400 Rorug04G0055500 Rorug04G0055900 Rorug04G0056000 Rorug04G0056100 Rorug04G0056100 Rorug04G0056200 Rorug05G0195600 Rorug05G0195700 Rorug05G0195800 Rorug05G0195900 Rorug05G0196800 Rorug05G0385000
rosa_samantha Rh4AG129900 Rh4AG130100 Rh4BG124200 Rh4BG124400 Rh4BG124500 Rh4CG137200 Rh4CG137300 Rh4DG123500 Rh4DG123700 Rh5AG280800 Rh5AG281400 Rh5BG286700 Rh5BG287000 Rh5BG397800 Rh5CG318100 Rh5CG318600 Rh5CG421600 Rh5DG132300 Rh5DG132400 Rh5DG295400 Rh5DG295700 Rh7BG475300
rosa_wichuraiana Rw0G001330 Rw0G005730 Rw4G008670 Rw4G010510 Rw4G010540 Rw5G026450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 649
Acc36I ACCTGC 1 cut(s) 649
AcuI CTGAAG 1 cut(s) 464
AfaI GTAC 5 cut(s) 665, 738, 920, 990, 1015
AfiI CCNNNNNNNGG 1 cut(s) 630
AflIII ACRYGT 1 cut(s) 11
AgsI TTSAA 9 cut(s) 9, 113, 281, 365, 424, 475, 757, 908, 946
AjnI CCWGG 1 cut(s) 87
AjuI GAANNNNNNNTTGG 2 cut(s) 617, 649
AluBI AGCT 7 cut(s) 116, 350, 571, 778, 844, 862, 883
AluI AGCT 7 cut(s) 116, 350, 571, 778, 844, 862, 883
Alw26I GTCTC 1 cut(s) 214
Ama87I CYCGRG 1 cut(s) 773
AoxI GGCC 1 cut(s) 432
ApeKI GCWGC 2 cut(s) 405, 568
AspLEI GCGC 2 cut(s) 405, 709
AspS9I GGNCC 3 cut(s) 307, 433, 894
AsuHPI GGTGA 3 cut(s) 265, 365, 809
AvaI CYCGRG 1 cut(s) 773
AvaII GGWCC 2 cut(s) 307, 894
BbvI GCAGC 2 cut(s) 417, 580
BccI CCATC 1 cut(s) 182
BcgI CGANNNNNNTGC 2 cut(s) 904, 938
BciT130I CCWGG 1 cut(s) 89
BcoDI GTCTC 1 cut(s) 214
BfaI CTAG 2 cut(s) 608, 1026
BfmI CTRYAG 1 cut(s) 177
BfuAI ACCTGC 1 cut(s) 649
BisI GCNGC 2 cut(s) 406, 569
BlsI GCNGC 2 cut(s) 407, 570
Bme1390I CCNGG 1 cut(s) 89
Bme18I GGWCC 2 cut(s) 307, 894
BmeT110I CYCGRG 1 cut(s) 773
BmgT120I GGNCC 3 cut(s) 307, 433, 894
BmiI GGNNCC 3 cut(s) 44, 435, 895
BmrFI CCNGG 1 cut(s) 89
BmrI ACTGGG 1 cut(s) 900
BmsI GCATC 1 cut(s) 493
BmuI ACTGGG 1 cut(s) 900
BpmI CTGGAG 1 cut(s) 884
BpuEI CTTGAG 2 cut(s) 94, 947
BsaI GGTCTC 1 cut(s) 214
BsaJI CCNNGG 3 cut(s) 87, 624, 897
BsaWI WCCGGW 1 cut(s) 991
Bsc4I CCNNNNNNNGG 1 cut(s) 630
Bse1I ACTGG 3 cut(s) 310, 895, 940
BseBI CCWGG 1 cut(s) 89
BseDI CCNNGG 3 cut(s) 87, 624, 897
BseLI CCNNNNNNNGG 1 cut(s) 630
BseMII CTCAG 1 cut(s) 555
BseNI ACTGG 3 cut(s) 310, 895, 940
BseRI GAGGAG 1 cut(s) 881
BseXI GCAGC 2 cut(s) 417, 580
BsgI GTGCAG 2 cut(s) 123, 598
BshFI GGCC 1 cut(s) 434
BsiHKCI CYCGRG 1 cut(s) 773
BsiSI CCGG 1 cut(s) 992
BslFI GGGAC 1 cut(s) 300
BslI CCNNNNNNNGG 1 cut(s) 630
BsmAI GTCTC 1 cut(s) 214
BsmFI GGGAC 1 cut(s) 300
BsnI GGCC 1 cut(s) 434
Bso31I GGTCTC 1 cut(s) 214
BsoBI CYCGRG 1 cut(s) 773
Bsp143I GATC 1 cut(s) 973
BspANI GGCC 1 cut(s) 434
BspCNI CTCAG 1 cut(s) 556
BspLI GGNNCC 3 cut(s) 44, 435, 895
BspMI ACCTGC 1 cut(s) 649
BspTNI GGTCTC 1 cut(s) 214
BsrI ACTGG 3 cut(s) 310, 895, 940
BssECI CCNNGG 3 cut(s) 87, 624, 897
BssMI GATC 1 cut(s) 973
BssT1I CCWWGG 2 cut(s) 624, 897
Bst2UI CCWGG 1 cut(s) 89
Bst4CI ACNGT 2 cut(s) 338, 1013
BstC8I GCNNGC 1 cut(s) 711
BstDEI CTNAG 2 cut(s) 564, 858
BstEII GGTNACC 1 cut(s) 871
BstHHI GCGC 2 cut(s) 405, 709
BstKTI GATC 1 cut(s) 976
BstMAI GTCTC 1 cut(s) 214
BstMBI GATC 1 cut(s) 973
BstMWI GCNNNNNNNGC 1 cut(s) 585
BstNI CCWGG 1 cut(s) 89
BstNSI RCATGY 2 cut(s) 15, 925
BstPI GGTNACC 1 cut(s) 871
BstSCI CCNGG 1 cut(s) 87
BstSFI CTRYAG 1 cut(s) 177
BstV1I GCAGC 2 cut(s) 417, 580
BsuRI GGCC 1 cut(s) 434
BtsI GCAGTG 2 cut(s) 595, 661
BtsIMutI CAGTG 4 cut(s) 317, 595, 661, 888
BveI ACCTGC 1 cut(s) 649
Cac8I GCNNGC 1 cut(s) 711
CfoI GCGC 2 cut(s) 405, 709
Cfr13I GGNCC 3 cut(s) 307, 433, 894
Csp6I GTAC 5 cut(s) 664, 737, 919, 989, 1014
CviAII CATG 4 cut(s) 12, 94, 715, 922
CviQI GTAC 5 cut(s) 664, 737, 919, 989, 1014
DdeI CTNAG 2 cut(s) 564, 858
DpnI GATC 1 cut(s) 975
DpnII GATC 1 cut(s) 973
Eco130I CCWWGG 2 cut(s) 624, 897
Eco31I GGTCTC 1 cut(s) 214
Eco47I GGWCC 2 cut(s) 307, 894
Eco57I CTGAAG 1 cut(s) 464
Eco88I CYCGRG 1 cut(s) 773
Eco91I GGTNACC 1 cut(s) 871
EcoO65I GGTNACC 1 cut(s) 871
EcoRII CCWGG 1 cut(s) 87
EcoT14I CCWWGG 2 cut(s) 624, 897
ErhI CCWWGG 2 cut(s) 624, 897
FaeI CATG 4 cut(s) 15, 97, 718, 925
FalI AAGNNNNNCTT 4 cut(s) 274, 306, 588, 620
FaqI GGGAC 1 cut(s) 300
FatI CATG 4 cut(s) 11, 93, 714, 921
Fnu4HI GCNGC 2 cut(s) 406, 569
Fsp4HI GCNGC 2 cut(s) 406, 569
FspBI CTAG 2 cut(s) 608, 1026
GlaI GCGC 2 cut(s) 404, 708
GluI GCNGC 2 cut(s) 406, 569
GsuI CTGGAG 1 cut(s) 884
HaeIII GGCC 1 cut(s) 434
HapII CCGG 1 cut(s) 992
HhaI GCGC 2 cut(s) 405, 709
Hin1II CATG 4 cut(s) 15, 97, 718, 925
Hin6I GCGC 2 cut(s) 403, 707
HinP1I GCGC 2 cut(s) 403, 707
HinfI GANTC 5 cut(s) 21, 68, 296, 392, 475
HpaII CCGG 1 cut(s) 992
HphI GGTGA 3 cut(s) 265, 365, 809
Hpy166II GTNNAC 1 cut(s) 636
Hpy188I TCNGA 4 cut(s) 397, 444, 453, 565
Hpy188III TCNNGA 5 cut(s) 110, 608, 773, 810, 1040
Hpy8I GTNNAC 1 cut(s) 636
Hpy99I CGWCG 2 cut(s) 792, 1068
HpyAV CCTTC 1 cut(s) 624
HpyCH4III ACNGT 2 cut(s) 338, 1013
HpyCH4IV ACGT 1 cut(s) 759
HpyCH4V TGCA 4 cut(s) 29, 104, 201, 579
HpyF10VI GCNNNNNNNGC 1 cut(s) 585
HpyF3I CTNAG 2 cut(s) 564, 858
HpySE526I ACGT 1 cut(s) 759
Hsp92II CATG 4 cut(s) 15, 97, 718, 925
HspAI GCGC 2 cut(s) 403, 707
Kzo9I GATC 1 cut(s) 973
LmnI GCTCC 1 cut(s) 121
Lsp1109I GCAGC 2 cut(s) 417, 580
LweI GCATC 1 cut(s) 493
MaeI CTAG 2 cut(s) 608, 1026
MaeII ACGT 1 cut(s) 759
MaeIII GTNAC 3 cut(s) 172, 616, 871
MalI GATC 1 cut(s) 975
MboI GATC 1 cut(s) 973
MboII GAAGA 4 cut(s) 194, 593, 596, 958
MluCI AATT 6 cut(s) 236, 360, 499, 742, 908, 940
MlyI GAGTC 1 cut(s) 77
MmeI TCCRAC 1 cut(s) 243
MnlI CCTC 9 cut(s) 57, 69, 130, 151, 185, 732, 859, 862, 909
MseI TTAA 5 cut(s) 35, 83, 231, 594, 1072
MspI CCGG 1 cut(s) 992
MspR9I CCNGG 1 cut(s) 89
MvaI CCWGG 1 cut(s) 89
MwoI GCNNNNNNNGC 1 cut(s) 585
NdeII GATC 1 cut(s) 973
NlaIII CATG 4 cut(s) 15, 97, 718, 925
NlaIV GGNNCC 3 cut(s) 44, 435, 895
NmuCI GTSAC 1 cut(s) 616
NspI RCATGY 2 cut(s) 15, 925
PaqCI CACCTGC 1 cut(s) 649
PciI ACATGT 1 cut(s) 11
PfeI GAWTC 4 cut(s) 21, 296, 392, 475
PkrI GCNGC 2 cut(s) 407, 570
PleI GAGTC 1 cut(s) 76
PpsI GAGTC 1 cut(s) 76
PscI ACATGT 1 cut(s) 11
Psp6I CCWGG 1 cut(s) 87
PspEI GGTNACC 1 cut(s) 871
PspGI CCWGG 1 cut(s) 87
PspN4I GGNNCC 3 cut(s) 44, 435, 895
PspPI GGNCC 3 cut(s) 307, 433, 894
PsrI GAACNNNNNNTAC 2 cut(s) 997, 1029
RsaI GTAC 5 cut(s) 665, 738, 920, 990, 1015
RsaNI GTAC 5 cut(s) 664, 737, 919, 989, 1014
SaqAI TTAA 5 cut(s) 35, 83, 231, 594, 1072
SatI GCNGC 2 cut(s) 406, 569
Sau3AI GATC 1 cut(s) 973
Sau96I GGNCC 3 cut(s) 307, 433, 894
SchI GAGTC 1 cut(s) 77
ScrFI CCNGG 1 cut(s) 89
SfaNI GCATC 1 cut(s) 493
SfcI CTRYAG 1 cut(s) 177
SinI GGWCC 2 cut(s) 307, 894
SmlI CTYRAG 2 cut(s) 73, 926
SmoI CTYRAG 2 cut(s) 73, 926
Sse9I AATT 6 cut(s) 236, 360, 499, 742, 908, 940
SspI AATATT 1 cut(s) 427
SspMI CTAG 2 cut(s) 608, 1026
StyD4I CCNGG 1 cut(s) 87
StyI CCWWGG 2 cut(s) 624, 897
TaaI ACNGT 2 cut(s) 338, 1013
TaiI ACGT 1 cut(s) 762
TaqII GACCGA 1 cut(s) 295
TasI AATT 6 cut(s) 236, 360, 499, 742, 908, 940
TfiI GAWTC 4 cut(s) 21, 296, 392, 475
Tru1I TTAA 5 cut(s) 35, 83, 231, 594, 1072
Tru9I TTAA 5 cut(s) 35, 83, 231, 594, 1072
TscAI CASTG 4 cut(s) 317, 595, 661, 895
TseFI GTSAC 1 cut(s) 616
TseI GCWGC 2 cut(s) 405, 568
Tsp45I GTSAC 1 cut(s) 616
TspDTI ATGAA 3 cut(s) 110, 288, 512
TspGWI ACGGA 1 cut(s) 1015
TspRI CASTG 4 cut(s) 317, 595, 661, 895
VpaK11BI GGWCC 2 cut(s) 307, 894
XbaI TCTAGA 1 cut(s) 607
XceI RCATGY 2 cut(s) 15, 925
XspI CTAG 2 cut(s) 608, 1026
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.