RchiOBHm_Chr6g0291451

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0014611
Physical Location & Seq
Reverse (-)
54593873 .. 54596515
2643 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ26150

Sequence Viewer

Length: 1248 bp
ATGATTCGTTTCGAAAATCGAAAGTCGTTGTTTTCACTCTGTGAGTGGCTCCAGTCTCTGATTCCGATTCCAGGTATGCTCTCCAAGACTCGAACCATCTCTTCCTATCTGCACAGCCGCGCCACATCGCACGCGAACCCAGAAATCCACCTTGAGATCAAACCCATTTCGAGTCTGAAGGTGGTGTGGCGCAAAGACCCAAAGCTAGACCAGGCCATAGAGAACGACAAGCCGTACAAGCTCTGCGCCCGGGTCGTGAAGGAGGTCCTAAACGAGCCGGGCCAGAAAATCCCACTCCGGTACCTCGAAAAAAGGCGCGAGAGATTGCGCCTCAGAACCAAAGCCACAACCTTTATTGGCAAAAACCCAGGTTTATTTGAGGTCTACTACGATAGAATCAAACCCAAAACTGAGAAGGTTCAGTTTCTTAGGGTTAGTGATAGGCTGAGAGAGTTTCTTGAGGAAGAGAAGAGGATTAATGTGGAAAATGAGGGTTTGATAGTGTCTAAGTTGTGTAAATTGTTGATGATGGCCAAGAATAAGGTGGTTAGTGCTGATAAATTGGTTGATGTGAAGAGGGAATTTGGGTTCCCTAATGATTTTATGGTGAATTTGGTGCCTAAATATTCGCAGTATTTTCGGCTGGTTGGGGGTTCCAGCGAGGGCAAGTCATTCTTGGAATTGGTTGATTGGAACCCCGAGTTTGCGAAATCTGTGATTGAGAGGAGAGCAGAAGAGGAGTCAAGCTTGACAGGGATCCGGGTTCGGCCTAATTTTGATTACAAACTTCCACAAGGGTTTGTGTTGAACAAGGCAATGAGGGAGTGGGTTAGGGATTGGATGGAAATGGATTATATGTCGCCGTATGAGGATGTTTCCAAGTTGGATCAAGCGTCCCCAGAAATGGAGAAGCGGACGGTTGGGGTTTTCCATGAGTTATTGTCATTGTCTTTGTTGAAGAGGATGCCTGTGCCCATACTGGGAAAATTTTGTGATGAGTATAGGTTTTCAAATGCATTCCCGAATGTATTCACAAGGCATTCGGGGTTGTTTTATGTCTCACAGAAAGGAGGGATCAAGACGGCGGTGCTGAGGGAAGCTTACAAGGATGACCAGTTGATTGATCGGGATCCGCTGCTACAGATTAAGGATAAGTTTGTTGAGCTATTGGAGGAAGGATGGCGCGAGAGCACACAGCAGTTGAGGTTGCAAAGGGAAGAAGTTAAAGGGCATGGCTGTGAGGAATGA
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

415

Amino Acids

48.68

Weight (kDa)

9.19

Isoelectric Point (pI)

43.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 65 - 394 1.8e-107 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) 300
AccB1I GGYRCC 2 cut(s) 300, 616
AccI GTMKAC 1 cut(s) 384
AccII CGCG 4 cut(s) 120, 134, 318, 1185
AciI CCGC 4 cut(s) 118, 913, 1085, 1133
AclWI GGATC 6 cut(s) 751, 764, 894, 1082, 1124, 1137
AcoI YGGCCR 1 cut(s) 531
AcsI RAATTY 3 cut(s) 581, 610, 986
AcuI CTGAAG 1 cut(s) 197
AdeI CACNNNGTG 1 cut(s) 41
AfaI GTAC 2 cut(s) 236, 302
AfiI CCNNNNNNNGG 3 cut(s) 71, 904, 980
AgsI TTSAA 3 cut(s) 808, 958, 1011
AjnI CCWGG 3 cut(s) 70, 210, 367
AloI GAACNNNNNNTCC 2 cut(s) 572, 604
AluBI AGCT 5 cut(s) 205, 241, 747, 1100, 1165
AluI AGCT 5 cut(s) 205, 241, 747, 1100, 1165
Alw21I GWGCWC 1 cut(s) 1193
Alw26I GTCTC 2 cut(s) 60, 1063
AlwI GGATC 6 cut(s) 751, 764, 894, 1082, 1124, 1137
AlwNI CAGNNNCTG 1 cut(s) 58
Ama87I CYCGRG 2 cut(s) 249, 698
AoxI GGCC 4 cut(s) 213, 280, 531, 767
ApeKI GCWGC 1 cut(s) 1135
ApoI RAATTY 3 cut(s) 581, 610, 986
AseI ATTAAT 1 cut(s) 477
Asp700I GAANNNNTTC 1 cut(s) 1028
Asp718I GGTACC 1 cut(s) 300
AspLEI GCGC 6 cut(s) 122, 192, 248, 318, 330, 1185
AspS9I GGNCC 2 cut(s) 265, 280
AsuC2I CCSGG 4 cut(s) 250, 251, 279, 761
AsuHPI GGTGA 1 cut(s) 619
AsuII TTCGAA 1 cut(s) 12
AvaI CYCGRG 2 cut(s) 249, 698
AvaII GGWCC 1 cut(s) 265
BaeGI GKGCMC 1 cut(s) 975
BaeI ACNNNNGTAYC 2 cut(s) 284, 317
BalI TGGCCA 1 cut(s) 533
BamHI GGATCC 2 cut(s) 756, 1129
BanI GGYRCC 2 cut(s) 300, 616
Bbv12I GWGCWC 1 cut(s) 1193
BbvCI CCTCAGC 1 cut(s) 1091
BbvI GCAGC 1 cut(s) 1122
BccI CCATC 4 cut(s) 104, 523, 835, 1173
BceAI ACGGC 3 cut(s) 217, 847, 1098
BcgI CGANNNNNNTGC 2 cut(s) 620, 654
BciT130I CCWGG 3 cut(s) 72, 212, 369
BcnI CCSGG 4 cut(s) 250, 251, 279, 761
BcoDI GTCTC 2 cut(s) 60, 1063
BfaI CTAG 1 cut(s) 206
BfmI CTRYAG 1 cut(s) 1139
BisI GCNGC 2 cut(s) 118, 1136
BlsI GCNGC 2 cut(s) 119, 1137
Bme1390I CCNGG 7 cut(s) 72, 212, 250, 251, 279, 369, 761
Bme18I GGWCC 1 cut(s) 265
BmeT110I CYCGRG 2 cut(s) 249, 698
BmgT120I GGNCC 2 cut(s) 265, 280
BmiI GGNNCC 8 cut(s) 50, 302, 590, 618, 655, 695, 758, 1131
BmrFI CCNGG 7 cut(s) 72, 212, 250, 251, 279, 369, 761
BmrI ACTGGG 1 cut(s) 989
BmsI GCATC 1 cut(s) 954
BmuI ACTGGG 1 cut(s) 989
BpmI CTGGAG 1 cut(s) 35
Bpu10I CCTNAGC 1 cut(s) 1091
Bpu14I TTCGAA 1 cut(s) 12
BpuEI CTTGAG 2 cut(s) 173, 479
BpuMI CCSGG 4 cut(s) 250, 251, 279, 761
BsaBI GATNNNNATC 1 cut(s) 1128
BsaJI CCNNGG 2 cut(s) 249, 367
BsaWI WCCGGW 1 cut(s) 297
Bsc4I CCNNNNNNNGG 3 cut(s) 71, 904, 980
Bse1I ACTGG 3 cut(s) 52, 984, 1114
Bse3DI GCAATG 1 cut(s) 822
Bse8I GATNNNNATC 1 cut(s) 1128
BseBI CCWGG 3 cut(s) 72, 212, 369
BseDI CCNNGG 2 cut(s) 249, 367
BseGI GGATG 5 cut(s) 846, 877, 969, 1114, 1184
BseJI GATNNNNATC 1 cut(s) 1128
BseLI CCNNNNNNNGG 3 cut(s) 71, 904, 980
BseMI GCAATG 1 cut(s) 822
BseMII CTCAG 4 cut(s) 346, 402, 437, 1082
BseNI ACTGG 3 cut(s) 52, 984, 1114
BseRI GAGGAG 2 cut(s) 739, 752
BseSI GKGCMC 1 cut(s) 975
BseXI GCAGC 1 cut(s) 1122
BsgI GTGCAG 1 cut(s) 95
Bsh1236I CGCG 4 cut(s) 120, 134, 318, 1185
BshFI GGCC 4 cut(s) 215, 282, 533, 769
BshNI GGYRCC 2 cut(s) 300, 616
BsiHKAI GWGCWC 1 cut(s) 1193
BsiHKCI CYCGRG 2 cut(s) 249, 698
BsiSI CCGG 4 cut(s) 250, 278, 298, 760
BslFI GGGAC 1 cut(s) 880
BslI CCNNNNNNNGG 3 cut(s) 71, 904, 980
BsmAI GTCTC 2 cut(s) 60, 1063
BsmFI GGGAC 1 cut(s) 880
BsmI GAATGC 2 cut(s) 1016, 1039
BsnI GGCC 4 cut(s) 215, 282, 533, 769
BsoBI CYCGRG 2 cut(s) 249, 698
Bsp119I TTCGAA 1 cut(s) 12
Bsp1286I GDGCHC 2 cut(s) 975, 1193
Bsp143I GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
BspACI CCGC 4 cut(s) 118, 913, 1085, 1133
BspANI GGCC 4 cut(s) 215, 282, 533, 769
BspCNI CTCAG 4 cut(s) 345, 403, 438, 1083
BspFNI CGCG 4 cut(s) 120, 134, 318, 1185
BspLI GGNNCC 8 cut(s) 50, 302, 590, 618, 655, 695, 758, 1131
BspPI GGATC 6 cut(s) 751, 764, 894, 1082, 1124, 1137
BspT104I TTCGAA 1 cut(s) 12
BspT107I GGYRCC 2 cut(s) 300, 616
BsrDI GCAATG 1 cut(s) 822
BsrI ACTGG 3 cut(s) 52, 984, 1114
BssECI CCNNGG 2 cut(s) 249, 367
BssMI GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
Bst2UI CCWGG 3 cut(s) 72, 212, 369
Bst4CI ACNGT 1 cut(s) 919
Bst6I CTCTTC 6 cut(s) 106, 459, 464, 569, 729, 953
BstBI TTCGAA 1 cut(s) 12
BstC8I GCNNGC 1 cut(s) 132
BstDEI CTNAG 6 cut(s) 332, 411, 428, 446, 507, 1091
BstF5I GGATG 5 cut(s) 846, 877, 969, 1114, 1184
BstFNI CGCG 4 cut(s) 120, 134, 318, 1185
BstHHI GCGC 6 cut(s) 122, 192, 248, 318, 330, 1185
BstKTI GATC 6 cut(s) 159, 759, 889, 1077, 1126, 1132
BstMAI GTCTC 2 cut(s) 60, 1063
BstMBI GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
BstMWI GCNNNNNNNGC 1 cut(s) 238
BstNI CCWGG 3 cut(s) 72, 212, 369
BstSCI CCNGG 7 cut(s) 70, 210, 248, 249, 277, 367, 759
BstSFI CTRYAG 1 cut(s) 1139
BstSLI GKGCMC 1 cut(s) 975
BstUI CGCG 4 cut(s) 120, 134, 318, 1185
BstV1I GCAGC 1 cut(s) 1122
BstX2I RGATCY 2 cut(s) 756, 1129
BstYI RGATCY 2 cut(s) 756, 1129
BsuRI GGCC 4 cut(s) 215, 282, 533, 769
BtgZI GCGATG 1 cut(s) 111
BtsCI GGATG 5 cut(s) 846, 877, 969, 1114, 1184
Cac8I GCNNGC 1 cut(s) 132
CaiI CAGNNNCTG 1 cut(s) 58
CfoI GCGC 6 cut(s) 122, 192, 248, 318, 330, 1185
Cfr13I GGNCC 2 cut(s) 265, 280
Cfr9I CCCGGG 1 cut(s) 249
CseI GACGC 1 cut(s) 882
Csp6I GTAC 2 cut(s) 235, 301
CviAII CATG 2 cut(s) 932, 1232
CviQI GTAC 2 cut(s) 235, 301
DdeI CTNAG 6 cut(s) 332, 411, 428, 446, 507, 1091
DpnI GATC 6 cut(s) 158, 758, 888, 1076, 1125, 1131
DpnII GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
DraIII CACNNNGTG 1 cut(s) 41
EaeI YGGCCR 1 cut(s) 531
Eam1104I CTCTTC 6 cut(s) 106, 459, 464, 569, 729, 953
EarI CTCTTC 6 cut(s) 106, 459, 464, 569, 729, 953
Eco47I GGWCC 1 cut(s) 265
Eco57I CTGAAG 1 cut(s) 197
Eco88I CYCGRG 2 cut(s) 249, 698
EcoO109I RGGNCCY 1 cut(s) 265
EcoRII CCWGG 3 cut(s) 70, 210, 367
EcoT22I ATGCAT 1 cut(s) 1018
FaeI CATG 2 cut(s) 935, 1235
FalI AAGNNNNNCTT 2 cut(s) 659, 691
FaqI GGGAC 1 cut(s) 880
FatI CATG 2 cut(s) 931, 1231
FblI GTMKAC 1 cut(s) 384
Fnu4HI GCNGC 2 cut(s) 118, 1136
FokI GGATG 5 cut(s) 853, 884, 976, 1121, 1191
Fsp4HI GCNGC 2 cut(s) 118, 1136
FspBI CTAG 1 cut(s) 206
GlaI GCGC 6 cut(s) 121, 191, 247, 317, 329, 1184
GluI GCNGC 2 cut(s) 118, 1136
GsuI CTGGAG 1 cut(s) 35
HaeIII GGCC 4 cut(s) 215, 282, 533, 769
HapII CCGG 4 cut(s) 250, 278, 298, 760
HgaI GACGC 1 cut(s) 882
HhaI GCGC 6 cut(s) 122, 192, 248, 318, 330, 1185
Hin1II CATG 2 cut(s) 935, 1235
Hin6I GCGC 6 cut(s) 120, 190, 246, 316, 328, 1183
HinP1I GCGC 6 cut(s) 120, 190, 246, 316, 328, 1183
HindIII AAGCTT 2 cut(s) 745, 1098
HinfI GANTC 7 cut(s) 4, 61, 67, 88, 172, 396, 740
HpaII CCGG 4 cut(s) 250, 278, 298, 760
HphI GGTGA 1 cut(s) 619
Hpy166II GTNNAC 1 cut(s) 385
Hpy188I TCNGA 4 cut(s) 60, 66, 177, 335
Hpy188III TCNNGA 5 cut(s) 256, 458, 1021, 1078, 1127
Hpy8I GTNNAC 1 cut(s) 385
HpyAV CCTTC 4 cut(s) 172, 253, 409, 1169
HpyCH4III ACNGT 1 cut(s) 919
HpyCH4V TGCA 3 cut(s) 112, 1016, 1210
HpyF10VI GCNNNNNNNGC 1 cut(s) 238
HpyF3I CTNAG 6 cut(s) 332, 411, 428, 446, 507, 1091
Hsp92II CATG 2 cut(s) 935, 1235
HspAI GCGC 6 cut(s) 120, 190, 246, 316, 328, 1183
KpnI GGTACC 1 cut(s) 304
Kzo9I GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
LmnI GCTCC 1 cut(s) 54
Lsp1109I GCAGC 1 cut(s) 1122
LweI GCATC 1 cut(s) 954
MaeI CTAG 1 cut(s) 206
MalI GATC 6 cut(s) 158, 758, 888, 1076, 1125, 1131
MboI GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
MboII GAAGA 7 cut(s) 93, 476, 481, 586, 746, 970, 1229
MflI RGATCY 2 cut(s) 756, 1129
MhlI GDGCHC 2 cut(s) 975, 1193
MlsI TGGCCA 1 cut(s) 533
MluCI AATT 7 cut(s) 518, 560, 581, 610, 680, 772, 986
MluNI TGGCCA 1 cut(s) 533
MlyI GAGTC 3 cut(s) 82, 181, 749
MmeI TCCRAC 1 cut(s) 864
Mox20I TGGCCA 1 cut(s) 533
Mph1103I ATGCAT 1 cut(s) 1018
MroXI GAANNNNTTC 1 cut(s) 1028
MscI TGGCCA 1 cut(s) 533
MseI TTAA 3 cut(s) 477, 1146, 1224
MslI CAYNNNNRTG 1 cut(s) 1236
Msp20I TGGCCA 1 cut(s) 533
MspA1I CMGCKG 1 cut(s) 1135
MspI CCGG 4 cut(s) 250, 278, 298, 760
MspR9I CCNGG 7 cut(s) 72, 212, 250, 251, 279, 369, 761
Mva1269I GAATGC 2 cut(s) 1016, 1039
MvaI CCWGG 3 cut(s) 72, 212, 369
MvnI CGCG 4 cut(s) 120, 134, 318, 1185
MwoI GCNNNNNNNGC 1 cut(s) 238
NciI CCSGG 4 cut(s) 250, 251, 279, 761
NdeII GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
NlaIII CATG 2 cut(s) 935, 1235
NlaIV GGNNCC 8 cut(s) 50, 302, 590, 618, 655, 695, 758, 1131
NsiI ATGCAT 1 cut(s) 1018
NspV TTCGAA 1 cut(s) 12
PctI GAATGC 2 cut(s) 1016, 1039
PdmI GAANNNNTTC 1 cut(s) 1028
PfeI GAWTC 4 cut(s) 4, 61, 67, 396
PkrI GCNGC 2 cut(s) 119, 1137
PleI GAGTC 3 cut(s) 82, 180, 748
PpsI GAGTC 3 cut(s) 82, 180, 748
PpuMI RGGWCCY 1 cut(s) 265
PshBI ATTAAT 1 cut(s) 477
Psp5II RGGWCCY 1 cut(s) 265
Psp6I CCWGG 3 cut(s) 70, 210, 367
PspGI CCWGG 3 cut(s) 70, 210, 367
PspN4I GGNNCC 8 cut(s) 50, 302, 590, 618, 655, 695, 758, 1131
PspPI GGNCC 2 cut(s) 265, 280
PspPPI RGGWCCY 1 cut(s) 265
PstNI CAGNNNCTG 1 cut(s) 58
PsuI RGATCY 2 cut(s) 756, 1129
RsaI GTAC 2 cut(s) 236, 302
RsaNI GTAC 2 cut(s) 235, 301
RseI CAYNNNNRTG 1 cut(s) 1236
SaqAI TTAA 3 cut(s) 477, 1146, 1224
SatI GCNGC 2 cut(s) 118, 1136
Sau3AI GATC 6 cut(s) 156, 756, 886, 1074, 1123, 1129
Sau96I GGNCC 2 cut(s) 265, 280
SchI GAGTC 3 cut(s) 82, 181, 749
ScrFI CCNGG 7 cut(s) 72, 212, 250, 251, 279, 369, 761
SduI GDGCHC 2 cut(s) 975, 1193
SfaNI GCATC 1 cut(s) 954
SfcI CTRYAG 1 cut(s) 1139
SfuI TTCGAA 1 cut(s) 12
SinI GGWCC 1 cut(s) 265
SmaI CCCGGG 1 cut(s) 251
SmiMI CAYNNNNRTG 1 cut(s) 1236
SmlI CTYRAG 2 cut(s) 152, 458
SmoI CTYRAG 2 cut(s) 152, 458
Sse9I AATT 7 cut(s) 518, 560, 581, 610, 680, 772, 986
SsiI CCGC 4 cut(s) 118, 913, 1085, 1133
SspI AATATT 1 cut(s) 626
SspMI CTAG 1 cut(s) 206
StyD4I CCNGG 7 cut(s) 70, 210, 248, 249, 277, 367, 759
TaaI ACNGT 1 cut(s) 919
TaqI TCGA 5 cut(s) 12, 19, 91, 170, 306
TasI AATT 7 cut(s) 518, 560, 581, 610, 680, 772, 986
TauI GCSGC 1 cut(s) 120
TfiI GAWTC 4 cut(s) 4, 61, 67, 396
Tru1I TTAA 3 cut(s) 477, 1146, 1224
Tru9I TTAA 3 cut(s) 477, 1146, 1224
TseI GCWGC 1 cut(s) 1135
TspMI CCCGGG 1 cut(s) 249
VpaK11BI GGWCC 1 cut(s) 265
VspI ATTAAT 1 cut(s) 477
XapI RAATTY 3 cut(s) 581, 610, 986
XcmI CCANNNNNNNNNTGG 1 cut(s) 541
XmaI CCCGGG 1 cut(s) 249
XmiI GTMKAC 1 cut(s) 384
XmnI GAANNNNTTC 1 cut(s) 1028
XspI CTAG 1 cut(s) 206
Zsp2I ATGCAT 1 cut(s) 1018
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.