Rh6BG338700

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0014611
Physical Location & Seq
Reverse (-)
57123630 .. 57125812
2183 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG338700.1

Sequence Viewer

Length: 1404 bp
ATGAGAGCATCTTCACCATCCACGTGGCGTGGCAAGACAGGTGGTCTATGTGCAAAAATAAACATTTATAGTATTTCTCCATCTACCCAATTAACACTTTTTGTTACAATTCAGTCCTTTCGAGTAGCCGTGAAAACCCTGAACCCCTTTTATTCCTTTCTAAAGTCGTTGTTTTCACTCTGTGAGTGGCTCCAGTCTCTGATTCCGATTCCAGGTATGCTCTCCAAGACTCGAACCATCTCTTCCTATCTGCACAGCCACGGCACCACTCTCACATCGCACGCGAACCCAGAAATCCACCTTCAGATCAAACCCATTTCGAGTCTGAAGGTGGTGTGGCGCAAAGACCCAAAGCTAGACCAGGCCATAGAGAACGACAAACCGTACAAGCTCTGCGCCCGGGTCGTGAAGGAGGTCCTAAACGAACCGGGCCAGAAAATCCCACTCCGGTACCTCGAAAAAAGGCGCGAGAGATTGCGCCTCAGAACCAAAGCCACAACCTTTATTGGCAAAAACCCAGGTTTATTTGAGGTCTATTATGATAGAATCAAACCCAAAATTGAGAAGGTTCAGTTTCTTAGGGTTAGTGATAGGCTGAGAGAGTTTCTTGAAGAAGAGAAGAGGATTAATATGGAAAATGAGGGTTTGATTGTGTCTAAGTTGTGTAAATTGTTGATGATGGCCAAGAATAAGGTGGTTAGTGCTGATAAATTGGTTGATGTGAAGAGGGAATTTGGGTTCCCTAATGATTTTATGGTGAATTTGGTGCCTAAATATTCGCAGTATTTTCGGCTGGTTGGGGGTTCTGGCGAGGGGAAGTCATTCTTGGAATTGGTTGATTGGAACCCCGAGTTTGCGAAATCTGTGATTGAGAGGAGAGCAGAAGAGGAGTCAAGCTTGACAGGGATCCGGGTTCGGCCTAATTTTGATTACAAGCTTCCACAAGGGTTTGTGTTGAAGAAGGAAATGAGGGAGTGGGTTAGGGATTGGATGGAAATGGATTATATGTCGCCGTATGAGGATGTTTCGAAGTTGGATCAAGCGTCCCCAGAAATGGAGAAGAGGACGGTTGGGGTTTTCCATGAGTTGTTGTCATTGTCTTTGTTGAAGAGGATGCCTGTGCCCATACTGGGAAAATTTTGTGATGAGTATAGGTTTTCAAATGCATTCCCGAATGTATTCACAAGGCATTCGGGGTTGTTTTATGTGTCACAGAAAGGAGGGATCAAGACGGCGGTGCTGAGGGAAGCTTACAAGGATGACCAGTTGATTGATCGGGATCCGCTGCTACAGATTAAGGATAAGTTTGTTGAGCTATTGGAGGAAGGATGGCGGGAGAGCACACAGCAGTTGAGGTTGCAAAGGGAAGAAGTTAAGGGGATGGCTGTGAGGAATGAAGAATAG
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

467

Amino Acids

54.34

Weight (kDa)

9.44

Isoelectric Point (pI)

43.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 115 - 444 1.1e-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) 450
AccB1I GGYRCC 3 cut(s) 263, 450, 766
AccII CGCG 2 cut(s) 284, 468
AciI CCGC 3 cut(s) 1235, 1283, 1333
AclWI GGATC 6 cut(s) 901, 914, 1044, 1232, 1274, 1287
AcoI YGGCCR 1 cut(s) 681
AcsI RAATTY 3 cut(s) 731, 760, 1136
AcuI CTGAAG 2 cut(s) 287, 347
AcvI CACGTG 1 cut(s) 24
AdeI CACNNNGTG 1 cut(s) 182
AfaI GTAC 2 cut(s) 386, 452
AfiI CCNNNNNNNGG 3 cut(s) 212, 1054, 1130
AgsI TTSAA 4 cut(s) 611, 958, 1108, 1161
AhdI GACNNNNNGTC 1 cut(s) 42
AjnI CCWGG 3 cut(s) 211, 360, 517
AjuI GAANNNNNNNTTGG 2 cut(s) 809, 841
AloI GAACNNNNNNTCC 2 cut(s) 722, 754
AluBI AGCT 6 cut(s) 355, 391, 897, 937, 1250, 1315
AluI AGCT 6 cut(s) 355, 391, 897, 937, 1250, 1315
Alw21I GWGCWC 1 cut(s) 1343
Alw26I GTCTC 1 cut(s) 201
AlwI GGATC 6 cut(s) 901, 914, 1044, 1232, 1274, 1287
AlwNI CAGNNNCTG 1 cut(s) 199
Ama87I CYCGRG 2 cut(s) 399, 848
AoxI GGCC 4 cut(s) 363, 430, 681, 917
ApeKI GCWGC 1 cut(s) 1285
ApoI RAATTY 3 cut(s) 731, 760, 1136
AseI ATTAAT 1 cut(s) 627
Asp700I GAANNNNTTC 2 cut(s) 821, 1178
Asp718I GGTACC 1 cut(s) 450
AspLEI GCGC 4 cut(s) 342, 398, 468, 480
AspS9I GGNCC 2 cut(s) 415, 430
AsuC2I CCSGG 4 cut(s) 400, 401, 429, 911
AsuHPI GGTGA 2 cut(s) 6, 769
AsuII TTCGAA 1 cut(s) 1028
AvaI CYCGRG 2 cut(s) 399, 848
AvaII GGWCC 1 cut(s) 415
BaeGI GKGCMC 1 cut(s) 1125
BaeI ACNNNNGTAYC 2 cut(s) 434, 467
BalI TGGCCA 1 cut(s) 683
BamHI GGATCC 2 cut(s) 906, 1279
BanI GGYRCC 3 cut(s) 263, 450, 766
BbrPI CACGTG 1 cut(s) 24
Bbv12I GWGCWC 1 cut(s) 1343
BbvCI CCTCAGC 1 cut(s) 1241
BbvI GCAGC 1 cut(s) 1272
BccI CCATC 7 cut(s) 25, 88, 245, 673, 985, 1323, 1375
BceAI ACGGC 4 cut(s) 113, 277, 997, 1248
BcgI CGANNNNNNTGC 2 cut(s) 770, 804
BciT130I CCWGG 3 cut(s) 213, 362, 519
BcnI CCSGG 4 cut(s) 400, 401, 429, 911
BcoDI GTCTC 1 cut(s) 201
BfaI CTAG 1 cut(s) 356
BfmI CTRYAG 1 cut(s) 1289
BisI GCNGC 1 cut(s) 1286
BlsI GCNGC 1 cut(s) 1287
Bme1390I CCNGG 7 cut(s) 213, 362, 400, 401, 429, 519, 911
Bme18I GGWCC 1 cut(s) 415
BmeRI GACNNNNNGTC 1 cut(s) 42
BmeT110I CYCGRG 2 cut(s) 399, 848
BmgT120I GGNCC 2 cut(s) 415, 430
BmiI GGNNCC 8 cut(s) 191, 265, 452, 740, 768, 845, 908, 1281
BmrFI CCNGG 7 cut(s) 213, 362, 400, 401, 429, 519, 911
BmrI ACTGGG 1 cut(s) 1139
BmsI GCATC 2 cut(s) 17, 1104
BmuI ACTGGG 1 cut(s) 1139
BpmI CTGGAG 1 cut(s) 176
Bpu10I CCTNAGC 1 cut(s) 1241
Bpu14I TTCGAA 1 cut(s) 1028
BpuMI CCSGG 4 cut(s) 400, 401, 429, 911
BsaAI YACGTR 1 cut(s) 24
BsaBI GATNNNNATC 1 cut(s) 1278
BsaJI CCNNGG 3 cut(s) 259, 399, 517
BsaWI WCCGGW 1 cut(s) 447
Bsc4I CCNNNNNNNGG 3 cut(s) 212, 1054, 1130
Bse1I ACTGG 3 cut(s) 193, 1134, 1264
Bse8I GATNNNNATC 1 cut(s) 1278
BseBI CCWGG 3 cut(s) 213, 362, 519
BseDI CCNNGG 3 cut(s) 259, 399, 517
BseGI GGATG 7 cut(s) 17, 996, 1027, 1119, 1264, 1334, 1386
BseJI GATNNNNATC 1 cut(s) 1278
BseLI CCNNNNNNNGG 3 cut(s) 212, 1054, 1130
BseMII CTCAG 3 cut(s) 496, 587, 1232
BseNI ACTGG 3 cut(s) 193, 1134, 1264
BseRI GAGGAG 2 cut(s) 889, 902
BseSI GKGCMC 1 cut(s) 1125
BseXI GCAGC 1 cut(s) 1272
BsgI GTGCAG 1 cut(s) 236
Bsh1236I CGCG 2 cut(s) 284, 468
BshFI GGCC 4 cut(s) 365, 432, 683, 919
BshNI GGYRCC 3 cut(s) 263, 450, 766
BsiHKAI GWGCWC 1 cut(s) 1343
BsiHKCI CYCGRG 2 cut(s) 399, 848
BsiSI CCGG 4 cut(s) 400, 428, 448, 910
BslFI GGGAC 1 cut(s) 1030
BslI CCNNNNNNNGG 3 cut(s) 212, 1054, 1130
BsmAI GTCTC 1 cut(s) 201
BsmFI GGGAC 1 cut(s) 1030
BsmI GAATGC 2 cut(s) 1166, 1189
BsnI GGCC 4 cut(s) 365, 432, 683, 919
BsoBI CYCGRG 2 cut(s) 399, 848
Bsp119I TTCGAA 1 cut(s) 1028
Bsp1286I GDGCHC 2 cut(s) 1125, 1343
Bsp143I GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
BspACI CCGC 3 cut(s) 1235, 1283, 1333
BspANI GGCC 4 cut(s) 365, 432, 683, 919
BspCNI CTCAG 3 cut(s) 495, 588, 1233
BspFNI CGCG 2 cut(s) 284, 468
BspLI GGNNCC 8 cut(s) 191, 265, 452, 740, 768, 845, 908, 1281
BspPI GGATC 6 cut(s) 901, 914, 1044, 1232, 1274, 1287
BspT104I TTCGAA 1 cut(s) 1028
BspT107I GGYRCC 3 cut(s) 263, 450, 766
BsrI ACTGG 3 cut(s) 193, 1134, 1264
BssECI CCNNGG 3 cut(s) 259, 399, 517
BssMI GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
Bst2UI CCWGG 3 cut(s) 213, 362, 519
Bst4CI ACNGT 2 cut(s) 384, 1069
Bst6I CTCTTC 7 cut(s) 247, 609, 614, 719, 879, 1055, 1103
BstBAI YACGTR 1 cut(s) 24
BstBI TTCGAA 1 cut(s) 1028
BstC8I GCNNGC 1 cut(s) 282
BstDEI CTNAG 5 cut(s) 482, 578, 596, 657, 1241
BstDSI CCRYGG 1 cut(s) 259
BstF5I GGATG 7 cut(s) 17, 996, 1027, 1119, 1264, 1334, 1386
BstFNI CGCG 2 cut(s) 284, 468
BstHHI GCGC 4 cut(s) 342, 398, 468, 480
BstKTI GATC 6 cut(s) 309, 909, 1039, 1227, 1276, 1282
BstMAI GTCTC 1 cut(s) 201
BstMBI GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
BstNI CCWGG 3 cut(s) 213, 362, 519
BstSCI CCNGG 7 cut(s) 211, 360, 398, 399, 427, 517, 909
BstSFI CTRYAG 1 cut(s) 1289
BstSLI GKGCMC 1 cut(s) 1125
BstUI CGCG 2 cut(s) 284, 468
BstV1I GCAGC 1 cut(s) 1272
BstX2I RGATCY 2 cut(s) 906, 1279
BstXI CCANNNNNNTGG 1 cut(s) 24
BstYI RGATCY 2 cut(s) 906, 1279
BsuRI GGCC 4 cut(s) 365, 432, 683, 919
BtgI CCRYGG 1 cut(s) 259
BtgZI GCGATG 1 cut(s) 261
BtsCI GGATG 7 cut(s) 17, 996, 1027, 1119, 1264, 1334, 1386
Cac8I GCNNGC 1 cut(s) 282
CaiI CAGNNNCTG 1 cut(s) 199
CfoI GCGC 4 cut(s) 342, 398, 468, 480
Cfr13I GGNCC 2 cut(s) 415, 430
Cfr9I CCCGGG 1 cut(s) 399
CseI GACGC 1 cut(s) 1032
Csp6I GTAC 2 cut(s) 385, 451
CspCI CAANNNNNGTGG 2 cut(s) 22, 57
CviAII CATG 1 cut(s) 1082
CviQI GTAC 2 cut(s) 385, 451
DdeI CTNAG 5 cut(s) 482, 578, 596, 657, 1241
DpnI GATC 6 cut(s) 308, 908, 1038, 1226, 1275, 1281
DpnII GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
DraIII CACNNNGTG 1 cut(s) 182
DriI GACNNNNNGTC 1 cut(s) 42
EaeI YGGCCR 1 cut(s) 681
Eam1104I CTCTTC 7 cut(s) 247, 609, 614, 719, 879, 1055, 1103
Eam1105I GACNNNNNGTC 1 cut(s) 42
EarI CTCTTC 7 cut(s) 247, 609, 614, 719, 879, 1055, 1103
Eco47I GGWCC 1 cut(s) 415
Eco57I CTGAAG 2 cut(s) 287, 347
Eco72I CACGTG 1 cut(s) 24
Eco88I CYCGRG 2 cut(s) 399, 848
EcoO109I RGGNCCY 1 cut(s) 415
EcoRII CCWGG 3 cut(s) 211, 360, 517
EcoT22I ATGCAT 1 cut(s) 1168
FaeI CATG 1 cut(s) 1085
FalI AAGNNNNNCTT 2 cut(s) 809, 841
FaqI GGGAC 1 cut(s) 1030
FatI CATG 1 cut(s) 1081
FauI CCCGC 1 cut(s) 1326
Fnu4HI GCNGC 1 cut(s) 1286
FokI GGATG 7 cut(s) 4, 1003, 1034, 1126, 1271, 1341, 1393
Fsp4HI GCNGC 1 cut(s) 1286
FspBI CTAG 1 cut(s) 356
GlaI GCGC 4 cut(s) 341, 397, 467, 479
GluI GCNGC 1 cut(s) 1286
GsuI CTGGAG 1 cut(s) 176
HaeIII GGCC 4 cut(s) 365, 432, 683, 919
HapII CCGG 4 cut(s) 400, 428, 448, 910
HgaI GACGC 1 cut(s) 1032
HhaI GCGC 4 cut(s) 342, 398, 468, 480
Hin1II CATG 1 cut(s) 1085
Hin6I GCGC 4 cut(s) 340, 396, 466, 478
HinP1I GCGC 4 cut(s) 340, 396, 466, 478
HindIII AAGCTT 3 cut(s) 895, 935, 1248
HinfI GANTC 6 cut(s) 202, 208, 229, 322, 546, 890
HpaII CCGG 4 cut(s) 400, 428, 448, 910
HphI GGTGA 2 cut(s) 6, 769
Hpy188I TCNGA 5 cut(s) 201, 207, 306, 327, 485
Hpy188III TCNNGA 5 cut(s) 406, 608, 1171, 1228, 1277
HpyAV CCTTC 6 cut(s) 311, 322, 403, 559, 955, 1319
HpyCH4III ACNGT 2 cut(s) 384, 1069
HpyCH4IV ACGT 1 cut(s) 23
HpyCH4V TGCA 4 cut(s) 53, 253, 1166, 1360
HpyF3I CTNAG 5 cut(s) 482, 578, 596, 657, 1241
HpySE526I ACGT 1 cut(s) 23
Hsp92II CATG 1 cut(s) 1085
HspAI GCGC 4 cut(s) 340, 396, 466, 478
KpnI GGTACC 1 cut(s) 454
Kzo9I GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
LmnI GCTCC 1 cut(s) 195
Lsp1109I GCAGC 1 cut(s) 1272
LweI GCATC 2 cut(s) 17, 1104
MaeI CTAG 1 cut(s) 356
MaeII ACGT 1 cut(s) 23
MaeIII GTNAC 2 cut(s) 103, 1209
MalI GATC 6 cut(s) 308, 908, 1038, 1226, 1275, 1281
MboI GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
MflI RGATCY 2 cut(s) 906, 1279
MhlI GDGCHC 2 cut(s) 1125, 1343
MlsI TGGCCA 1 cut(s) 683
MluNI TGGCCA 1 cut(s) 683
MlyI GAGTC 3 cut(s) 223, 331, 899
MmeI TCCRAC 1 cut(s) 1014
Mox20I TGGCCA 1 cut(s) 683
Mph1103I ATGCAT 1 cut(s) 1168
MroXI GAANNNNTTC 2 cut(s) 821, 1178
MscI TGGCCA 1 cut(s) 683
MseI TTAA 4 cut(s) 92, 627, 1296, 1374
MslI CAYNNNNRTG 1 cut(s) 22
Msp20I TGGCCA 1 cut(s) 683
MspA1I CMGCKG 1 cut(s) 1285
MspI CCGG 4 cut(s) 400, 428, 448, 910
MspR9I CCNGG 7 cut(s) 213, 362, 400, 401, 429, 519, 911
Mva1269I GAATGC 2 cut(s) 1166, 1189
MvaI CCWGG 3 cut(s) 213, 362, 519
MvnI CGCG 2 cut(s) 284, 468
NciI CCSGG 4 cut(s) 400, 401, 429, 911
NdeII GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
NlaIII CATG 1 cut(s) 1085
NlaIV GGNNCC 8 cut(s) 191, 265, 452, 740, 768, 845, 908, 1281
NmuCI GTSAC 1 cut(s) 1209
NsiI ATGCAT 1 cut(s) 1168
NspV TTCGAA 1 cut(s) 1028
PctI GAATGC 2 cut(s) 1166, 1189
PdmI GAANNNNTTC 2 cut(s) 821, 1178
PfeI GAWTC 3 cut(s) 202, 208, 546
PkrI GCNGC 1 cut(s) 1287
PleI GAGTC 3 cut(s) 223, 330, 898
PmaCI CACGTG 1 cut(s) 24
PmlI CACGTG 1 cut(s) 24
PpsI GAGTC 3 cut(s) 223, 330, 898
Ppu21I YACGTR 1 cut(s) 24
PpuMI RGGWCCY 1 cut(s) 415
PshBI ATTAAT 1 cut(s) 627
Psp5II RGGWCCY 1 cut(s) 415
Psp6I CCWGG 3 cut(s) 211, 360, 517
PspCI CACGTG 1 cut(s) 24
PspGI CCWGG 3 cut(s) 211, 360, 517
PspN4I GGNNCC 8 cut(s) 191, 265, 452, 740, 768, 845, 908, 1281
PspPI GGNCC 2 cut(s) 415, 430
PspPPI RGGWCCY 1 cut(s) 415
PstNI CAGNNNCTG 1 cut(s) 199
PsuI RGATCY 2 cut(s) 906, 1279
RsaI GTAC 2 cut(s) 386, 452
RsaNI GTAC 2 cut(s) 385, 451
RseI CAYNNNNRTG 1 cut(s) 22
SaqAI TTAA 4 cut(s) 92, 627, 1296, 1374
SatI GCNGC 1 cut(s) 1286
Sau3AI GATC 6 cut(s) 306, 906, 1036, 1224, 1273, 1279
Sau96I GGNCC 2 cut(s) 415, 430
SchI GAGTC 3 cut(s) 223, 331, 899
ScrFI CCNGG 7 cut(s) 213, 362, 400, 401, 429, 519, 911
SduI GDGCHC 2 cut(s) 1125, 1343
SfaNI GCATC 2 cut(s) 17, 1104
SfcI CTRYAG 1 cut(s) 1289
SfuI TTCGAA 1 cut(s) 1028
SinI GGWCC 1 cut(s) 415
SmaI CCCGGG 1 cut(s) 401
SmiMI CAYNNNNRTG 1 cut(s) 22
SsiI CCGC 3 cut(s) 1235, 1283, 1333
SspI AATATT 1 cut(s) 776
SspMI CTAG 1 cut(s) 356
StyD4I CCNGG 7 cut(s) 211, 360, 398, 399, 427, 517, 909
TaaI ACNGT 2 cut(s) 384, 1069
TaiI ACGT 1 cut(s) 26
TaqI TCGA 5 cut(s) 121, 232, 320, 456, 1028
TfiI GAWTC 3 cut(s) 202, 208, 546
Tru1I TTAA 4 cut(s) 92, 627, 1296, 1374
Tru9I TTAA 4 cut(s) 92, 627, 1296, 1374
TseFI GTSAC 1 cut(s) 1209
TseI GCWGC 1 cut(s) 1285
Tsp45I GTSAC 1 cut(s) 1209
TspMI CCCGGG 1 cut(s) 399
VpaK11BI GGWCC 1 cut(s) 415
VspI ATTAAT 1 cut(s) 627
XapI RAATTY 3 cut(s) 731, 760, 1136
XcmI CCANNNNNNNNNTGG 1 cut(s) 691
XmaI CCCGGG 1 cut(s) 399
XmnI GAANNNNTTC 2 cut(s) 821, 1178
XspI CTAG 1 cut(s) 356
Zsp2I ATGCAT 1 cut(s) 1168
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.