Rmu_sc0003296.1_g000003

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003296.1
OG0014611
Physical Location & Seq
Reverse (-)
5360 .. 7324
1965 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1314 bp
atgacagctcatctgaggttcccatctgatccctgggatggcatcgctgaattagctaatgatttgattcgaggaatgctctgtgaaggtccttctaaaaggctcaccgctcaccaggttttaggtatgctctccaagactcgaaccatctcttcctatctgcacagccgcgccaccactctcacatcgcacgcgaacccagaaatccaccttgagatcaaacccatttcgagtctgaaggtggtgtggcgcaaagacccaaagctagaccaggccatagagaacgacaagccgtacaagctctgcgcccgggtcgtgaaggaggtcctaaacgagccgggccagaaaatcccactccggtacctcgaaaaaaggcgcgagcgattgcgcctcagaaccaaagccacaacctttattggcaaaaacccaggtttatttgaggtctattatgatagaatcaaacccaaaactgagaaggttcagtttcttagggttagtgataggctgagagagtttcttgaggaagagaagaggattaatgtggaaaatgagggtttgattgtgtctaagttgtgtaaattgttgatgatggccaagaataaggtggttagtgctgataaattggttgatgtgaagagggaatttgggttccctaatgattttatggtgaatttggtgcctaaatattcgcagtattttcggctggttgggggttccggcgagggcaagtcattcttggaactggttgattggaaccccgagtttgcgaaatctgtgattgagaggagagcagaagaggagtcaagcttgacagggatccgggttcggcctaattttgattacaagcttccacaagggtttgtgttgaagatggaaatgagggagtgggttagggattggatggaaatggattgtatatcgccgtatgaggatgtttccaagttggatcaagcgtccccagaaatggagaagaggacggttggggttttccatgagttgttgtcattgtctttgttgaagaggatgcctgtgcccatactgggaaaattttgtgatgactataggttttcaaatgcattcccgaatgtattcacaaggcattcggggttgttttatgtctcacagaaaggagggatcaagacggcggtgctgagggaagcttacaaggatgaccagttgattgatcgggatccgctgctgcagattaaggataagtttgttgagctattggaggaaggatggcgcgagagcacacagcagttgaggttgcaaagggaacaagttaagggcatggctgtgaggaatgaagaatag
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
PORR

Protein Analysis

437

Amino Acids

50.86

Weight (kDa)

9.14

Isoelectric Point (pI)

39.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 85 - 414 3e-106 Plant organelle RNA recognition 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: OG0014611)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G63090
fragaria_vesca FvH4_2g23842
malus_domestica MD03G1268200.v1.1 MD11G1289000.v1.1
prunus_persica Prupe.8G243800_v2.0.a1
pyrus_communis pycom03g21410 pycom11g25640
rosa_chinensis RchiOBHm_Chr6g0291451
rosa_laevigata RLG00000012113
rosa_multiflora Rmu_sc0003296.1_g000003
rosa_roxburghii Rroxscaffold_7G00176040
rosa_rugosa Rorug06G0219500
rosa_samantha Rh6AG331800 Rh6BG338700 Rh6CG344900 Rh6DG332000
rosa_wichuraiana Rw6G028800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 360
AccB1I GGYRCC 2 cut(s) 360, 676
AccBSI CCGCTC 1 cut(s) 110
AccII CGCG 4 cut(s) 171, 194, 378, 1245
AciI CCGC 4 cut(s) 108, 169, 1145, 1193
AclWI GGATC 7 cut(s) 23, 811, 824, 954, 1142, 1184, 1197
AcoI YGGCCR 1 cut(s) 591
AcsI RAATTY 3 cut(s) 641, 670, 1046
AcuI CTGAAG 1 cut(s) 257
AfaI GTAC 2 cut(s) 296, 362
AfiI CCNNNNNNNGG 3 cut(s) 38, 964, 1040
AgsI TTSAA 3 cut(s) 868, 1018, 1071
AjnI CCWGG 4 cut(s) 32, 114, 270, 427
AloI GAACNNNNNNTCC 2 cut(s) 632, 664
AluBI AGCT 8 cut(s) 8, 56, 265, 301, 807, 847, 1160, 1225
AluI AGCT 8 cut(s) 8, 56, 265, 301, 807, 847, 1160, 1225
Alw21I GWGCWC 1 cut(s) 1253
Alw26I GTCTC 1 cut(s) 1123
AlwI GGATC 7 cut(s) 23, 811, 824, 954, 1142, 1184, 1197
Ama87I CYCGRG 2 cut(s) 309, 758
AoxI GGCC 4 cut(s) 273, 340, 591, 827
ApeKI GCWGC 2 cut(s) 1195, 1198
ApoI RAATTY 3 cut(s) 641, 670, 1046
AseI ATTAAT 1 cut(s) 537
Asp700I GAANNNNTTC 1 cut(s) 1088
Asp718I GGTACC 1 cut(s) 360
AspLEI GCGC 6 cut(s) 173, 252, 308, 378, 390, 1245
AspS9I GGNCC 3 cut(s) 89, 325, 340
AsuC2I CCSGG 4 cut(s) 310, 311, 339, 821
AsuHPI GGTGA 3 cut(s) 97, 104, 679
AvaI CYCGRG 2 cut(s) 309, 758
AvaII GGWCC 2 cut(s) 89, 325
BaeGI GKGCMC 1 cut(s) 1035
BaeI ACNNNNGTAYC 2 cut(s) 344, 377
BalI TGGCCA 1 cut(s) 593
BamHI GGATCC 2 cut(s) 816, 1189
BanI GGYRCC 2 cut(s) 360, 676
Bbv12I GWGCWC 1 cut(s) 1253
BbvCI CCTCAGC 1 cut(s) 1151
BbvI GCAGC 2 cut(s) 1182, 1185
BccI CCATC 7 cut(s) 31, 32, 155, 583, 865, 895, 1233
BceAI ACGGC 3 cut(s) 277, 907, 1158
BcgI CGANNNNNNTGC 2 cut(s) 680, 714
BciT130I CCWGG 4 cut(s) 34, 116, 272, 429
BcnI CCSGG 4 cut(s) 310, 311, 339, 821
BcoDI GTCTC 1 cut(s) 1123
BfaI CTAG 1 cut(s) 266
BfmI CTRYAG 2 cut(s) 1060, 1199
BisI GCNGC 3 cut(s) 169, 1196, 1199
BlsI GCNGC 3 cut(s) 170, 1197, 1200
Bme1390I CCNGG 8 cut(s) 34, 116, 272, 310, 311, 339, 429, 821
Bme18I GGWCC 2 cut(s) 89, 325
BmeT110I CYCGRG 2 cut(s) 309, 758
BmgT120I GGNCC 3 cut(s) 89, 325, 340
BmiI GGNNCC 8 cut(s) 20, 362, 650, 678, 715, 755, 818, 1191
BmrFI CCNGG 8 cut(s) 34, 116, 272, 310, 311, 339, 429, 821
BmrI ACTGGG 1 cut(s) 1049
BmsI GCATC 2 cut(s) 51, 1014
BmuI ACTGGG 1 cut(s) 1049
BplI GAGNNNNNCTC 2 cut(s) 63, 95
Bpu10I CCTNAGC 1 cut(s) 1151
BpuEI CTTGAG 2 cut(s) 233, 539
BpuMI CCSGG 4 cut(s) 310, 311, 339, 821
BsaBI GATNNNNATC 1 cut(s) 1188
BsaJI CCNNGG 4 cut(s) 32, 33, 309, 427
BsaWI WCCGGW 1 cut(s) 357
Bsc4I CCNNNNNNNGG 3 cut(s) 38, 964, 1040
Bse1I ACTGG 3 cut(s) 747, 1044, 1174
Bse8I GATNNNNATC 1 cut(s) 1188
BseBI CCWGG 4 cut(s) 34, 116, 272, 429
BseDI CCNNGG 4 cut(s) 32, 33, 309, 427
BseGI GGATG 6 cut(s) 43, 906, 937, 1029, 1174, 1244
BseJI GATNNNNATC 1 cut(s) 1188
BseLI CCNNNNNNNGG 3 cut(s) 38, 964, 1040
BseMII CTCAG 5 cut(s) 5, 406, 462, 497, 1142
BseNI ACTGG 3 cut(s) 747, 1044, 1174
BseRI GAGGAG 2 cut(s) 799, 812
BseSI GKGCMC 1 cut(s) 1035
BseXI GCAGC 2 cut(s) 1182, 1185
BsgI GTGCAG 1 cut(s) 146
Bsh1236I CGCG 4 cut(s) 171, 194, 378, 1245
BshFI GGCC 4 cut(s) 275, 342, 593, 829
BshNI GGYRCC 2 cut(s) 360, 676
BsiHKAI GWGCWC 1 cut(s) 1253
BsiHKCI CYCGRG 2 cut(s) 309, 758
BsiSI CCGG 5 cut(s) 310, 338, 358, 717, 820
BslFI GGGAC 1 cut(s) 940
BslI CCNNNNNNNGG 3 cut(s) 38, 964, 1040
BsmAI GTCTC 1 cut(s) 1123
BsmFI GGGAC 1 cut(s) 940
BsmI GAATGC 3 cut(s) 81, 1076, 1099
BsnI GGCC 4 cut(s) 275, 342, 593, 829
BsoBI CYCGRG 2 cut(s) 309, 758
Bsp1286I GDGCHC 2 cut(s) 1035, 1253
Bsp143I GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
BspACI CCGC 4 cut(s) 108, 169, 1145, 1193
BspANI GGCC 4 cut(s) 275, 342, 593, 829
BspCNI CTCAG 5 cut(s) 6, 405, 463, 498, 1143
BspFNI CGCG 4 cut(s) 171, 194, 378, 1245
BspLI GGNNCC 8 cut(s) 20, 362, 650, 678, 715, 755, 818, 1191
BspMAI CTGCAG 1 cut(s) 1203
BspPI GGATC 7 cut(s) 23, 811, 824, 954, 1142, 1184, 1197
BspT107I GGYRCC 2 cut(s) 360, 676
BsrBI CCGCTC 1 cut(s) 110
BsrI ACTGG 3 cut(s) 747, 1044, 1174
BssECI CCNNGG 4 cut(s) 32, 33, 309, 427
BssMI GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
Bst2UI CCWGG 4 cut(s) 34, 116, 272, 429
Bst4CI ACNGT 1 cut(s) 979
Bst6I CTCTTC 7 cut(s) 157, 519, 524, 629, 789, 965, 1013
BstC8I GCNNGC 2 cut(s) 192, 380
BstDEI CTNAG 7 cut(s) 14, 392, 471, 488, 506, 567, 1151
BstF5I GGATG 6 cut(s) 43, 906, 937, 1029, 1174, 1244
BstFNI CGCG 4 cut(s) 171, 194, 378, 1245
BstHHI GCGC 6 cut(s) 173, 252, 308, 378, 390, 1245
BstKTI GATC 7 cut(s) 31, 219, 819, 949, 1137, 1186, 1192
BstMAI GTCTC 1 cut(s) 1123
BstMBI GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
BstMWI GCNNNNNNNGC 2 cut(s) 53, 298
BstNI CCWGG 4 cut(s) 34, 116, 272, 429
BstSCI CCNGG 8 cut(s) 32, 114, 270, 308, 309, 337, 427, 819
BstSFI CTRYAG 2 cut(s) 1060, 1199
BstSLI GKGCMC 1 cut(s) 1035
BstUI CGCG 4 cut(s) 171, 194, 378, 1245
BstV1I GCAGC 2 cut(s) 1182, 1185
BstX2I RGATCY 2 cut(s) 816, 1189
BstYI RGATCY 2 cut(s) 816, 1189
BsuRI GGCC 4 cut(s) 275, 342, 593, 829
BtgZI GCGATG 2 cut(s) 28, 171
BtsCI GGATG 6 cut(s) 43, 906, 937, 1029, 1174, 1244
Cac8I GCNNGC 2 cut(s) 192, 380
CfoI GCGC 6 cut(s) 173, 252, 308, 378, 390, 1245
Cfr13I GGNCC 3 cut(s) 89, 325, 340
Cfr9I CCCGGG 1 cut(s) 309
CseI GACGC 1 cut(s) 942
CsiI ACCWGGT 1 cut(s) 114
Csp6I GTAC 2 cut(s) 295, 361
CviAII CATG 2 cut(s) 992, 1291
CviQI GTAC 2 cut(s) 295, 361
DdeI CTNAG 7 cut(s) 14, 392, 471, 488, 506, 567, 1151
DpnI GATC 7 cut(s) 30, 218, 818, 948, 1136, 1185, 1191
DpnII GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
EaeI YGGCCR 1 cut(s) 591
Eam1104I CTCTTC 7 cut(s) 157, 519, 524, 629, 789, 965, 1013
EarI CTCTTC 7 cut(s) 157, 519, 524, 629, 789, 965, 1013
Eco47I GGWCC 2 cut(s) 89, 325
Eco57I CTGAAG 1 cut(s) 257
Eco88I CYCGRG 2 cut(s) 309, 758
EcoO109I RGGNCCY 2 cut(s) 89, 325
EcoRII CCWGG 4 cut(s) 32, 114, 270, 427
EcoT22I ATGCAT 1 cut(s) 1078
FaeI CATG 2 cut(s) 995, 1294
FalI AAGNNNNNCTT 2 cut(s) 719, 751
FaqI GGGAC 1 cut(s) 940
FatI CATG 2 cut(s) 991, 1290
Fnu4HI GCNGC 3 cut(s) 169, 1196, 1199
FokI GGATG 6 cut(s) 50, 913, 944, 1036, 1181, 1251
Fsp4HI GCNGC 3 cut(s) 169, 1196, 1199
FspBI CTAG 1 cut(s) 266
GlaI GCGC 6 cut(s) 172, 251, 307, 377, 389, 1244
GluI GCNGC 3 cut(s) 169, 1196, 1199
HaeIII GGCC 4 cut(s) 275, 342, 593, 829
HapII CCGG 5 cut(s) 310, 338, 358, 717, 820
HgaI GACGC 1 cut(s) 942
HhaI GCGC 6 cut(s) 173, 252, 308, 378, 390, 1245
Hin1II CATG 2 cut(s) 995, 1294
Hin6I GCGC 6 cut(s) 171, 250, 306, 376, 388, 1243
HinP1I GCGC 6 cut(s) 171, 250, 306, 376, 388, 1243
HindIII AAGCTT 3 cut(s) 805, 845, 1158
HinfI GANTC 5 cut(s) 67, 139, 232, 456, 800
HpaII CCGG 5 cut(s) 310, 338, 358, 717, 820
HphI GGTGA 3 cut(s) 97, 104, 679
Hpy188I TCNGA 4 cut(s) 15, 28, 237, 395
Hpy188III TCNNGA 5 cut(s) 316, 518, 1081, 1138, 1187
HpyAV CCTTC 6 cut(s) 80, 102, 232, 313, 469, 1229
HpyCH4III ACNGT 1 cut(s) 979
HpyCH4V TGCA 4 cut(s) 163, 1076, 1201, 1270
HpyF10VI GCNNNNNNNGC 2 cut(s) 53, 298
HpyF3I CTNAG 7 cut(s) 14, 392, 471, 488, 506, 567, 1151
Hsp92II CATG 2 cut(s) 995, 1294
HspAI GCGC 6 cut(s) 171, 250, 306, 376, 388, 1243
KpnI GGTACC 1 cut(s) 364
Kzo9I GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
Lsp1109I GCAGC 2 cut(s) 1182, 1185
LweI GCATC 2 cut(s) 51, 1014
MabI ACCWGGT 1 cut(s) 114
MaeI CTAG 1 cut(s) 266
MalI GATC 7 cut(s) 30, 218, 818, 948, 1136, 1185, 1191
MbiI CCGCTC 1 cut(s) 110
MboI GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
MboII GAAGA 8 cut(s) 144, 536, 541, 646, 806, 880, 982, 1030
MflI RGATCY 2 cut(s) 816, 1189
MhlI GDGCHC 2 cut(s) 1035, 1253
MlsI TGGCCA 1 cut(s) 593
MluCI AATT 7 cut(s) 50, 578, 620, 641, 670, 832, 1046
MluNI TGGCCA 1 cut(s) 593
MlyI GAGTC 3 cut(s) 133, 241, 809
MmeI TCCRAC 1 cut(s) 924
Mox20I TGGCCA 1 cut(s) 593
Mph1103I ATGCAT 1 cut(s) 1078
MroXI GAANNNNTTC 1 cut(s) 1088
MscI TGGCCA 1 cut(s) 593
MseI TTAA 3 cut(s) 537, 1206, 1284
MslI CAYNNNNRTG 1 cut(s) 1295
Msp20I TGGCCA 1 cut(s) 593
MspA1I CMGCKG 1 cut(s) 1195
MspI CCGG 5 cut(s) 310, 338, 358, 717, 820
MspR9I CCNGG 8 cut(s) 34, 116, 272, 310, 311, 339, 429, 821
Mva1269I GAATGC 3 cut(s) 81, 1076, 1099
MvaI CCWGG 4 cut(s) 34, 116, 272, 429
MvnI CGCG 4 cut(s) 171, 194, 378, 1245
MwoI GCNNNNNNNGC 2 cut(s) 53, 298
NciI CCSGG 4 cut(s) 310, 311, 339, 821
NdeII GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
NlaIII CATG 2 cut(s) 995, 1294
NlaIV GGNNCC 8 cut(s) 20, 362, 650, 678, 715, 755, 818, 1191
NsiI ATGCAT 1 cut(s) 1078
PasI CCCWGGG 1 cut(s) 33
PctI GAATGC 3 cut(s) 81, 1076, 1099
PdmI GAANNNNTTC 1 cut(s) 1088
PfeI GAWTC 2 cut(s) 67, 456
PkrI GCNGC 3 cut(s) 170, 1197, 1200
PleI GAGTC 3 cut(s) 133, 240, 808
PpsI GAGTC 3 cut(s) 133, 240, 808
PpuMI RGGWCCY 2 cut(s) 89, 325
PshBI ATTAAT 1 cut(s) 537
Psp5II RGGWCCY 2 cut(s) 89, 325
Psp6I CCWGG 4 cut(s) 32, 114, 270, 427
PspGI CCWGG 4 cut(s) 32, 114, 270, 427
PspN4I GGNNCC 8 cut(s) 20, 362, 650, 678, 715, 755, 818, 1191
PspPI GGNCC 3 cut(s) 89, 325, 340
PspPPI RGGWCCY 2 cut(s) 89, 325
PstI CTGCAG 1 cut(s) 1203
PsuI RGATCY 2 cut(s) 816, 1189
RsaI GTAC 2 cut(s) 296, 362
RsaNI GTAC 2 cut(s) 295, 361
RseI CAYNNNNRTG 1 cut(s) 1295
SaqAI TTAA 3 cut(s) 537, 1206, 1284
SatI GCNGC 3 cut(s) 169, 1196, 1199
Sau3AI GATC 7 cut(s) 28, 216, 816, 946, 1134, 1183, 1189
Sau96I GGNCC 3 cut(s) 89, 325, 340
SchI GAGTC 3 cut(s) 133, 241, 809
ScrFI CCNGG 8 cut(s) 34, 116, 272, 310, 311, 339, 429, 821
SduI GDGCHC 2 cut(s) 1035, 1253
SexAI ACCWGGT 1 cut(s) 114
SfaNI GCATC 2 cut(s) 51, 1014
SfcI CTRYAG 2 cut(s) 1060, 1199
SinI GGWCC 2 cut(s) 89, 325
SmaI CCCGGG 1 cut(s) 311
SmiMI CAYNNNNRTG 1 cut(s) 1295
SmlI CTYRAG 2 cut(s) 212, 518
SmoI CTYRAG 2 cut(s) 212, 518
Sse9I AATT 7 cut(s) 50, 578, 620, 641, 670, 832, 1046
SsiI CCGC 4 cut(s) 108, 169, 1145, 1193
SspI AATATT 1 cut(s) 686
SspMI CTAG 1 cut(s) 266
StyD4I CCNGG 8 cut(s) 32, 114, 270, 308, 309, 337, 427, 819
TaaI ACNGT 1 cut(s) 979
TaqI TCGA 4 cut(s) 70, 142, 230, 366
TasI AATT 7 cut(s) 50, 578, 620, 641, 670, 832, 1046
TauI GCSGC 1 cut(s) 171
TfiI GAWTC 2 cut(s) 67, 456
Tru1I TTAA 3 cut(s) 537, 1206, 1284
Tru9I TTAA 3 cut(s) 537, 1206, 1284
TseI GCWGC 2 cut(s) 1195, 1198
TspMI CCCGGG 1 cut(s) 309
VpaK11BI GGWCC 2 cut(s) 89, 325
VspI ATTAAT 1 cut(s) 537
XapI RAATTY 3 cut(s) 641, 670, 1046
XcmI CCANNNNNNNNNTGG 2 cut(s) 30, 601
XmaI CCCGGG 1 cut(s) 309
XmnI GAANNNNTTC 1 cut(s) 1088
XspI CTAG 1 cut(s) 266
Zsp2I ATGCAT 1 cut(s) 1078
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.