Rw6G018080

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0014573
Physical Location & Seq
Forward (+)
35829093 .. 35832646
3554 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G018080.1

Sequence Viewer

Length: 1299 bp
ATGTTCAGTAATCATATTAGTTTGGCAAATTCCAATTTCTTTGTTGTCGGTTTGTCCTGTGTAAGTAGATATATGCACACAAAACACCAAATGGCATTGTTCACAGTGCACTTTAGAAACCCAAGACTTGTTGCCCGCAACTTTTCGCTGTGGTCAATGAAGAAGGACCCATCTCTTGAATCGGCATTGTCTAGGAATCGCCGATGGGTGGTGAACAATCAACTTAAGAACATCATCCTTAGGTGCCCTGATCAGGTAGCAAAAGTGAGCTTCATTCAGACCAAGTTCAAGACTCTTGATCTCCAAGGGAAGGCTCTCAATTGGCTCAAGAAATACCCCTGCTGCTTTCAAGTCTTTCTGCAGGGTGATGAGTACTACTGCCACCTCACCAAACCGATGATGGCTTTGGTCGAAGAGGAAGAATGTGTCAAAGATATGCAGGAACCTGTGTTTGTGGAGAGGTTGGCAAAGTTACTGATGATGAGCCGCAAGCAAAGACTGAATGTTGTCAAGCTTAATGAACTCAAGCGGAATTTTGGTTTTCCGGATGACTATCTGCTTAGACTTATGCCAAAGTATCCTGACATGTTTCGAATTGTTAATTATAGCGGCCGAAGGAGTTCCATGGAGATTGAGCTGGTGGCTTGGAACCCGGACTTAGCAGTTTCTGCCATTGAAGCTTCAGCTCAGAAGCAGGGAAGTGAGCCATGTTTCAGTTGCTCTTTGCCTTCAACTTGGGTCAAGTCATGGGAAAAATTTCATGAGTTTAATGCAACTCCCTATATTTCTCCGTACTTGGACACCAAAGGTTTAGTGGAGGGATCAAAGGAGATGGAGAAGAGGACAGTGGGCTTGGTGCATGAGTTGTTGTCATTGACTCTATGGAAGAAAGCATCAATTGTAAAGCTCGGACATTTTAGGAGGGAGTTTGTTTTGCCAGAGAGATTGAATGCTTTGCTGCTGAAGCACCCTGGTATATTTTATGTATCAAATAAGTATCAGATATATACTGTCCTTCTTAGAGAAGGCTATACTGGGCAAGAACTGGTTCATAAGGATCCACTTGTTGTCATAAAGGAGAAGTTTGGGGAACTTATGCAGGATGGGCTTCATGAATATAATCGCAGGCGCCATTTAGTAAATCTAGAAAAAAGGAGAAACAAAGGCATGGTTTTGGGTAGATCAGATGAAGGCAAGGATTTGTCTGACCTTGATGAGCAGGGAGACAGGGGAGGTTTGTTTGACCCTGAAGAAAGAAAAAGATTTTATAAAGTTCTCTTTGACGATGGTGCCCCATGA
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

432

Amino Acids

50.45

Weight (kDa)

9.31

Isoelectric Point (pI)

51.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 54 - 369 2.6e-108 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: OG0014573)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G31290 AT2G31290
fragaria_vesca FvH4_2g13920
malus_domestica MD05G1023500.v1.1
prunus_persica Prupe.8G028100_v2.0.a1 Prupe.8G028100_v2.0.a1
rosa_chinensis RchiOBHm_Chr6g0275671
rosa_laevigata RLG00000013448
rosa_multiflora Rmu_sc0016068.1_g000004 Rmu_sc0018708.1_g000008
rosa_roxburghii Rroxscaffold_7G00193040
rosa_rugosa Rorug06G0095500
rosa_samantha Rh6AG207400 Rh6BG210000 Rh6CG213400 Rh6DG203100
rosa_wichuraiana Rw6G018080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1269
AccB1I GGYRCC 3 cut(s) 243, 1128, 1289
AccIII TCCGGA 1 cut(s) 544
AciI CCGC 4 cut(s) 136, 487, 529, 609
AclWI GGATC 3 cut(s) 829, 1052, 1065
AcoI YGGCCR 1 cut(s) 610
AcsI RAATTY 3 cut(s) 28, 532, 755
AcuI CTGAAG 3 cut(s) 666, 983, 1269
AcyI GRCGYC 1 cut(s) 1129
AfaI GTAC 2 cut(s) 374, 794
AfiI CCNNNNNNNGG 3 cut(s) 208, 253, 310
AflII CTTAAG 1 cut(s) 224
AflIII ACRYGT 1 cut(s) 585
AgsI TTSAA 6 cut(s) 179, 289, 350, 677, 732, 949
AjnI CCWGG 1 cut(s) 970
AluBI AGCT 6 cut(s) 270, 514, 637, 680, 686, 907
AluI AGCT 6 cut(s) 270, 514, 637, 680, 686, 907
Alw21I GWGCWC 1 cut(s) 111
Alw26I GTCTC 1 cut(s) 1218
Alw44I GTGCAC 1 cut(s) 107
AlwI GGATC 3 cut(s) 829, 1052, 1065
AlwNI CAGNNNCTG 1 cut(s) 668
Aor13HI TCCGGA 1 cut(s) 544
AoxI GGCC 1 cut(s) 610
ApaLI GTGCAC 1 cut(s) 107
ApeKI GCWGC 2 cut(s) 342, 958
ApoI RAATTY 3 cut(s) 28, 532, 755
Asp700I GAANNNNTTC 3 cut(s) 619, 756, 1047
AspLEI GCGC 1 cut(s) 1131
AspS9I GGNCC 1 cut(s) 166
AsuC2I CCSGG 1 cut(s) 653
AsuHPI GGTGA 3 cut(s) 223, 377, 379
AsuII TTCGAA 1 cut(s) 592
AvaII GGWCC 1 cut(s) 166
AxyI CCTNAGG 1 cut(s) 239
BaeGI GKGCMC 3 cut(s) 111, 248, 1294
BamHI GGATCC 1 cut(s) 1057
BanI GGYRCC 3 cut(s) 243, 1128, 1289
Bbv12I GWGCWC 1 cut(s) 111
BbvI GCAGC 2 cut(s) 329, 945
BccI CCATC 6 cut(s) 178, 198, 394, 826, 1097, 1280
BciT130I CCWGG 1 cut(s) 972
BciVI GTATCC 1 cut(s) 588
BclI TGATCA 1 cut(s) 250
BcnI CCSGG 1 cut(s) 653
BcoDI GTCTC 1 cut(s) 1218
BfaI CTAG 2 cut(s) 192, 1145
BfmI CTRYAG 1 cut(s) 359
BfoI RGCGCY 1 cut(s) 1132
BfrI CTTAAG 1 cut(s) 224
BfuI GTATCC 1 cut(s) 588
BisI GCNGC 4 cut(s) 343, 487, 610, 959
BlsI GCNGC 4 cut(s) 344, 488, 611, 960
BmcAI AGTACT 1 cut(s) 374
Bme1390I CCNGG 2 cut(s) 653, 972
Bme18I GGWCC 1 cut(s) 166
BmgT120I GGNCC 1 cut(s) 166
BmiI GGNNCC 7 cut(s) 168, 245, 444, 650, 1059, 1130, 1291
BmrFI CCNGG 2 cut(s) 653, 972
BmrI ACTGGG 1 cut(s) 1044
BmsI GCATC 1 cut(s) 902
BmuI ACTGGG 1 cut(s) 1044
Bpu14I TTCGAA 1 cut(s) 592
BpuEI CTTGAG 2 cut(s) 311, 509
BpuMI CCSGG 1 cut(s) 653
BsaBI GATNNNNATC 1 cut(s) 552
BsaHI GRCGYC 1 cut(s) 1129
BsaJI CCNNGG 3 cut(s) 304, 624, 970
BsaWI WCCGGW 1 cut(s) 544
Bsc4I CCNNNNNNNGG 3 cut(s) 208, 253, 310
Bse1I ACTGG 2 cut(s) 1039, 1050
Bse21I CCTNAGG 1 cut(s) 239
Bse8I GATNNNNATC 1 cut(s) 552
BseAI TCCGGA 1 cut(s) 544
BseBI CCWGG 1 cut(s) 972
BseDI CCNNGG 3 cut(s) 304, 624, 970
BseGI GGATG 3 cut(s) 234, 553, 1108
BseJI GATNNNNATC 1 cut(s) 552
BseLI CCNNNNNNNGG 3 cut(s) 208, 253, 310
BseMII CTCAG 1 cut(s) 701
BseNI ACTGG 2 cut(s) 1039, 1050
BseSI GKGCMC 3 cut(s) 111, 248, 1294
BseX3I CGGCCG 1 cut(s) 610
BseXI GCAGC 2 cut(s) 329, 945
Bsh1285I CGRYCG 1 cut(s) 613
BshFI GGCC 1 cut(s) 612
BshNI GGYRCC 3 cut(s) 243, 1128, 1289
BsiEI CGRYCG 1 cut(s) 613
BsiHKAI GWGCWC 1 cut(s) 111
BsiSI CCGG 2 cut(s) 545, 653
BslI CCNNNNNNNGG 3 cut(s) 208, 253, 310
BsmAI GTCTC 1 cut(s) 1218
BsmI GAATGC 1 cut(s) 955
BsnI GGCC 1 cut(s) 612
Bsp119I TTCGAA 1 cut(s) 592
Bsp1286I GDGCHC 3 cut(s) 111, 248, 1294
Bsp13I TCCGGA 1 cut(s) 544
Bsp143I GATC 5 cut(s) 250, 298, 821, 1057, 1181
Bsp19I CCATGG 1 cut(s) 624
BspACI CCGC 4 cut(s) 136, 487, 529, 609
BspANI GGCC 1 cut(s) 612
BspCNI CTCAG 1 cut(s) 700
BspEI TCCGGA 1 cut(s) 544
BspHI TCATGA 2 cut(s) 760, 1111
BspLI GGNNCC 7 cut(s) 168, 245, 444, 650, 1059, 1130, 1291
BspMAI CTGCAG 1 cut(s) 363
BspPI GGATC 3 cut(s) 829, 1052, 1065
BspT104I TTCGAA 1 cut(s) 592
BspT107I GGYRCC 3 cut(s) 243, 1128, 1289
BspTI CTTAAG 1 cut(s) 224
BsrI ACTGG 2 cut(s) 1039, 1050
BssECI CCNNGG 3 cut(s) 304, 624, 970
BssMI GATC 5 cut(s) 250, 298, 821, 1057, 1181
BssNI GRCGYC 1 cut(s) 1129
BssT1I CCWWGG 2 cut(s) 304, 624
Bst2UI CCWGG 1 cut(s) 972
Bst4CI ACNGT 3 cut(s) 106, 847, 1012
Bst6I CTCTTC 2 cut(s) 408, 833
BstACI GRCGYC 1 cut(s) 1129
BstAFI CTTAAG 1 cut(s) 224
BstAPI GCANNNNNTGC 1 cut(s) 668
BstBI TTCGAA 1 cut(s) 592
BstC8I GCNNGC 3 cut(s) 136, 491, 1127
BstDEI CTNAG 5 cut(s) 239, 560, 658, 687, 1019
BstDSI CCRYGG 1 cut(s) 624
BstF5I GGATG 3 cut(s) 234, 553, 1108
BstH2I RGCGCY 1 cut(s) 1132
BstHHI GCGC 1 cut(s) 1131
BstKTI GATC 5 cut(s) 253, 301, 824, 1060, 1184
BstMAI GTCTC 1 cut(s) 1218
BstMBI GATC 5 cut(s) 250, 298, 821, 1057, 1181
BstMCI CGRYCG 1 cut(s) 613
BstMWI GCNNNNNNNGC 4 cut(s) 668, 677, 964, 1105
BstNI CCWGG 1 cut(s) 972
BstNSI RCATGY 1 cut(s) 589
BstSCI CCNGG 2 cut(s) 651, 970
BstSFI CTRYAG 1 cut(s) 359
BstSLI GKGCMC 3 cut(s) 111, 248, 1294
BstV1I GCAGC 2 cut(s) 329, 945
BstX2I RGATCY 1 cut(s) 1057
BstYI RGATCY 1 cut(s) 1057
BstZI CGGCCG 1 cut(s) 610
Bsu36I CCTNAGG 1 cut(s) 239
BsuI GTATCC 1 cut(s) 588
BsuRI GGCC 1 cut(s) 612
BtgI CCRYGG 1 cut(s) 624
BtsCI GGATG 3 cut(s) 234, 553, 1108
BtsIMutI CAGTG 2 cut(s) 111, 852
Cac8I GCNNGC 3 cut(s) 136, 491, 1127
CaiI CAGNNNCTG 1 cut(s) 668
CciI TCATGA 2 cut(s) 760, 1111
CfoI GCGC 1 cut(s) 1131
Cfr13I GGNCC 1 cut(s) 166
Csp6I GTAC 2 cut(s) 373, 793
CviAII CATG 9 cut(s) 586, 625, 708, 747, 761, 860, 1112, 1168, 1296
CviQI GTAC 2 cut(s) 373, 793
DdeI CTNAG 5 cut(s) 239, 560, 658, 687, 1019
DinI GGCGCC 1 cut(s) 1130
DpnI GATC 5 cut(s) 252, 300, 823, 1059, 1183
DpnII GATC 5 cut(s) 250, 298, 821, 1057, 1181
EaeI YGGCCR 1 cut(s) 610
EagI CGGCCG 1 cut(s) 610
Eam1104I CTCTTC 2 cut(s) 408, 833
EarI CTCTTC 2 cut(s) 408, 833
EclXI CGGCCG 1 cut(s) 610
Eco130I CCWWGG 2 cut(s) 304, 624
Eco47I GGWCC 1 cut(s) 166
Eco52I CGGCCG 1 cut(s) 610
Eco57I CTGAAG 3 cut(s) 666, 983, 1269
Eco81I CCTNAGG 1 cut(s) 239
EcoO109I RGGNCCY 1 cut(s) 166
EcoRII CCWGG 1 cut(s) 970
EcoT14I CCWWGG 2 cut(s) 304, 624
EgeI GGCGCC 1 cut(s) 1130
EheI GGCGCC 1 cut(s) 1130
ErhI CCWWGG 2 cut(s) 304, 624
FaeI CATG 9 cut(s) 589, 628, 711, 750, 764, 863, 1115, 1171, 1299
FatI CATG 9 cut(s) 585, 624, 707, 746, 760, 859, 1111, 1167, 1295
FauI CCCGC 1 cut(s) 143
FbaI TGATCA 1 cut(s) 250
Fnu4HI GCNGC 4 cut(s) 343, 487, 610, 959
FokI GGATG 3 cut(s) 221, 560, 1115
Fsp4HI GCNGC 4 cut(s) 343, 487, 610, 959
FspBI CTAG 2 cut(s) 192, 1145
GlaI GCGC 1 cut(s) 1130
GluI GCNGC 4 cut(s) 343, 487, 610, 959
HaeII RGCGCY 1 cut(s) 1132
HaeIII GGCC 1 cut(s) 612
HapII CCGG 2 cut(s) 545, 653
HhaI GCGC 1 cut(s) 1131
Hin1I GRCGYC 1 cut(s) 1129
Hin1II CATG 9 cut(s) 589, 628, 711, 750, 764, 863, 1115, 1171, 1299
Hin6I GCGC 1 cut(s) 1129
HinP1I GCGC 1 cut(s) 1129
HindIII AAGCTT 2 cut(s) 512, 678
HinfI GANTC 4 cut(s) 179, 196, 292, 877
HpaII CCGG 2 cut(s) 545, 653
HphI GGTGA 3 cut(s) 223, 377, 379
Hpy166II GTNNAC 3 cut(s) 102, 109, 214
Hpy188I TCNGA 6 cut(s) 279, 690, 911, 1002, 1186, 1207
Hpy188III TCNNGA 9 cut(s) 176, 289, 296, 328, 545, 581, 761, 1112, 1145
Hpy8I GTNNAC 3 cut(s) 102, 109, 214
HpyAV CCTTC 7 cut(s) 157, 304, 609, 738, 1019, 1025, 1184
HpyCH4III ACNGT 3 cut(s) 106, 847, 1012
HpyCH4V TGCA 7 cut(s) 76, 109, 361, 439, 773, 859, 1099
HpyF10VI GCNNNNNNNGC 4 cut(s) 668, 677, 964, 1105
HpyF3I CTNAG 5 cut(s) 239, 560, 658, 687, 1019
Hsp92I GRCGYC 1 cut(s) 1129
Hsp92II CATG 9 cut(s) 589, 628, 711, 750, 764, 863, 1115, 1171, 1299
HspAI GCGC 1 cut(s) 1129
KasI GGCGCC 1 cut(s) 1128
Kpn2I TCCGGA 1 cut(s) 544
Ksp22I TGATCA 1 cut(s) 250
Kzo9I GATC 5 cut(s) 250, 298, 821, 1057, 1181
Lsp1109I GCAGC 2 cut(s) 329, 945
LweI GCATC 1 cut(s) 902
MaeI CTAG 2 cut(s) 192, 1145
MaeIII GTNAC 1 cut(s) 471
MalI GATC 5 cut(s) 252, 300, 823, 1059, 1183
MboI GATC 5 cut(s) 250, 298, 821, 1057, 1181
MboII GAAGA 6 cut(s) 172, 425, 431, 850, 898, 1262
MfeI CAATTG 2 cut(s) 319, 897
MflI RGATCY 1 cut(s) 1057
MhlI GDGCHC 3 cut(s) 111, 248, 1294
MluCI AATT 8 cut(s) 28, 34, 319, 532, 594, 601, 755, 897
Mly113I GGCGCC 1 cut(s) 1129
MlyI GAGTC 2 cut(s) 286, 871
MnlI CCTC 7 cut(s) 395, 409, 453, 811, 834, 915, 1226
MroI TCCGGA 1 cut(s) 544
MroXI GAANNNNTTC 3 cut(s) 619, 756, 1047
MseI TTAA 4 cut(s) 225, 516, 600, 768
MspCI CTTAAG 1 cut(s) 224
MspI CCGG 2 cut(s) 545, 653
MspR9I CCNGG 2 cut(s) 653, 972
MunI CAATTG 2 cut(s) 319, 897
Mva1269I GAATGC 1 cut(s) 955
MvaI CCWGG 1 cut(s) 972
MwoI GCNNNNNNNGC 4 cut(s) 668, 677, 964, 1105
NarI GGCGCC 1 cut(s) 1129
NciI CCSGG 1 cut(s) 653
NcoI CCATGG 1 cut(s) 624
NdeII GATC 5 cut(s) 250, 298, 821, 1057, 1181
NlaIII CATG 9 cut(s) 589, 628, 711, 750, 764, 863, 1115, 1171, 1299
NlaIV GGNNCC 7 cut(s) 168, 245, 444, 650, 1059, 1130, 1291
NspI RCATGY 1 cut(s) 589
NspV TTCGAA 1 cut(s) 592
PagI TCATGA 2 cut(s) 760, 1111
PciI ACATGT 1 cut(s) 585
PctI GAATGC 1 cut(s) 955
PdmI GAANNNNTTC 3 cut(s) 619, 756, 1047
PfeI GAWTC 2 cut(s) 179, 196
PkrI GCNGC 4 cut(s) 344, 488, 611, 960
PleI GAGTC 2 cut(s) 286, 871
PluTI GGCGCC 1 cut(s) 1132
PpsI GAGTC 2 cut(s) 286, 871
PpuMI RGGWCCY 1 cut(s) 166
PscI ACATGT 1 cut(s) 585
PsiI TTATAA 1 cut(s) 1269
Psp5II RGGWCCY 1 cut(s) 166
Psp6I CCWGG 1 cut(s) 970
PspGI CCWGG 1 cut(s) 970
PspN4I GGNNCC 7 cut(s) 168, 245, 444, 650, 1059, 1130, 1291
PspPI GGNCC 1 cut(s) 166
PspPPI RGGWCCY 1 cut(s) 166
PstI CTGCAG 1 cut(s) 363
PstNI CAGNNNCTG 1 cut(s) 668
PsuI RGATCY 1 cut(s) 1057
RsaI GTAC 2 cut(s) 374, 794
RsaNI GTAC 2 cut(s) 373, 793
SaqAI TTAA 4 cut(s) 225, 516, 600, 768
SatI GCNGC 4 cut(s) 343, 487, 610, 959
Sau3AI GATC 5 cut(s) 250, 298, 821, 1057, 1181
Sau96I GGNCC 1 cut(s) 166
ScaI AGTACT 1 cut(s) 374
SchI GAGTC 2 cut(s) 286, 871
ScrFI CCNGG 2 cut(s) 653, 972
SduI GDGCHC 3 cut(s) 111, 248, 1294
SfaNI GCATC 1 cut(s) 902
SfcI CTRYAG 1 cut(s) 359
SfoI GGCGCC 1 cut(s) 1130
SfuI TTCGAA 1 cut(s) 592
SinI GGWCC 1 cut(s) 166
SmlI CTYRAG 3 cut(s) 224, 326, 524
SmoI CTYRAG 3 cut(s) 224, 326, 524
Sse9I AATT 8 cut(s) 28, 34, 319, 532, 594, 601, 755, 897
SsiI CCGC 4 cut(s) 136, 487, 529, 609
SspDI GGCGCC 1 cut(s) 1128
SspMI CTAG 2 cut(s) 192, 1145
StyD4I CCNGG 2 cut(s) 651, 970
StyI CCWWGG 2 cut(s) 304, 624
TaaI ACNGT 3 cut(s) 106, 847, 1012
TaqI TCGA 2 cut(s) 411, 592
TasI AATT 8 cut(s) 28, 34, 319, 532, 594, 601, 755, 897
TatI WGTACW 1 cut(s) 372
TauI GCSGC 2 cut(s) 489, 612
TfiI GAWTC 2 cut(s) 179, 196
Tru1I TTAA 4 cut(s) 225, 516, 600, 768
Tru9I TTAA 4 cut(s) 225, 516, 600, 768
TscAI CASTG 2 cut(s) 111, 852
TseI GCWGC 2 cut(s) 342, 958
TspDTI ATGAA 8 cut(s) 173, 262, 534, 749, 1040, 1100, 1128, 1203
TspGWI ACGGA 1 cut(s) 780
TspRI CASTG 2 cut(s) 111, 852
Vha464I CTTAAG 1 cut(s) 224
VneI GTGCAC 1 cut(s) 107
VpaK11BI GGWCC 1 cut(s) 166
XapI RAATTY 3 cut(s) 28, 532, 755
XbaI TCTAGA 1 cut(s) 1144
XceI RCATGY 1 cut(s) 589
XcmI CCANNNNNNNNNTGG 2 cut(s) 397, 811
XmnI GAANNNNTTC 3 cut(s) 619, 756, 1047
XspI CTAG 2 cut(s) 192, 1145
ZrmI AGTACT 1 cut(s) 374
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.