RchiOBHm_Chr6g0275671

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0014573
Physical Location & Seq
Forward (+)
37551316 .. 37554489
3174 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1302 bp
ATGTTCAGTAATCATATTAGTTTGGCAAATTCCAGTTTCTTTGTTGTGGGTTTGTCCTGTATTAATAGATATATGCACACAAAACACCAAATGGCATTGTTCACAGTGCACTACTTTAGAAACCCAAGACTTGTTGCCCGGAACTTTTCGCTGTGGTCAATGAAGAAGGACCCATCTCTTGAATCGGCATTGTCTAGGAATCGCCGGTGGGTGGTGAACAATCAACTTAAGAACATCATCCTTAGGTGCCCTGATCAGGTAGCAAAAGTGAGCTTCATTCAGACCAAGTTCAAGACTCTTGATCTCCAAGGAAAGGCTCTCAATTGGCTCAATAAATATCCCTGTTGCTTTCAAGTCTATCTGCAGGGTGATGAGTACTACTGCCACCTCACGAAACCGATGATGGCTTTGGTCGAAGAGGAAGAATGTGTCAAAGATATGCAGGAACCTGTGTTTGTGGAGAGGTTGGCAAAGTTACTGATGATGAGCCGCAACCAAAGACTGAATGTTGTCAAGCTTAATGAACTCAAGCGGAATTTTGGTTTTCCGGATGACTATCTGCTTAGACTTATGCCAAAGTATCCTGACATGTTTCGAATTGTTAATTATAGCGGCCGAAGGAGTTCTATGGAGATTGAGCTGGTGGCTTGGAATCCGGATTTAGCAGTTTCTGCTATTGAAGCTTCAGCTCAGAAGCAGGGAAGTGAGCCATGTTTCAGTTGCTCTTTGCCTTCAACTTGGGTCAAGTCATGGGAAAGATTTCATGAGTTTAATGCAACTCCCTATATTTCTCCGTACTTGGACACCAAAGGTTTAGTGGAGGGATCAAAGGAGATGGAGAAGAGGACAGTCGGCTTGGTGCATGAGTTGTTGTCATTGACTCTATGGAAGAAAGCATCAATTGTAAAGCTCGGACATTTTAGGAGGGAGTTTGTTTTGCCAGAGAGATTGAATGCTTTGCTGCTGAAGCACCCTGGTATATTTTATGTATCAAATAAGTATCAGATATATACTGTCCTTCTTAGAGAAGGCTATAATGGGCAAGAACTGGTTCATAAGGATCCACTTGTTGTCATAAAGGAGAAGTTTGGAGAACTTATGCAGGATGGGCTTCATGAATATAATCGCAGGCGCCATTTAGTAAATCTAGAAAAAAGGAGAAACAAAGGCATGGTTTTGGGTAGATCAGATGAAGGCAAGGATTTGTCTGACCTTGATGAGCAGGGAGACAGGGGAGGTTTGTTTGACCCAGAAGAAAGAAAAAGATTTTATAAAGTTCTCTTTGATGATGGTGCCCCATGA
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

433

Amino Acids

50.66

Weight (kDa)

9.21

Isoelectric Point (pI)

53.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 55 - 370 2.5e-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) 1272
AccB1I GGYRCC 3 cut(s) 246, 1131, 1292
AccIII TCCGGA 2 cut(s) 547, 655
AciI CCGC 3 cut(s) 490, 532, 612
AclWI GGATC 3 cut(s) 832, 1055, 1068
AcoI YGGCCR 1 cut(s) 613
AcsI RAATTY 2 cut(s) 28, 535
AcuI CTGAAG 2 cut(s) 669, 986
AcyI GRCGYC 1 cut(s) 1132
AfaI GTAC 2 cut(s) 377, 797
AfiI CCNNNNNNNGG 3 cut(s) 211, 256, 313
AflII CTTAAG 1 cut(s) 227
AflIII ACRYGT 1 cut(s) 588
AgsI TTSAA 6 cut(s) 182, 292, 353, 680, 735, 952
AjnI CCWGG 1 cut(s) 973
AluBI AGCT 6 cut(s) 273, 517, 640, 683, 689, 910
AluI AGCT 6 cut(s) 273, 517, 640, 683, 689, 910
Alw21I GWGCWC 1 cut(s) 111
Alw26I GTCTC 1 cut(s) 1221
Alw44I GTGCAC 1 cut(s) 107
AlwI GGATC 3 cut(s) 832, 1055, 1068
AlwNI CAGNNNCTG 1 cut(s) 671
Aor13HI TCCGGA 2 cut(s) 547, 655
AoxI GGCC 1 cut(s) 613
ApaLI GTGCAC 1 cut(s) 107
ApeKI GCWGC 1 cut(s) 961
ApoI RAATTY 2 cut(s) 28, 535
AseI ATTAAT 1 cut(s) 63
Asp700I GAANNNNTTC 3 cut(s) 622, 759, 1050
AspLEI GCGC 1 cut(s) 1134
AspS9I GGNCC 1 cut(s) 169
AsuC2I CCSGG 1 cut(s) 139
AsuHPI GGTGA 2 cut(s) 226, 380
AsuII TTCGAA 1 cut(s) 595
AvaII GGWCC 1 cut(s) 169
AxyI CCTNAGG 1 cut(s) 242
BaeGI GKGCMC 3 cut(s) 111, 251, 1297
BamHI GGATCC 1 cut(s) 1060
BanI GGYRCC 3 cut(s) 246, 1131, 1292
Bbv12I GWGCWC 1 cut(s) 111
BbvI GCAGC 1 cut(s) 948
BccI CCATC 5 cut(s) 181, 397, 829, 1100, 1283
BciT130I CCWGG 1 cut(s) 975
BciVI GTATCC 1 cut(s) 591
BclI TGATCA 1 cut(s) 253
BcnI CCSGG 1 cut(s) 139
BcoDI GTCTC 1 cut(s) 1221
BfaI CTAG 2 cut(s) 195, 1148
BfmI CTRYAG 1 cut(s) 362
BfoI RGCGCY 1 cut(s) 1135
BfrI CTTAAG 1 cut(s) 227
BfuI GTATCC 1 cut(s) 591
BisI GCNGC 3 cut(s) 490, 613, 962
BlsI GCNGC 3 cut(s) 491, 614, 963
BmcAI AGTACT 1 cut(s) 377
Bme1390I CCNGG 2 cut(s) 139, 975
Bme18I GGWCC 1 cut(s) 169
BmgT120I GGNCC 1 cut(s) 169
BmiI GGNNCC 6 cut(s) 171, 248, 447, 1062, 1133, 1294
BmrFI CCNGG 2 cut(s) 139, 975
BmsI GCATC 1 cut(s) 905
Bpu14I TTCGAA 1 cut(s) 595
BpuEI CTTGAG 1 cut(s) 512
BpuMI CCSGG 1 cut(s) 139
BsaBI GATNNNNATC 1 cut(s) 555
BsaHI GRCGYC 1 cut(s) 1132
BsaJI CCNNGG 2 cut(s) 307, 973
BsaWI WCCGGW 2 cut(s) 547, 655
Bsc4I CCNNNNNNNGG 3 cut(s) 211, 256, 313
Bse118I RCCGGY 1 cut(s) 204
Bse1I ACTGG 2 cut(s) 33, 1053
Bse21I CCTNAGG 1 cut(s) 242
Bse8I GATNNNNATC 1 cut(s) 555
BseAI TCCGGA 2 cut(s) 547, 655
BseBI CCWGG 1 cut(s) 975
BseDI CCNNGG 2 cut(s) 307, 973
BseGI GGATG 3 cut(s) 237, 556, 1111
BseJI GATNNNNATC 1 cut(s) 555
BseLI CCNNNNNNNGG 3 cut(s) 211, 256, 313
BseMII CTCAG 1 cut(s) 704
BseNI ACTGG 2 cut(s) 33, 1053
BseSI GKGCMC 3 cut(s) 111, 251, 1297
BseX3I CGGCCG 1 cut(s) 613
BseXI GCAGC 1 cut(s) 948
Bsh1285I CGRYCG 1 cut(s) 616
BshFI GGCC 1 cut(s) 615
BshNI GGYRCC 3 cut(s) 246, 1131, 1292
BsiEI CGRYCG 1 cut(s) 616
BsiHKAI GWGCWC 1 cut(s) 111
BsiSI CCGG 4 cut(s) 139, 205, 548, 656
BslI CCNNNNNNNGG 3 cut(s) 211, 256, 313
BsmAI GTCTC 1 cut(s) 1221
BsmI GAATGC 1 cut(s) 958
BsnI GGCC 1 cut(s) 615
Bsp119I TTCGAA 1 cut(s) 595
Bsp1286I GDGCHC 3 cut(s) 111, 251, 1297
Bsp13I TCCGGA 2 cut(s) 547, 655
Bsp143I GATC 5 cut(s) 253, 301, 824, 1060, 1184
BspACI CCGC 3 cut(s) 490, 532, 612
BspANI GGCC 1 cut(s) 615
BspCNI CTCAG 1 cut(s) 703
BspEI TCCGGA 2 cut(s) 547, 655
BspHI TCATGA 2 cut(s) 763, 1114
BspLI GGNNCC 6 cut(s) 171, 248, 447, 1062, 1133, 1294
BspMAI CTGCAG 1 cut(s) 366
BspPI GGATC 3 cut(s) 832, 1055, 1068
BspT104I TTCGAA 1 cut(s) 595
BspT107I GGYRCC 3 cut(s) 246, 1131, 1292
BspTI CTTAAG 1 cut(s) 227
BsrFI RCCGGY 1 cut(s) 204
BsrI ACTGG 2 cut(s) 33, 1053
BssAI RCCGGY 1 cut(s) 204
BssECI CCNNGG 2 cut(s) 307, 973
BssMI GATC 5 cut(s) 253, 301, 824, 1060, 1184
BssNI GRCGYC 1 cut(s) 1132
BssT1I CCWWGG 1 cut(s) 307
Bst2UI CCWGG 1 cut(s) 975
Bst4CI ACNGT 3 cut(s) 106, 850, 1015
Bst6I CTCTTC 2 cut(s) 411, 836
BstACI GRCGYC 1 cut(s) 1132
BstAFI CTTAAG 1 cut(s) 227
BstAPI GCANNNNNTGC 1 cut(s) 671
BstBI TTCGAA 1 cut(s) 595
BstC8I GCNNGC 1 cut(s) 1130
BstDEI CTNAG 4 cut(s) 242, 563, 690, 1022
BstF5I GGATG 3 cut(s) 237, 556, 1111
BstH2I RGCGCY 1 cut(s) 1135
BstHHI GCGC 1 cut(s) 1134
BstKTI GATC 5 cut(s) 256, 304, 827, 1063, 1187
BstMAI GTCTC 1 cut(s) 1221
BstMBI GATC 5 cut(s) 253, 301, 824, 1060, 1184
BstMCI CGRYCG 1 cut(s) 616
BstMWI GCNNNNNNNGC 4 cut(s) 671, 680, 967, 1108
BstNI CCWGG 1 cut(s) 975
BstNSI RCATGY 1 cut(s) 592
BstSCI CCNGG 2 cut(s) 137, 973
BstSFI CTRYAG 1 cut(s) 362
BstSLI GKGCMC 3 cut(s) 111, 251, 1297
BstV1I GCAGC 1 cut(s) 948
BstX2I RGATCY 1 cut(s) 1060
BstYI RGATCY 1 cut(s) 1060
BstZI CGGCCG 1 cut(s) 613
Bsu36I CCTNAGG 1 cut(s) 242
BsuI GTATCC 1 cut(s) 591
BsuRI GGCC 1 cut(s) 615
BtsCI GGATG 3 cut(s) 237, 556, 1111
BtsIMutI CAGTG 1 cut(s) 111
Cac8I GCNNGC 1 cut(s) 1130
CaiI CAGNNNCTG 1 cut(s) 671
CciI TCATGA 2 cut(s) 763, 1114
CfoI GCGC 1 cut(s) 1134
Cfr10I RCCGGY 1 cut(s) 204
Cfr13I GGNCC 1 cut(s) 169
Csp6I GTAC 2 cut(s) 376, 796
CviAII CATG 8 cut(s) 589, 711, 750, 764, 863, 1115, 1171, 1299
CviQI GTAC 2 cut(s) 376, 796
DdeI CTNAG 4 cut(s) 242, 563, 690, 1022
DinI GGCGCC 1 cut(s) 1133
DpnI GATC 5 cut(s) 255, 303, 826, 1062, 1186
DpnII GATC 5 cut(s) 253, 301, 824, 1060, 1184
EaeI YGGCCR 1 cut(s) 613
EagI CGGCCG 1 cut(s) 613
Eam1104I CTCTTC 2 cut(s) 411, 836
EarI CTCTTC 2 cut(s) 411, 836
EclXI CGGCCG 1 cut(s) 613
Eco130I CCWWGG 1 cut(s) 307
Eco47I GGWCC 1 cut(s) 169
Eco52I CGGCCG 1 cut(s) 613
Eco57I CTGAAG 2 cut(s) 669, 986
Eco81I CCTNAGG 1 cut(s) 242
EcoO109I RGGNCCY 1 cut(s) 169
EcoRII CCWGG 1 cut(s) 973
EcoT14I CCWWGG 1 cut(s) 307
EgeI GGCGCC 1 cut(s) 1133
EheI GGCGCC 1 cut(s) 1133
ErhI CCWWGG 1 cut(s) 307
FaeI CATG 8 cut(s) 592, 714, 753, 767, 866, 1118, 1174, 1302
FatI CATG 8 cut(s) 588, 710, 749, 763, 862, 1114, 1170, 1298
FbaI TGATCA 1 cut(s) 253
Fnu4HI GCNGC 3 cut(s) 490, 613, 962
FokI GGATG 3 cut(s) 224, 563, 1118
Fsp4HI GCNGC 3 cut(s) 490, 613, 962
FspBI CTAG 2 cut(s) 195, 1148
GlaI GCGC 1 cut(s) 1133
GluI GCNGC 3 cut(s) 490, 613, 962
HaeII RGCGCY 1 cut(s) 1135
HaeIII GGCC 1 cut(s) 615
HapII CCGG 4 cut(s) 139, 205, 548, 656
HhaI GCGC 1 cut(s) 1134
Hin1I GRCGYC 1 cut(s) 1132
Hin1II CATG 8 cut(s) 592, 714, 753, 767, 866, 1118, 1174, 1302
Hin6I GCGC 1 cut(s) 1132
HinP1I GCGC 1 cut(s) 1132
HindIII AAGCTT 2 cut(s) 515, 681
HinfI GANTC 5 cut(s) 182, 199, 295, 652, 880
HpaII CCGG 4 cut(s) 139, 205, 548, 656
HphI GGTGA 2 cut(s) 226, 380
Hpy166II GTNNAC 3 cut(s) 102, 109, 217
Hpy188I TCNGA 6 cut(s) 282, 693, 914, 1005, 1189, 1210
Hpy8I GTNNAC 3 cut(s) 102, 109, 217
HpyAV CCTTC 6 cut(s) 160, 612, 741, 1022, 1028, 1187
HpyCH4III ACNGT 3 cut(s) 106, 850, 1015
HpyCH4V TGCA 7 cut(s) 76, 109, 364, 442, 776, 862, 1102
HpyF10VI GCNNNNNNNGC 4 cut(s) 671, 680, 967, 1108
HpyF3I CTNAG 4 cut(s) 242, 563, 690, 1022
Hsp92I GRCGYC 1 cut(s) 1132
Hsp92II CATG 8 cut(s) 592, 714, 753, 767, 866, 1118, 1174, 1302
HspAI GCGC 1 cut(s) 1132
KasI GGCGCC 1 cut(s) 1131
Kpn2I TCCGGA 2 cut(s) 547, 655
Ksp22I TGATCA 1 cut(s) 253
Kzo9I GATC 5 cut(s) 253, 301, 824, 1060, 1184
Lsp1109I GCAGC 1 cut(s) 948
LweI GCATC 1 cut(s) 905
MaeI CTAG 2 cut(s) 195, 1148
MaeIII GTNAC 1 cut(s) 474
MalI GATC 5 cut(s) 255, 303, 826, 1062, 1186
MboI GATC 5 cut(s) 253, 301, 824, 1060, 1184
MboII GAAGA 6 cut(s) 175, 428, 434, 853, 901, 1265
MfeI CAATTG 2 cut(s) 322, 900
MflI RGATCY 1 cut(s) 1060
MhlI GDGCHC 3 cut(s) 111, 251, 1297
MluCI AATT 6 cut(s) 28, 322, 535, 597, 604, 900
Mly113I GGCGCC 1 cut(s) 1132
MlyI GAGTC 2 cut(s) 289, 874
MnlI CCTC 7 cut(s) 398, 412, 456, 814, 837, 918, 1229
MroI TCCGGA 2 cut(s) 547, 655
MroXI GAANNNNTTC 3 cut(s) 622, 759, 1050
MseI TTAA 5 cut(s) 63, 228, 519, 603, 771
MspCI CTTAAG 1 cut(s) 227
MspI CCGG 4 cut(s) 139, 205, 548, 656
MspR9I CCNGG 2 cut(s) 139, 975
MunI CAATTG 2 cut(s) 322, 900
Mva1269I GAATGC 1 cut(s) 958
MvaI CCWGG 1 cut(s) 975
MwoI GCNNNNNNNGC 4 cut(s) 671, 680, 967, 1108
NarI GGCGCC 1 cut(s) 1132
NciI CCSGG 1 cut(s) 139
NdeII GATC 5 cut(s) 253, 301, 824, 1060, 1184
NlaIII CATG 8 cut(s) 592, 714, 753, 767, 866, 1118, 1174, 1302
NlaIV GGNNCC 6 cut(s) 171, 248, 447, 1062, 1133, 1294
NspI RCATGY 1 cut(s) 592
NspV TTCGAA 1 cut(s) 595
PagI TCATGA 2 cut(s) 763, 1114
PciI ACATGT 1 cut(s) 588
PctI GAATGC 1 cut(s) 958
PdmI GAANNNNTTC 3 cut(s) 622, 759, 1050
PfeI GAWTC 3 cut(s) 182, 199, 652
PkrI GCNGC 3 cut(s) 491, 614, 963
PleI GAGTC 2 cut(s) 289, 874
PluTI GGCGCC 1 cut(s) 1135
PpsI GAGTC 2 cut(s) 289, 874
PpuMI RGGWCCY 1 cut(s) 169
PscI ACATGT 1 cut(s) 588
PshBI ATTAAT 1 cut(s) 63
PsiI TTATAA 1 cut(s) 1272
Psp5II RGGWCCY 1 cut(s) 169
Psp6I CCWGG 1 cut(s) 973
PspGI CCWGG 1 cut(s) 973
PspN4I GGNNCC 6 cut(s) 171, 248, 447, 1062, 1133, 1294
PspPI GGNCC 1 cut(s) 169
PspPPI RGGWCCY 1 cut(s) 169
PstI CTGCAG 1 cut(s) 366
PstNI CAGNNNCTG 1 cut(s) 671
PsuI RGATCY 1 cut(s) 1060
RsaI GTAC 2 cut(s) 377, 797
RsaNI GTAC 2 cut(s) 376, 796
SaqAI TTAA 5 cut(s) 63, 228, 519, 603, 771
SatI GCNGC 3 cut(s) 490, 613, 962
Sau3AI GATC 5 cut(s) 253, 301, 824, 1060, 1184
Sau96I GGNCC 1 cut(s) 169
ScaI AGTACT 1 cut(s) 377
SchI GAGTC 2 cut(s) 289, 874
ScrFI CCNGG 2 cut(s) 139, 975
SduI GDGCHC 3 cut(s) 111, 251, 1297
SfaNI GCATC 1 cut(s) 905
SfcI CTRYAG 1 cut(s) 362
SfoI GGCGCC 1 cut(s) 1133
SfuI TTCGAA 1 cut(s) 595
SgrAI CRCCGGYG 1 cut(s) 204
SinI GGWCC 1 cut(s) 169
SmlI CTYRAG 2 cut(s) 227, 527
SmoI CTYRAG 2 cut(s) 227, 527
Sse9I AATT 6 cut(s) 28, 322, 535, 597, 604, 900
SsiI CCGC 3 cut(s) 490, 532, 612
SspDI GGCGCC 1 cut(s) 1131
SspMI CTAG 2 cut(s) 195, 1148
StyD4I CCNGG 2 cut(s) 137, 973
StyI CCWWGG 1 cut(s) 307
TaaI ACNGT 3 cut(s) 106, 850, 1015
TaqI TCGA 2 cut(s) 414, 595
TasI AATT 6 cut(s) 28, 322, 535, 597, 604, 900
TatI WGTACW 1 cut(s) 375
TauI GCSGC 2 cut(s) 492, 615
TfiI GAWTC 3 cut(s) 182, 199, 652
Tru1I TTAA 5 cut(s) 63, 228, 519, 603, 771
Tru9I TTAA 5 cut(s) 63, 228, 519, 603, 771
TscAI CASTG 1 cut(s) 111
TseI GCWGC 1 cut(s) 961
TspDTI ATGAA 8 cut(s) 176, 265, 537, 752, 1043, 1103, 1131, 1206
TspGWI ACGGA 1 cut(s) 783
TspRI CASTG 1 cut(s) 111
Vha464I CTTAAG 1 cut(s) 227
VneI GTGCAC 1 cut(s) 107
VpaK11BI GGWCC 1 cut(s) 169
VspI ATTAAT 1 cut(s) 63
XapI RAATTY 2 cut(s) 28, 535
XbaI TCTAGA 1 cut(s) 1147
XceI RCATGY 1 cut(s) 592
XcmI CCANNNNNNNNNTGG 1 cut(s) 814
XmnI GAANNNNTTC 3 cut(s) 622, 759, 1050
XspI CTAG 2 cut(s) 195, 1148
ZrmI AGTACT 1 cut(s) 377
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.