Rh6CG213400

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0014573
Physical Location & Seq
Forward (+)
35406751 .. 35410222
3472 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG213400.1

Sequence Viewer

Length: 1230 bp
ATGCACACAAAACACCAAATGGCATTGTTCACAGTGCACTACTTTAGAAACCCAAGACTTGTTGCCCGGAACTTTTCGCTGTGGTCAATGAAGAAGGACCCATCTCTTGAATCGGCATTGTCTAGGAATCGCCGGTGGGTGGTGAACAATCAACTTAAGAACATCATCCTTAGGTGCCCTGATCAGGTAGCAAAAGTGAGCTTCATTCAGACCAAGTTCAAGACTCTTGATCTCCAAGGAAAGGCTCTCAATTGGCTCAAGAAATACCCCTGCTGCTTTCAAGTCCATCTGCAGGGCGATGAGTACTACTGCCACCTCACCAAACCGATGATGGCTTTGGTCGAAGAGGAAGAATGTGTCAAAGATATGCAGGAACCTGTGTTTGTGGAGAGGTTGGCAAAGTTACTGATGATGAGCCGCAATCAAAGACTGAATGTTGTCAAGCTTAATGAACTCAAGCGGAATTTTGGTTTTCCGGATGACTATCTGCTTAGACTTATGCCAAAGTATCCTGACATGTTTCGAATTGTTAATTATAGCGGCCGAAGGAGTTCCATGGAGATTGAGCTGGTGGCTTGGAATCCGGATTTAGCAGTTTCTGCCATTGAAGCTTCAGCTCAGAAGCAGGGAAGTGAGCCATGTTTCAGTTGCTCATTGCCTTCAACTTGGGTCAAGTCGTGGGAAAGATTTCATGAGTTTAATGCAACTCCCTATATTTCTCCGTACTTGGACGCCAAAGGTTTAGTGGAGGGATCAAAGGAGATGGAGAAGAGGACAGTGGGCTTGGTGCATGAGTTGTTGTCACTGACTCTATGGAAGAAAGCATCAATTGTAAAGCTGGGACATTTTCGGAGGGAGTTTGTTTTGCCAGAGAGATTGAATGCTTTGCTGCTGAAGCACCCTGGTATATTTTATGTATCAAATAAGTATCAGATATATACTGTCCTTCTTAGAGAAGGCTATAATGGGCAAGAACTGGTTCATAAGGATCCACTTGTTGTCATAAAGGAGAAGTTTGGGGAACTTATGCAGGATGGGCTTCATGAATATAATCGCAGGCGCCATATAGTAAATCTAGAAAAAAGGAGAAACAAAGGCATGGTTTTGGGTAGATCAGATGAAGGCAAGGATTTGTCTGACCTTGATGAGCAGGGAGACAGGGGAGGTTTGTTTGACCCAGAAGAAAGAAAAAGATTTTATAAAGTTCTCTTTGATGATGGTGCCCCATGA
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

409

Amino Acids

47.92

Weight (kDa)

9.25

Isoelectric Point (pI)

53.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 31 - 346 1.4e-108 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 1200
AccB1I GGYRCC 3 cut(s) 174, 1059, 1220
AccIII TCCGGA 2 cut(s) 475, 583
AciI CCGC 3 cut(s) 418, 460, 540
AclWI GGATC 3 cut(s) 760, 983, 996
AcoI YGGCCR 1 cut(s) 541
AcsI RAATTY 1 cut(s) 463
AcuI CTGAAG 2 cut(s) 597, 914
AcyI GRCGYC 2 cut(s) 732, 1060
AfaI GTAC 2 cut(s) 305, 725
AfiI CCNNNNNNNGG 4 cut(s) 139, 184, 241, 292
AflII CTTAAG 1 cut(s) 155
AflIII ACRYGT 1 cut(s) 516
AgsI TTSAA 6 cut(s) 110, 220, 281, 608, 663, 880
AjnI CCWGG 1 cut(s) 901
AluBI AGCT 6 cut(s) 201, 445, 568, 611, 617, 838
AluI AGCT 6 cut(s) 201, 445, 568, 611, 617, 838
Alw21I GWGCWC 1 cut(s) 39
Alw26I GTCTC 1 cut(s) 1149
Alw44I GTGCAC 1 cut(s) 35
AlwI GGATC 3 cut(s) 760, 983, 996
AlwNI CAGNNNCTG 1 cut(s) 599
Aor13HI TCCGGA 2 cut(s) 475, 583
AoxI GGCC 1 cut(s) 541
ApaLI GTGCAC 1 cut(s) 35
ApeKI GCWGC 2 cut(s) 273, 889
ApoI RAATTY 1 cut(s) 463
Asp700I GAANNNNTTC 3 cut(s) 550, 687, 978
AspLEI GCGC 1 cut(s) 1062
AspS9I GGNCC 1 cut(s) 97
AsuC2I CCSGG 1 cut(s) 67
AsuHPI GGTGA 2 cut(s) 154, 310
AsuII TTCGAA 1 cut(s) 523
AvaII GGWCC 1 cut(s) 97
AxyI CCTNAGG 1 cut(s) 170
BaeGI GKGCMC 3 cut(s) 39, 179, 1225
BamHI GGATCC 1 cut(s) 988
BanI GGYRCC 3 cut(s) 174, 1059, 1220
Bbv12I GWGCWC 1 cut(s) 39
BbvI GCAGC 2 cut(s) 260, 876
BccI CCATC 6 cut(s) 109, 294, 325, 757, 1028, 1211
BciT130I CCWGG 1 cut(s) 903
BciVI GTATCC 1 cut(s) 519
BclI TGATCA 1 cut(s) 181
BcnI CCSGG 1 cut(s) 67
BcoDI GTCTC 1 cut(s) 1149
BfaI CTAG 2 cut(s) 123, 1076
BfmI CTRYAG 1 cut(s) 290
BfoI RGCGCY 1 cut(s) 1063
BfrI CTTAAG 1 cut(s) 155
BfuI GTATCC 1 cut(s) 519
BisI GCNGC 4 cut(s) 274, 418, 541, 890
BlsI GCNGC 4 cut(s) 275, 419, 542, 891
BmcAI AGTACT 1 cut(s) 305
Bme1390I CCNGG 2 cut(s) 67, 903
Bme18I GGWCC 1 cut(s) 97
BmgT120I GGNCC 1 cut(s) 97
BmiI GGNNCC 6 cut(s) 99, 176, 375, 990, 1061, 1222
BmrFI CCNGG 2 cut(s) 67, 903
BmsI GCATC 1 cut(s) 833
Bpu14I TTCGAA 1 cut(s) 523
BpuEI CTTGAG 2 cut(s) 242, 440
BpuMI CCSGG 1 cut(s) 67
BsaBI GATNNNNATC 1 cut(s) 483
BsaHI GRCGYC 2 cut(s) 732, 1060
BsaJI CCNNGG 3 cut(s) 235, 555, 901
BsaWI WCCGGW 2 cut(s) 475, 583
Bsc4I CCNNNNNNNGG 4 cut(s) 139, 184, 241, 292
Bse118I RCCGGY 1 cut(s) 132
Bse1I ACTGG 1 cut(s) 981
Bse21I CCTNAGG 1 cut(s) 170
Bse3DI GCAATG 1 cut(s) 653
Bse8I GATNNNNATC 1 cut(s) 483
BseAI TCCGGA 2 cut(s) 475, 583
BseBI CCWGG 1 cut(s) 903
BseDI CCNNGG 3 cut(s) 235, 555, 901
BseGI GGATG 3 cut(s) 165, 484, 1039
BseJI GATNNNNATC 1 cut(s) 483
BseLI CCNNNNNNNGG 4 cut(s) 139, 184, 241, 292
BseMI GCAATG 1 cut(s) 653
BseMII CTCAG 1 cut(s) 632
BseNI ACTGG 1 cut(s) 981
BseSI GKGCMC 3 cut(s) 39, 179, 1225
BseX3I CGGCCG 1 cut(s) 541
BseXI GCAGC 2 cut(s) 260, 876
BseYI CCCAGC 1 cut(s) 838
Bsh1285I CGRYCG 1 cut(s) 544
BshFI GGCC 1 cut(s) 543
BshNI GGYRCC 3 cut(s) 174, 1059, 1220
BsiEI CGRYCG 1 cut(s) 544
BsiHKAI GWGCWC 1 cut(s) 39
BsiSI CCGG 4 cut(s) 67, 133, 476, 584
BslFI GGGAC 1 cut(s) 855
BslI CCNNNNNNNGG 4 cut(s) 139, 184, 241, 292
BsmAI GTCTC 1 cut(s) 1149
BsmFI GGGAC 1 cut(s) 855
BsmI GAATGC 1 cut(s) 886
BsnI GGCC 1 cut(s) 543
Bsp119I TTCGAA 1 cut(s) 523
Bsp1286I GDGCHC 3 cut(s) 39, 179, 1225
Bsp13I TCCGGA 2 cut(s) 475, 583
Bsp143I GATC 5 cut(s) 181, 229, 752, 988, 1112
Bsp19I CCATGG 1 cut(s) 555
BspACI CCGC 3 cut(s) 418, 460, 540
BspANI GGCC 1 cut(s) 543
BspCNI CTCAG 1 cut(s) 631
BspEI TCCGGA 2 cut(s) 475, 583
BspHI TCATGA 2 cut(s) 691, 1042
BspLI GGNNCC 6 cut(s) 99, 176, 375, 990, 1061, 1222
BspMAI CTGCAG 1 cut(s) 294
BspPI GGATC 3 cut(s) 760, 983, 996
BspT104I TTCGAA 1 cut(s) 523
BspT107I GGYRCC 3 cut(s) 174, 1059, 1220
BspTI CTTAAG 1 cut(s) 155
BsrDI GCAATG 1 cut(s) 653
BsrFI RCCGGY 1 cut(s) 132
BsrI ACTGG 1 cut(s) 981
BssAI RCCGGY 1 cut(s) 132
BssECI CCNNGG 3 cut(s) 235, 555, 901
BssMI GATC 5 cut(s) 181, 229, 752, 988, 1112
BssNI GRCGYC 2 cut(s) 732, 1060
BssT1I CCWWGG 2 cut(s) 235, 555
Bst2UI CCWGG 1 cut(s) 903
Bst4CI ACNGT 3 cut(s) 34, 778, 943
Bst6I CTCTTC 2 cut(s) 339, 764
BstACI GRCGYC 2 cut(s) 732, 1060
BstAFI CTTAAG 1 cut(s) 155
BstAPI GCANNNNNTGC 1 cut(s) 599
BstBI TTCGAA 1 cut(s) 523
BstC8I GCNNGC 1 cut(s) 1058
BstDEI CTNAG 4 cut(s) 170, 491, 618, 950
BstDSI CCRYGG 1 cut(s) 555
BstF5I GGATG 3 cut(s) 165, 484, 1039
BstH2I RGCGCY 1 cut(s) 1063
BstHHI GCGC 1 cut(s) 1062
BstKTI GATC 5 cut(s) 184, 232, 755, 991, 1115
BstMAI GTCTC 1 cut(s) 1149
BstMBI GATC 5 cut(s) 181, 229, 752, 988, 1112
BstMCI CGRYCG 1 cut(s) 544
BstMWI GCNNNNNNNGC 4 cut(s) 599, 608, 895, 1036
BstNI CCWGG 1 cut(s) 903
BstNSI RCATGY 1 cut(s) 520
BstSCI CCNGG 2 cut(s) 65, 901
BstSFI CTRYAG 1 cut(s) 290
BstSLI GKGCMC 3 cut(s) 39, 179, 1225
BstV1I GCAGC 2 cut(s) 260, 876
BstX2I RGATCY 1 cut(s) 988
BstYI RGATCY 1 cut(s) 988
BstZI CGGCCG 1 cut(s) 541
Bsu36I CCTNAGG 1 cut(s) 170
BsuI GTATCC 1 cut(s) 519
BsuRI GGCC 1 cut(s) 543
BtgI CCRYGG 1 cut(s) 555
BtgZI GCGATG 1 cut(s) 312
BtsCI GGATG 3 cut(s) 165, 484, 1039
BtsIMutI CAGTG 3 cut(s) 39, 783, 803
Cac8I GCNNGC 1 cut(s) 1058
CaiI CAGNNNCTG 1 cut(s) 599
CciI TCATGA 2 cut(s) 691, 1042
CfoI GCGC 1 cut(s) 1062
Cfr10I RCCGGY 1 cut(s) 132
Cfr13I GGNCC 1 cut(s) 97
CseI GACGC 1 cut(s) 740
Csp6I GTAC 2 cut(s) 304, 724
CviAII CATG 8 cut(s) 517, 556, 639, 692, 791, 1043, 1099, 1227
CviQI GTAC 2 cut(s) 304, 724
DdeI CTNAG 4 cut(s) 170, 491, 618, 950
DinI GGCGCC 1 cut(s) 1061
DpnI GATC 5 cut(s) 183, 231, 754, 990, 1114
DpnII GATC 5 cut(s) 181, 229, 752, 988, 1112
EaeI YGGCCR 1 cut(s) 541
EagI CGGCCG 1 cut(s) 541
Eam1104I CTCTTC 2 cut(s) 339, 764
EarI CTCTTC 2 cut(s) 339, 764
EclXI CGGCCG 1 cut(s) 541
Eco130I CCWWGG 2 cut(s) 235, 555
Eco47I GGWCC 1 cut(s) 97
Eco52I CGGCCG 1 cut(s) 541
Eco57I CTGAAG 2 cut(s) 597, 914
Eco81I CCTNAGG 1 cut(s) 170
EcoO109I RGGNCCY 1 cut(s) 97
EcoRII CCWGG 1 cut(s) 901
EcoT14I CCWWGG 2 cut(s) 235, 555
EgeI GGCGCC 1 cut(s) 1061
EheI GGCGCC 1 cut(s) 1061
ErhI CCWWGG 2 cut(s) 235, 555
FaeI CATG 8 cut(s) 520, 559, 642, 695, 794, 1046, 1102, 1230
FaqI GGGAC 1 cut(s) 855
FatI CATG 8 cut(s) 516, 555, 638, 691, 790, 1042, 1098, 1226
FbaI TGATCA 1 cut(s) 181
Fnu4HI GCNGC 4 cut(s) 274, 418, 541, 890
FokI GGATG 3 cut(s) 152, 491, 1046
Fsp4HI GCNGC 4 cut(s) 274, 418, 541, 890
FspBI CTAG 2 cut(s) 123, 1076
GlaI GCGC 1 cut(s) 1061
GluI GCNGC 4 cut(s) 274, 418, 541, 890
GsaI CCCAGC 1 cut(s) 842
HaeII RGCGCY 1 cut(s) 1063
HaeIII GGCC 1 cut(s) 543
HapII CCGG 4 cut(s) 67, 133, 476, 584
HgaI GACGC 1 cut(s) 740
HhaI GCGC 1 cut(s) 1062
Hin1I GRCGYC 2 cut(s) 732, 1060
Hin1II CATG 8 cut(s) 520, 559, 642, 695, 794, 1046, 1102, 1230
Hin6I GCGC 1 cut(s) 1060
HinP1I GCGC 1 cut(s) 1060
HindIII AAGCTT 2 cut(s) 443, 609
HinfI GANTC 5 cut(s) 110, 127, 223, 580, 808
HpaII CCGG 4 cut(s) 67, 133, 476, 584
HphI GGTGA 2 cut(s) 154, 310
Hpy166II GTNNAC 3 cut(s) 30, 37, 145
Hpy188I TCNGA 6 cut(s) 210, 621, 852, 933, 1117, 1138
Hpy8I GTNNAC 3 cut(s) 30, 37, 145
HpyAV CCTTC 6 cut(s) 88, 540, 669, 950, 956, 1115
HpyCH4III ACNGT 3 cut(s) 34, 778, 943
HpyCH4V TGCA 7 cut(s) 4, 37, 292, 370, 704, 790, 1030
HpyF10VI GCNNNNNNNGC 4 cut(s) 599, 608, 895, 1036
HpyF3I CTNAG 4 cut(s) 170, 491, 618, 950
Hsp92I GRCGYC 2 cut(s) 732, 1060
Hsp92II CATG 8 cut(s) 520, 559, 642, 695, 794, 1046, 1102, 1230
HspAI GCGC 1 cut(s) 1060
KasI GGCGCC 1 cut(s) 1059
Kpn2I TCCGGA 2 cut(s) 475, 583
Ksp22I TGATCA 1 cut(s) 181
Kzo9I GATC 5 cut(s) 181, 229, 752, 988, 1112
Lsp1109I GCAGC 2 cut(s) 260, 876
LweI GCATC 1 cut(s) 833
MaeI CTAG 2 cut(s) 123, 1076
MaeIII GTNAC 2 cut(s) 402, 801
MalI GATC 5 cut(s) 183, 231, 754, 990, 1114
MboI GATC 5 cut(s) 181, 229, 752, 988, 1112
MboII GAAGA 6 cut(s) 103, 356, 362, 781, 829, 1193
MfeI CAATTG 2 cut(s) 250, 828
MflI RGATCY 1 cut(s) 988
MhlI GDGCHC 3 cut(s) 39, 179, 1225
MluCI AATT 5 cut(s) 250, 463, 525, 532, 828
Mly113I GGCGCC 1 cut(s) 1060
MlyI GAGTC 2 cut(s) 217, 802
MnlI CCTC 7 cut(s) 326, 340, 384, 742, 765, 846, 1157
MroI TCCGGA 2 cut(s) 475, 583
MroXI GAANNNNTTC 3 cut(s) 550, 687, 978
MseI TTAA 4 cut(s) 156, 447, 531, 699
MspCI CTTAAG 1 cut(s) 155
MspI CCGG 4 cut(s) 67, 133, 476, 584
MspR9I CCNGG 2 cut(s) 67, 903
MunI CAATTG 2 cut(s) 250, 828
Mva1269I GAATGC 1 cut(s) 886
MvaI CCWGG 1 cut(s) 903
MwoI GCNNNNNNNGC 4 cut(s) 599, 608, 895, 1036
NarI GGCGCC 1 cut(s) 1060
NciI CCSGG 1 cut(s) 67
NcoI CCATGG 1 cut(s) 555
NdeII GATC 5 cut(s) 181, 229, 752, 988, 1112
NlaIII CATG 8 cut(s) 520, 559, 642, 695, 794, 1046, 1102, 1230
NlaIV GGNNCC 6 cut(s) 99, 176, 375, 990, 1061, 1222
NmuCI GTSAC 1 cut(s) 801
NspI RCATGY 1 cut(s) 520
NspV TTCGAA 1 cut(s) 523
PagI TCATGA 2 cut(s) 691, 1042
PciI ACATGT 1 cut(s) 516
PctI GAATGC 1 cut(s) 886
PdmI GAANNNNTTC 3 cut(s) 550, 687, 978
PfeI GAWTC 3 cut(s) 110, 127, 580
PkrI GCNGC 4 cut(s) 275, 419, 542, 891
PleI GAGTC 2 cut(s) 217, 802
PluTI GGCGCC 1 cut(s) 1063
PpsI GAGTC 2 cut(s) 217, 802
PpuMI RGGWCCY 1 cut(s) 97
PscI ACATGT 1 cut(s) 516
PsiI TTATAA 1 cut(s) 1200
Psp5II RGGWCCY 1 cut(s) 97
Psp6I CCWGG 1 cut(s) 901
PspFI CCCAGC 1 cut(s) 838
PspGI CCWGG 1 cut(s) 901
PspN4I GGNNCC 6 cut(s) 99, 176, 375, 990, 1061, 1222
PspPI GGNCC 1 cut(s) 97
PspPPI RGGWCCY 1 cut(s) 97
PstI CTGCAG 1 cut(s) 294
PstNI CAGNNNCTG 1 cut(s) 599
PsuI RGATCY 1 cut(s) 988
RsaI GTAC 2 cut(s) 305, 725
RsaNI GTAC 2 cut(s) 304, 724
SaqAI TTAA 4 cut(s) 156, 447, 531, 699
SatI GCNGC 4 cut(s) 274, 418, 541, 890
Sau3AI GATC 5 cut(s) 181, 229, 752, 988, 1112
Sau96I GGNCC 1 cut(s) 97
ScaI AGTACT 1 cut(s) 305
SchI GAGTC 2 cut(s) 217, 802
ScrFI CCNGG 2 cut(s) 67, 903
SduI GDGCHC 3 cut(s) 39, 179, 1225
SfaNI GCATC 1 cut(s) 833
SfcI CTRYAG 1 cut(s) 290
SfoI GGCGCC 1 cut(s) 1061
SfuI TTCGAA 1 cut(s) 523
SgrAI CRCCGGYG 1 cut(s) 132
SinI GGWCC 1 cut(s) 97
SmlI CTYRAG 3 cut(s) 155, 257, 455
SmoI CTYRAG 3 cut(s) 155, 257, 455
Sse9I AATT 5 cut(s) 250, 463, 525, 532, 828
SsiI CCGC 3 cut(s) 418, 460, 540
SspDI GGCGCC 1 cut(s) 1059
SspMI CTAG 2 cut(s) 123, 1076
StyD4I CCNGG 2 cut(s) 65, 901
StyI CCWWGG 2 cut(s) 235, 555
TaaI ACNGT 3 cut(s) 34, 778, 943
TaqI TCGA 2 cut(s) 342, 523
TasI AATT 5 cut(s) 250, 463, 525, 532, 828
TatI WGTACW 1 cut(s) 303
TauI GCSGC 2 cut(s) 420, 543
TfiI GAWTC 3 cut(s) 110, 127, 580
Tru1I TTAA 4 cut(s) 156, 447, 531, 699
Tru9I TTAA 4 cut(s) 156, 447, 531, 699
TscAI CASTG 3 cut(s) 39, 783, 810
TseFI GTSAC 1 cut(s) 801
TseI GCWGC 2 cut(s) 273, 889
Tsp45I GTSAC 1 cut(s) 801
TspDTI ATGAA 8 cut(s) 104, 193, 465, 680, 971, 1031, 1059, 1134
TspGWI ACGGA 1 cut(s) 711
TspRI CASTG 3 cut(s) 39, 783, 810
Vha464I CTTAAG 1 cut(s) 155
VneI GTGCAC 1 cut(s) 35
VpaK11BI GGWCC 1 cut(s) 97
XapI RAATTY 1 cut(s) 463
XbaI TCTAGA 1 cut(s) 1075
XceI RCATGY 1 cut(s) 520
XcmI CCANNNNNNNNNTGG 2 cut(s) 328, 742
XmnI GAANNNNTTC 3 cut(s) 550, 687, 978
XspI CTAG 2 cut(s) 123, 1076
ZrmI AGTACT 1 cut(s) 305
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.