Rh5DG507800

15-cis-phytoene desaturase, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0015456
Physical Location & Seq
Reverse (-)
79287318 .. 79289084
1767 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG507800.1

Sequence Viewer

Length: 1110 bp
ATGAAACTCCTCACTCTTCCTCTCCCTCATCCCTGTTCTTCAAACCCCACCCTCCTCCGCTTCAGATTCAAACCTCAATCATCTCTACAGTACCCAAATCTCACTCCCCCTAAACCCCAATCCCAAGCAACCCCAAAACCACGTGTCGTCATCATAGGCGCCGGCCTCGCCGGCCTAGCCGCAGCCACCCACCTCAACTCCCAAAACATCCCCTTCCTCCTTCTCGAAGCTTCCGATGACGTCGGCGGTCGTGTCCGAACCGACGTCGTCGACGGCTTTCTTCTCGACCGCGGATTTCAAATCTTCATTACGGCATACCCCGAAGCTCAGAAGCTTCTCGATTACCAAGCCCTCGATCTTCAAACATTCTACTCCGGCGCTCGAATCTACTATAACGGCGAGTTTCACACCGTAGCCGATCCTCTACGCAATTTCTGGGACTCCATCAAGTCCTTAGCAAACCCAGTCGGATCAGTTTCTGATAAATTGCTTATCGGATTGACGAGACTCCGGGTCTTGACCAAATCCGATGAAGAGATATTTGCTTCCAGTGAAGTCTCCACGATGGAGTTGTTGAGGAAAACCGGGTTTTCGGATTCGATTATAGGCCGATTCTTTCAGCCGTTTTTCGGGGGAGTTTTCTTCGACAAGGAGCTCGAGACAACTTCTAGATTGTTCGATTTCATCTTCAAGTGTCTTGCTTTAGGCGACAACACTCTTCCTTCCAAAGGCATTGGCACCATTCCTAAACAATTGGCGGCAAAGTTGCCATCGGATTCGATCCTCTTCAATTCGAAGGTCCTTTCGATTGATTTCGAAGGGGAGGCGCCGATTGTGAGATTGGAGAGTGGAGAGGAATTGAGTAGTGAGCTAGGAGTGATAGTGGCAGTGGAGCAACCAGAAGCGGATAAGCTTTTGGCGGGAAAGGTATATGAACCGGTCCAAAGGAAACCGGCTCGGAGTACTGTTTGTTTATATTTCTCAGCCGACCGAGCCAATATTCCGGTTCAAGACCCGGTTTTGTTTCTCAACGGTTCAGGTGAGGGGATTGTGAATAATATATATGTTCTTTGCAACAAATGTGGCTCCGTCTTATGGGCCAACTGGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Amino_oxidase

Protein Analysis

369

Amino Acids

40.61

Weight (kDa)

5.78

Isoelectric Point (pI)

35.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAD_binding_8 PF13450 51 - 115 6e-16 NAD(P)-binding Rossmann-like domain
Amino_oxidase PF01593 56 - 335 8.6e-39 Flavin containing amine oxidoreductase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0015456)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G09580
fragaria_vesca FvH4_3g40270
malus_domestica MD03G1054600.v1.1
prunus_persica Prupe.6G043200_v2.0.a1
pyrus_communis pycom03g04330
rosa_chinensis RchiOBHm_Chr5g0072531
rosa_laevigata RLG00000036310
rosa_multiflora Rmu_sc0002088.1_g000015 Rmu_sc0007873.1_g000006
rosa_roxburghii Rroxscaffold_1G00008610
rosa_rugosa Rorug05G0418900
rosa_samantha Rh5AG475400 Rh5BG495600 Rh5CG519400 Rh5DG507800
rosa_wichuraiana Rw5G044160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 2 cut(s) 243, 267
AccB1I GGYRCC 3 cut(s) 158, 737, 826
AccI GTMKAC 1 cut(s) 270
AccII CGCG 1 cut(s) 291
AciI CCGC 8 cut(s) 58, 180, 246, 289, 291, 758, 905, 920
AclWI GGATC 3 cut(s) 413, 478, 775
AcuI CTGAAG 1 cut(s) 46
AcvI CACGTG 1 cut(s) 143
AcyI GRCGYC 4 cut(s) 159, 240, 264, 827
AfaI GTAC 2 cut(s) 92, 964
AfiI CCNNNNNNNGG 3 cut(s) 629, 728, 1095
AflIII ACRYGT 1 cut(s) 142
AgeI ACCGGT 1 cut(s) 937
AgsI TTSAA 7 cut(s) 42, 70, 299, 362, 691, 790, 1010
AhdI GACNNNNNGTC 1 cut(s) 512
AluBI AGCT 6 cut(s) 230, 326, 334, 655, 871, 913
AluI AGCT 6 cut(s) 230, 326, 334, 655, 871, 913
Alw21I GWGCWC 1 cut(s) 657
Alw26I GTCTC 3 cut(s) 499, 562, 653
AlwI GGATC 3 cut(s) 413, 478, 775
AlwNI CAGNNNCTG 1 cut(s) 479
Ama87I CYCGRG 1 cut(s) 656
AoxI GGCC 4 cut(s) 163, 172, 607, 1098
ApeKI GCWGC 1 cut(s) 182
AsiGI ACCGGT 1 cut(s) 937
AspLEI GCGC 3 cut(s) 161, 380, 829
AspS9I GGNCC 3 cut(s) 799, 940, 1098
AsuC2I CCSGG 3 cut(s) 512, 586, 1016
AsuHPI GGTGA 1 cut(s) 1052
AsuII TTCGAA 2 cut(s) 794, 816
AvaI CYCGRG 1 cut(s) 656
AvaII GGWCC 2 cut(s) 799, 940
BanI GGYRCC 3 cut(s) 158, 737, 826
BanII GRGCYC 1 cut(s) 657
BbrPI CACGTG 1 cut(s) 143
Bbv12I GWGCWC 1 cut(s) 657
BbvI GCAGC 1 cut(s) 194
BccI CCATC 3 cut(s) 452, 559, 778
BceAI ACGGC 4 cut(s) 289, 327, 412, 607
BcnI CCSGG 3 cut(s) 512, 586, 1016
BcoDI GTCTC 3 cut(s) 499, 562, 653
BfaI CTAG 3 cut(s) 176, 669, 872
BfmI CTRYAG 1 cut(s) 86
BfoI RGCGCY 3 cut(s) 162, 381, 830
BglI GCCNNNNNGGC 1 cut(s) 171
BisI GCNGC 3 cut(s) 180, 183, 759
BlsI GCNGC 3 cut(s) 181, 184, 760
BmcAI AGTACT 1 cut(s) 964
Bme1390I CCNGG 3 cut(s) 512, 586, 1016
Bme18I GGWCC 2 cut(s) 799, 940
BmeRI GACNNNNNGTC 1 cut(s) 512
BmeT110I CYCGRG 1 cut(s) 656
BmgT120I GGNCC 3 cut(s) 799, 940, 1098
BmiI GGNNCC 4 cut(s) 160, 739, 828, 1087
BmrFI CCNGG 3 cut(s) 512, 586, 1016
BmrI ACTGGG 1 cut(s) 458
BmuI ACTGGG 1 cut(s) 458
Bpu10I CCTNAGC 1 cut(s) 454
Bpu14I TTCGAA 2 cut(s) 794, 816
BpuMI CCSGG 3 cut(s) 512, 586, 1016
BsaAI YACGTR 1 cut(s) 143
BsaHI GRCGYC 4 cut(s) 159, 240, 264, 827
BsaJI CCNNGG 1 cut(s) 289
BsaWI WCCGGW 2 cut(s) 937, 1003
BsaXI ACNNNNNCTCC 4 cut(s) 182, 212, 867, 897
Bsc4I CCNNNNNNNGG 3 cut(s) 629, 728, 1095
Bse118I RCCGGY 4 cut(s) 161, 170, 937, 952
Bse1I ACTGG 3 cut(s) 464, 549, 1109
BseDI CCNNGG 1 cut(s) 289
BseGI GGATG 2 cut(s) 28, 207
BseLI CCNNNNNNNGG 3 cut(s) 629, 728, 1095
BseMII CTCAG 2 cut(s) 341, 996
BseNI ACTGG 3 cut(s) 464, 549, 1109
BseRI GAGGAG 1 cut(s) 44
BseXI GCAGC 1 cut(s) 194
Bsh1236I CGCG 1 cut(s) 291
Bsh1285I CGRYCG 3 cut(s) 250, 289, 991
BshFI GGCC 4 cut(s) 165, 174, 609, 1100
BshNI GGYRCC 3 cut(s) 158, 737, 826
BshTI ACCGGT 1 cut(s) 937
BsiEI CGRYCG 3 cut(s) 250, 289, 991
BsiHKAI GWGCWC 1 cut(s) 657
BsiHKCI CYCGRG 1 cut(s) 656
BsiSI CCGG 9 cut(s) 162, 171, 375, 511, 585, 938, 953, 1004, 1016
BslFI GGGAC 1 cut(s) 452
BslI CCNNNNNNNGG 3 cut(s) 629, 728, 1095
BsmAI GTCTC 3 cut(s) 499, 562, 653
BsmFI GGGAC 1 cut(s) 452
BsnI GGCC 4 cut(s) 165, 174, 609, 1100
BsoBI CYCGRG 1 cut(s) 656
Bsp119I TTCGAA 2 cut(s) 794, 816
Bsp1286I GDGCHC 1 cut(s) 657
Bsp143I GATC 4 cut(s) 355, 418, 470, 780
BspACI CCGC 8 cut(s) 58, 180, 246, 289, 291, 758, 905, 920
BspANI GGCC 4 cut(s) 165, 174, 609, 1100
BspCNI CTCAG 2 cut(s) 340, 995
BspFNI CGCG 1 cut(s) 291
BspLI GGNNCC 4 cut(s) 160, 739, 828, 1087
BspPI GGATC 3 cut(s) 413, 478, 775
BspT104I TTCGAA 2 cut(s) 794, 816
BspT107I GGYRCC 3 cut(s) 158, 737, 826
BsrFI RCCGGY 4 cut(s) 161, 170, 937, 952
BsrI ACTGG 3 cut(s) 464, 549, 1109
BssAI RCCGGY 4 cut(s) 161, 170, 937, 952
BssECI CCNNGG 1 cut(s) 289
BssMI GATC 4 cut(s) 355, 418, 470, 780
BssNI GRCGYC 4 cut(s) 159, 240, 264, 827
Bst4CI ACNGT 4 cut(s) 90, 412, 967, 1034
Bst6I CTCTTC 4 cut(s) 21, 528, 723, 791
BstACI GRCGYC 4 cut(s) 159, 240, 264, 827
BstBAI YACGTR 1 cut(s) 143
BstBI TTCGAA 2 cut(s) 794, 816
BstC8I GCNNGC 2 cut(s) 163, 172
BstDEI CTNAG 3 cut(s) 327, 454, 982
BstDSI CCRYGG 1 cut(s) 289
BstENI CCTNNNNNAGG 1 cut(s) 726
BstF5I GGATG 2 cut(s) 28, 207
BstFNI CGCG 1 cut(s) 291
BstH2I RGCGCY 3 cut(s) 162, 381, 830
BstHHI GCGC 3 cut(s) 161, 380, 829
BstKTI GATC 4 cut(s) 358, 421, 473, 783
BstMAI GTCTC 3 cut(s) 499, 562, 653
BstMBI GATC 4 cut(s) 355, 418, 470, 780
BstMCI CGRYCG 3 cut(s) 250, 289, 991
BstMWI GCNNNNNNNGC 4 cut(s) 167, 171, 176, 992
BstSCI CCNGG 3 cut(s) 510, 584, 1014
BstSFI CTRYAG 1 cut(s) 86
BstUI CGCG 1 cut(s) 291
BstV1I GCAGC 1 cut(s) 194
BsuRI GGCC 4 cut(s) 165, 174, 609, 1100
BtgI CCRYGG 1 cut(s) 289
BtsCI GGATG 2 cut(s) 28, 207
BtsI GCAGTG 1 cut(s) 894
BtsIMutI CAGTG 2 cut(s) 556, 894
Cac8I GCNNGC 2 cut(s) 163, 172
CaiI CAGNNNCTG 1 cut(s) 479
CfoI GCGC 3 cut(s) 161, 380, 829
Cfr10I RCCGGY 4 cut(s) 161, 170, 937, 952
Cfr13I GGNCC 3 cut(s) 799, 940, 1098
Cfr42I CCGCGG 1 cut(s) 292
Csp6I GTAC 2 cut(s) 91, 963
CspAI ACCGGT 1 cut(s) 937
CspCI CAANNNNNGTGG 2 cut(s) 1063, 1098
CviQI GTAC 2 cut(s) 91, 963
DdeI CTNAG 3 cut(s) 327, 454, 982
DinI GGCGCC 2 cut(s) 160, 828
DpnI GATC 4 cut(s) 357, 420, 472, 782
DpnII GATC 4 cut(s) 355, 418, 470, 780
DriI GACNNNNNGTC 1 cut(s) 512
Eam1104I CTCTTC 4 cut(s) 21, 528, 723, 791
Eam1105I GACNNNNNGTC 1 cut(s) 512
EarI CTCTTC 4 cut(s) 21, 528, 723, 791
Ecl136II GAGCTC 1 cut(s) 655
Eco24I GRGCYC 1 cut(s) 657
Eco47I GGWCC 2 cut(s) 799, 940
Eco53kI GAGCTC 1 cut(s) 655
Eco57I CTGAAG 1 cut(s) 46
Eco72I CACGTG 1 cut(s) 143
Eco88I CYCGRG 1 cut(s) 656
EcoICRI GAGCTC 1 cut(s) 655
EcoNI CCTNNNNNAGG 1 cut(s) 726
EcoO109I RGGNCCY 1 cut(s) 799
EcoT38I GRGCYC 1 cut(s) 657
EgeI GGCGCC 2 cut(s) 160, 828
EheI GGCGCC 2 cut(s) 160, 828
FaqI GGGAC 1 cut(s) 452
FauI CCCGC 1 cut(s) 913
FblI GTMKAC 1 cut(s) 270
Fnu4HI GCNGC 3 cut(s) 180, 183, 759
FokI GGATG 2 cut(s) 15, 194
FriOI GRGCYC 1 cut(s) 657
Fsp4HI GCNGC 3 cut(s) 180, 183, 759
FspBI CTAG 3 cut(s) 176, 669, 872
GlaI GCGC 3 cut(s) 160, 379, 828
GluI GCNGC 3 cut(s) 180, 183, 759
HaeII RGCGCY 3 cut(s) 162, 381, 830
HaeIII GGCC 4 cut(s) 165, 174, 609, 1100
HapII CCGG 9 cut(s) 162, 171, 375, 511, 585, 938, 953, 1004, 1016
HhaI GCGC 3 cut(s) 161, 380, 829
Hin1I GRCGYC 4 cut(s) 159, 240, 264, 827
Hin6I GCGC 3 cut(s) 159, 378, 827
HinP1I GCGC 3 cut(s) 159, 378, 827
HincII GTYRAC 1 cut(s) 271
HindII GTYRAC 1 cut(s) 271
HindIII AAGCTT 3 cut(s) 228, 332, 911
HinfI GANTC 7 cut(s) 66, 384, 440, 507, 596, 612, 776
HpaII CCGG 9 cut(s) 162, 171, 375, 511, 585, 938, 953, 1004, 1016
HphI GGTGA 1 cut(s) 1052
Hpy166II GTNNAC 1 cut(s) 271
Hpy188III TCNNGA 7 cut(s) 224, 284, 338, 517, 658, 669, 1010
Hpy8I GTNNAC 1 cut(s) 271
Hpy99I CGWCG 5 cut(s) 245, 266, 269, 272, 275
HpyAV CCTTC 5 cut(s) 223, 230, 732, 790, 812
HpyCH4III ACNGT 4 cut(s) 90, 412, 967, 1034
HpyCH4IV ACGT 3 cut(s) 142, 240, 264
HpyCH4V TGCA 1 cut(s) 1074
HpyF10VI GCNNNNNNNGC 4 cut(s) 167, 171, 176, 992
HpyF3I CTNAG 3 cut(s) 327, 454, 982
HpySE526I ACGT 3 cut(s) 142, 240, 264
Hsp92I GRCGYC 4 cut(s) 159, 240, 264, 827
HspAI GCGC 3 cut(s) 159, 378, 827
KasI GGCGCC 2 cut(s) 158, 826
KroI GCCGGC 2 cut(s) 161, 170
KroNI GCCGGC 2 cut(s) 163, 172
KspI CCGCGG 1 cut(s) 292
Kzo9I GATC 4 cut(s) 355, 418, 470, 780
LmnI GCTCC 3 cut(s) 652, 892, 1091
Lsp1109I GCAGC 1 cut(s) 194
MaeI CTAG 3 cut(s) 176, 669, 872
MaeII ACGT 3 cut(s) 142, 240, 264
MalI GATC 4 cut(s) 357, 420, 472, 782
MboI GATC 4 cut(s) 355, 418, 470, 780
MfeI CAATTG 1 cut(s) 752
MhlI GDGCHC 1 cut(s) 657
MluCI AATT 5 cut(s) 430, 485, 752, 790, 857
Mly113I GGCGCC 2 cut(s) 159, 827
MlyI GAGTC 2 cut(s) 434, 501
MmeI TCCRAC 1 cut(s) 448
MroNI GCCGGC 2 cut(s) 161, 170
MspA1I CMGCKG 1 cut(s) 291
MspI CCGG 9 cut(s) 162, 171, 375, 511, 585, 938, 953, 1004, 1016
MspR9I CCNGG 3 cut(s) 512, 586, 1016
MunI CAATTG 1 cut(s) 752
MvnI CGCG 1 cut(s) 291
MwoI GCNNNNNNNGC 4 cut(s) 167, 171, 176, 992
NaeI GCCGGC 2 cut(s) 163, 172
NarI GGCGCC 2 cut(s) 159, 827
NciI CCSGG 3 cut(s) 512, 586, 1016
NdeII GATC 4 cut(s) 355, 418, 470, 780
NgoMIV GCCGGC 2 cut(s) 161, 170
NlaIV GGNNCC 4 cut(s) 160, 739, 828, 1087
NspV TTCGAA 2 cut(s) 794, 816
PaeR7I CTCGAG 1 cut(s) 656
PcsI WCGNNNNNNNCGW 1 cut(s) 231
PdiI GCCGGC 2 cut(s) 163, 172
PfeI GAWTC 5 cut(s) 66, 384, 596, 612, 776
PflFI GACNNNGTC 1 cut(s) 266
PinAI ACCGGT 1 cut(s) 937
PkrI GCNGC 3 cut(s) 181, 184, 760
PleI GAGTC 2 cut(s) 434, 501
PluTI GGCGCC 2 cut(s) 162, 830
PmaCI CACGTG 1 cut(s) 143
PmlI CACGTG 1 cut(s) 143
PpsI GAGTC 2 cut(s) 434, 501
Ppu21I YACGTR 1 cut(s) 143
PpuMI RGGWCCY 1 cut(s) 799
Psp124BI GAGCTC 1 cut(s) 657
Psp5II RGGWCCY 1 cut(s) 799
PspCI CACGTG 1 cut(s) 143
PspN4I GGNNCC 4 cut(s) 160, 739, 828, 1087
PspPI GGNCC 3 cut(s) 799, 940, 1098
PspPPI RGGWCCY 1 cut(s) 799
PstNI CAGNNNCTG 1 cut(s) 479
PsyI GACNNNGTC 1 cut(s) 266
RsaI GTAC 2 cut(s) 92, 964
RsaNI GTAC 2 cut(s) 91, 963
SacI GAGCTC 1 cut(s) 657
SacII CCGCGG 1 cut(s) 292
SalI GTCGAC 1 cut(s) 269
SatI GCNGC 3 cut(s) 180, 183, 759
Sau3AI GATC 4 cut(s) 355, 418, 470, 780
Sau96I GGNCC 3 cut(s) 799, 940, 1098
ScaI AGTACT 1 cut(s) 964
SchI GAGTC 2 cut(s) 434, 501
ScrFI CCNGG 3 cut(s) 512, 586, 1016
SduI GDGCHC 1 cut(s) 657
SfcI CTRYAG 1 cut(s) 86
SfiI GGCCNNNNNGGCC 1 cut(s) 171
SfoI GGCGCC 2 cut(s) 160, 828
Sfr274I CTCGAG 1 cut(s) 656
Sfr303I CCGCGG 1 cut(s) 292
SfuI TTCGAA 2 cut(s) 794, 816
SgrBI CCGCGG 1 cut(s) 292
SgrDI CGTCGACG 1 cut(s) 269
SinI GGWCC 2 cut(s) 799, 940
SlaI CTCGAG 1 cut(s) 656
SmlI CTYRAG 1 cut(s) 656
SmoI CTYRAG 1 cut(s) 656
Sse9I AATT 5 cut(s) 430, 485, 752, 790, 857
SsiI CCGC 8 cut(s) 58, 180, 246, 289, 291, 758, 905, 920
SspDI GGCGCC 2 cut(s) 158, 826
SspI AATATT 1 cut(s) 1000
SspMI CTAG 3 cut(s) 176, 669, 872
SstI GAGCTC 1 cut(s) 657
StyD4I CCNGG 3 cut(s) 510, 584, 1014
TaaI ACNGT 4 cut(s) 90, 412, 967, 1034
TaiI ACGT 3 cut(s) 145, 243, 267
TaqII GACCGA 1 cut(s) 1005
TasI AATT 5 cut(s) 430, 485, 752, 790, 857
TatI WGTACW 1 cut(s) 962
TauI GCSGC 2 cut(s) 182, 761
TfiI GAWTC 5 cut(s) 66, 384, 596, 612, 776
TscAI CASTG 2 cut(s) 556, 894
TseI GCWGC 1 cut(s) 182
TspDTI ATGAA 5 cut(s) 17, 295, 546, 673, 948
TspGWI ACGGA 1 cut(s) 1078
TspRI CASTG 2 cut(s) 556, 894
Tth111I GACNNNGTC 1 cut(s) 266
VpaK11BI GGWCC 2 cut(s) 799, 940
XagI CCTNNNNNAGG 1 cut(s) 726
XbaI TCTAGA 1 cut(s) 668
XhoI CTCGAG 1 cut(s) 656
XmiI GTMKAC 1 cut(s) 270
XspI CTAG 3 cut(s) 176, 669, 872
ZraI GACGTC 2 cut(s) 241, 265
ZrmI AGTACT 1 cut(s) 964
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.