Rroxscaffold_3G00221660

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0016156
Physical Location & Seq
Reverse (-)
4408617 .. 4409840
1224 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00221660.1

Sequence Viewer

Length: 1224 bp
ATGGCTTGGTGGCGCCTTCTTCTGACTCCCAAACCATCATCCACAGCCAAAACCCTAAACCCTAATCAAACTCTCCTCTTCACCTCCCCATTCTCCACCTCTTTCCTCATCACCAAAACCCCGAAGAAATTCAAGAAGCGACGCAGAAACCAAGACAGCCCGCGAACCAAGCTGGTCCAGACCCAACCCAACCTCCTCCCCCACCTCGAACGCATCGTCACTCGCGACGCCCACTTCCGATTCCTCACCAAATCCAAAGAATACCTCTCGAAGCAGCCCCACCGCGTCCTCCGCCTCGACGACGCCGGCAAGCTCCACCGCGAGCTCGGCTTCCCCCGCGGCCGGAAAGTCTCCAAGTCCCTCCAGCGCCACCCCTTGATCTTCGAAACGTACCGGCACGACGACAATAAGCTGTGGATTGGATTCACGGAGTTCATGGAAGGTTTGATGGAAGAGGAGGTGGCGTTGATGGAGGCGATGGAAGGGGATAGAGTCAACAAGGTGAGGAAGTTACTGATGATGTCAGCGAATAAGCGGATTCCGTTGAGCAAGATTTATCACTGCAGGTTGTTGTTTGGGATTCCTGAAGATTTTCGGGACCGGGTGGCGAAGTATCCTGATTATTTCAGGGTTGTGGTTGAGGATGATGGGAAGAGAGTGCTGGAATTGGTGAAATGGGATCCTTTGTTAGCAGTTAGTAGTTTAGAGAGGGAATTTGTGGTGGATGAGGATAAGGTTAAGAGGGCTTTTAGGTTTCCTGTGAAGCATGGGAAAGATTTGGATTTGGATGATGAGGATTCGAGGAAGTTGAACTTGTTGAATTCGCTTCCTTTGGTTTCGCCTTATTCAGATGGGTCGAGATTGGACCTGTGGACGTTGGAAGCTGAGAAGTATAGGGTGGGAATTTTGCATGAGTTTTTGAGCTTGACGTTGGAGAAGAGGGCTTCTATACACCACATTGTGGAGTTCAAGGAGGAGTTTAGTTTGACTAAGCACACTTACCAGATGCTGTTTAAGCAGCCCAGGACGTTTTATCTTGCCGGAACTGAGATGAACTGGGTTGTTTTCTTGAAAGATGCATATGACCAGAATGGGGTTTTGATTGAGAAGGATCCCCAAGTGGAGTTCAATGAGAAGCTGTATAAGTATGCTGAAATGCAGGAAATGGAACTGGGTTATGATTCATCTCAGCAACTGATAAGAGGGAATACACAATGCGAGTGA
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

407

Amino Acids

48.1

Weight (kDa)

9.2

Isoelectric Point (pI)

37.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 67 - 388 6.7e-102 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: OG0016156)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G08940
fragaria_vesca FvH4_2g09730 FvH4_2g09730
malus_domestica MD00G1009900.v1.1
prunus_persica Prupe.1G518700_v2.0.a1
pyrus_communis pycom08g15830 pycom15g33270
rosa_chinensis RchiOBHm_Chr7g0238641
rosa_laevigata RLG00000000822
rosa_multiflora Rmu_sc0000023.1_g000009 Rmu_sc0030975.1_g000001
rosa_roxburghii Rroxscaffold_3G00221660
rosa_rugosa Rorug07G0322500
rosa_samantha Rh7BG448100
rosa_wichuraiana Rw7G039810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 555
AccB1I GGYRCC 1 cut(s) 12
AccB7I CCANNNNNTGG 1 cut(s) 961
AccII CGCG 5 cut(s) 163, 225, 285, 321, 339
AciI CCGC 7 cut(s) 161, 283, 292, 319, 337, 339, 535
AclWI GGATC 4 cut(s) 674, 687, 1106, 1119
AcoI YGGCCR 1 cut(s) 340
AcsI RAATTY 4 cut(s) 128, 713, 820, 903
AcuI CTGAAG 1 cut(s) 606
AcyI GRCGYC 3 cut(s) 13, 228, 303
AdeI CACNNNGTG 1 cut(s) 961
AfaI GTAC 1 cut(s) 392
AfiI CCNNNNNNNGG 3 cut(s) 342, 961, 1093
AgsI TTSAA 6 cut(s) 133, 811, 820, 970, 1072, 1129
AjnI CCWGG 1 cut(s) 1022
AluBI AGCT 7 cut(s) 172, 313, 325, 412, 884, 924, 1138
AluI AGCT 7 cut(s) 172, 313, 325, 412, 884, 924, 1138
Alw21I GWGCWC 1 cut(s) 327
Alw26I GTCTC 1 cut(s) 355
AlwI GGATC 4 cut(s) 674, 687, 1106, 1119
AlwNI CAGNNNCTG 2 cut(s) 1009, 1195
AoxI GGCC 1 cut(s) 340
ApeKI GCWGC 2 cut(s) 274, 1018
ApoI RAATTY 4 cut(s) 128, 713, 820, 903
ArsI GACNNNNNNTTYG 2 cut(s) 201, 233
Asp700I GAANNNNTTC 2 cut(s) 128, 591
AspLEI GCGC 2 cut(s) 15, 369
AspS9I GGNCC 3 cut(s) 175, 598, 865
AsuC2I CCSGG 1 cut(s) 602
AsuHPI GGTGA 5 cut(s) 73, 103, 238, 514, 682
AsuII TTCGAA 1 cut(s) 384
AvaII GGWCC 3 cut(s) 175, 598, 865
BamHI GGATCC 2 cut(s) 679, 1111
BanI GGYRCC 1 cut(s) 12
BanII GRGCYC 1 cut(s) 327
Bbv12I GWGCWC 1 cut(s) 327
BbvI GCAGC 2 cut(s) 286, 1030
BccI CCATC 6 cut(s) 43, 442, 463, 472, 641, 845
BciT130I CCWGG 1 cut(s) 1024
BciVI GTATCC 1 cut(s) 624
BcnI CCSGG 1 cut(s) 602
BcoDI GTCTC 1 cut(s) 355
BfmI CTRYAG 1 cut(s) 562
BfoI RGCGCY 2 cut(s) 16, 370
BfuAI ACCTGC 1 cut(s) 555
BfuI GTATCC 1 cut(s) 624
BisI GCNGC 3 cut(s) 275, 340, 1019
BlsI GCNGC 3 cut(s) 276, 341, 1020
Bme1390I CCNGG 2 cut(s) 602, 1024
Bme18I GGWCC 3 cut(s) 175, 598, 865
BmgT120I GGNCC 3 cut(s) 175, 598, 865
BmiI GGNNCC 4 cut(s) 14, 599, 681, 1113
BmrFI CCNGG 2 cut(s) 602, 1024
BmrI ACTGGG 2 cut(s) 1066, 1181
BmsI GCATC 3 cut(s) 222, 996, 1066
BmuI ACTGGG 2 cut(s) 1066, 1181
BpmI CTGGAG 1 cut(s) 347
Bpu14I TTCGAA 1 cut(s) 384
BpuMI CCSGG 1 cut(s) 602
BsaHI GRCGYC 3 cut(s) 13, 228, 303
BsaJI CCNNGG 2 cut(s) 337, 1022
BsaXI ACNNNNNCTCC 4 cut(s) 177, 207, 449, 479
Bsc4I CCNNNNNNNGG 3 cut(s) 342, 961, 1093
Bse118I RCCGGY 2 cut(s) 305, 393
Bse1I ACTGG 2 cut(s) 1061, 1176
BseBI CCWGG 1 cut(s) 1024
BseDI CCNNGG 2 cut(s) 337, 1022
BseGI GGATG 4 cut(s) 38, 649, 730, 793
BseLI CCNNNNNNNGG 3 cut(s) 342, 961, 1093
BseMII CTCAG 3 cut(s) 876, 1038, 1202
BseNI ACTGG 2 cut(s) 1061, 1176
BseRI GAGGAG 4 cut(s) 65, 185, 470, 989
BseX3I CGGCCG 1 cut(s) 340
BseXI GCAGC 2 cut(s) 286, 1030
Bsh1236I CGCG 5 cut(s) 163, 225, 285, 321, 339
Bsh1285I CGRYCG 1 cut(s) 343
BshFI GGCC 1 cut(s) 342
BshNI GGYRCC 1 cut(s) 12
BsiEI CGRYCG 1 cut(s) 343
BsiHKAI GWGCWC 1 cut(s) 327
BsiSI CCGG 5 cut(s) 306, 343, 394, 601, 1041
BslFI GGGAC 2 cut(s) 343, 611
BslI CCNNNNNNNGG 3 cut(s) 342, 961, 1093
BsmAI GTCTC 1 cut(s) 355
BsmFI GGGAC 2 cut(s) 343, 611
BsnI GGCC 1 cut(s) 342
Bsp119I TTCGAA 1 cut(s) 384
Bsp1286I GDGCHC 1 cut(s) 327
Bsp143I GATC 3 cut(s) 378, 679, 1111
Bsp68I TCGCGA 1 cut(s) 225
BspACI CCGC 7 cut(s) 161, 283, 292, 319, 337, 339, 535
BspANI GGCC 1 cut(s) 342
BspCNI CTCAG 3 cut(s) 877, 1039, 1201
BspFNI CGCG 5 cut(s) 163, 225, 285, 321, 339
BspLI GGNNCC 4 cut(s) 14, 599, 681, 1113
BspMAI CTGCAG 1 cut(s) 566
BspMI ACCTGC 1 cut(s) 555
BspPI GGATC 4 cut(s) 674, 687, 1106, 1119
BspT104I TTCGAA 1 cut(s) 384
BspT107I GGYRCC 1 cut(s) 12
BsrFI RCCGGY 2 cut(s) 305, 393
BsrI ACTGG 2 cut(s) 1061, 1176
BssAI RCCGGY 2 cut(s) 305, 393
BssECI CCNNGG 2 cut(s) 337, 1022
BssMI GATC 3 cut(s) 378, 679, 1111
BssNI GRCGYC 3 cut(s) 13, 228, 303
Bst2UI CCWGG 1 cut(s) 1024
Bst6I CTCTTC 4 cut(s) 83, 447, 647, 932
BstACI GRCGYC 3 cut(s) 13, 228, 303
BstBI TTCGAA 1 cut(s) 384
BstC8I GCNNGC 4 cut(s) 161, 307, 311, 323
BstDEI CTNAG 4 cut(s) 885, 990, 1047, 1188
BstDSI CCRYGG 1 cut(s) 337
BstF5I GGATG 4 cut(s) 38, 649, 730, 793
BstFNI CGCG 5 cut(s) 163, 225, 285, 321, 339
BstH2I RGCGCY 2 cut(s) 16, 370
BstHHI GCGC 2 cut(s) 15, 369
BstKTI GATC 3 cut(s) 381, 682, 1114
BstMAI GTCTC 1 cut(s) 355
BstMBI GATC 3 cut(s) 378, 679, 1111
BstMCI CGRYCG 1 cut(s) 343
BstMWI GCNNNNNNNGC 5 cut(s) 169, 291, 327, 336, 1015
BstNI CCWGG 1 cut(s) 1024
BstSCI CCNGG 2 cut(s) 600, 1022
BstSFI CTRYAG 1 cut(s) 562
BstUI CGCG 5 cut(s) 163, 225, 285, 321, 339
BstV1I GCAGC 2 cut(s) 286, 1030
BstX2I RGATCY 2 cut(s) 679, 1111
BstYI RGATCY 2 cut(s) 679, 1111
BstZI CGGCCG 1 cut(s) 340
BsuI GTATCC 1 cut(s) 624
BsuRI GGCC 1 cut(s) 342
BtgI CCRYGG 1 cut(s) 337
BtgZI GCGATG 1 cut(s) 491
BtsCI GGATG 4 cut(s) 38, 649, 730, 793
BtsI GCAGTG 1 cut(s) 559
BtsIMutI CAGTG 1 cut(s) 559
BtuMI TCGCGA 1 cut(s) 225
BveI ACCTGC 1 cut(s) 555
Cac8I GCNNGC 4 cut(s) 161, 307, 311, 323
CaiI CAGNNNCTG 2 cut(s) 1009, 1195
CfoI GCGC 2 cut(s) 15, 369
Cfr10I RCCGGY 2 cut(s) 305, 393
Cfr13I GGNCC 3 cut(s) 175, 598, 865
Cfr42I CCGCGG 1 cut(s) 340
CseI GACGC 4 cut(s) 150, 236, 274, 311
Csp6I GTAC 1 cut(s) 391
CviAII CATG 3 cut(s) 436, 767, 911
CviQI GTAC 1 cut(s) 391
DdeI CTNAG 4 cut(s) 885, 990, 1047, 1188
DinI GGCGCC 1 cut(s) 14
DpnI GATC 3 cut(s) 380, 681, 1113
DpnII GATC 3 cut(s) 378, 679, 1111
DraIII CACNNNGTG 1 cut(s) 961
EaeI YGGCCR 1 cut(s) 340
EagI CGGCCG 1 cut(s) 340
Eam1104I CTCTTC 4 cut(s) 83, 447, 647, 932
EarI CTCTTC 4 cut(s) 83, 447, 647, 932
EciI GGCGGA 1 cut(s) 281
Ecl136II GAGCTC 1 cut(s) 325
EclXI CGGCCG 1 cut(s) 340
Eco24I GRGCYC 1 cut(s) 327
Eco47I GGWCC 3 cut(s) 175, 598, 865
Eco52I CGGCCG 1 cut(s) 340
Eco53kI GAGCTC 1 cut(s) 325
Eco57I CTGAAG 1 cut(s) 606
EcoICRI GAGCTC 1 cut(s) 325
EcoRI GAATTC 1 cut(s) 820
EcoRII CCWGG 1 cut(s) 1022
EcoT22I ATGCAT 1 cut(s) 1081
EcoT38I GRGCYC 1 cut(s) 327
EgeI GGCGCC 1 cut(s) 14
EheI GGCGCC 1 cut(s) 14
FaeI CATG 3 cut(s) 439, 770, 914
FalI AAGNNNNNCTT 2 cut(s) 797, 829
FaqI GGGAC 2 cut(s) 343, 611
FatI CATG 3 cut(s) 435, 766, 910
FauI CCCGC 2 cut(s) 168, 344
FauNDI CATATG 1 cut(s) 1081
Fnu4HI GCNGC 3 cut(s) 275, 340, 1019
FokI GGATG 4 cut(s) 25, 656, 737, 800
FriOI GRGCYC 1 cut(s) 327
Fsp4HI GCNGC 3 cut(s) 275, 340, 1019
GlaI GCGC 2 cut(s) 14, 368
GluI GCNGC 3 cut(s) 275, 340, 1019
GsuI CTGGAG 1 cut(s) 347
HaeII RGCGCY 2 cut(s) 16, 370
HaeIII GGCC 1 cut(s) 342
HapII CCGG 5 cut(s) 306, 343, 394, 601, 1041
HgaI GACGC 4 cut(s) 150, 236, 274, 311
HhaI GCGC 2 cut(s) 15, 369
Hin1I GRCGYC 3 cut(s) 13, 228, 303
Hin1II CATG 3 cut(s) 439, 770, 914
Hin6I GCGC 2 cut(s) 13, 367
HinP1I GCGC 2 cut(s) 13, 367
HincII GTYRAC 1 cut(s) 496
HindII GTYRAC 1 cut(s) 496
HinfI GANTC 8 cut(s) 25, 240, 423, 492, 538, 580, 797, 1181
HpaII CCGG 5 cut(s) 306, 343, 394, 601, 1041
HphI GGTGA 5 cut(s) 73, 103, 238, 514, 682
Hpy166II GTNNAC 2 cut(s) 496, 873
Hpy188I TCNGA 3 cut(s) 24, 239, 850
Hpy188III TCNNGA 9 cut(s) 133, 178, 224, 268, 584, 596, 617, 858, 1069
Hpy8I GTNNAC 2 cut(s) 496, 873
Hpy99I CGWCG 5 cut(s) 144, 230, 302, 305, 404
HpyAV CCTTC 4 cut(s) 26, 434, 476, 1102
HpyCH4IV ACGT 4 cut(s) 389, 875, 929, 1028
HpyCH4V TGCA 4 cut(s) 564, 910, 1079, 1159
HpyF10VI GCNNNNNNNGC 5 cut(s) 169, 291, 327, 336, 1015
HpyF3I CTNAG 4 cut(s) 885, 990, 1047, 1188
HpySE526I ACGT 4 cut(s) 389, 875, 929, 1028
Hsp92I GRCGYC 3 cut(s) 13, 228, 303
Hsp92II CATG 3 cut(s) 439, 770, 914
HspAI GCGC 2 cut(s) 13, 367
KasI GGCGCC 1 cut(s) 12
KroI GCCGGC 1 cut(s) 305
KroNI GCCGGC 1 cut(s) 307
KspI CCGCGG 1 cut(s) 340
Kzo9I GATC 3 cut(s) 378, 679, 1111
LmnI GCTCC 1 cut(s) 318
Lsp1109I GCAGC 2 cut(s) 286, 1030
LweI GCATC 3 cut(s) 222, 996, 1066
MaeII ACGT 4 cut(s) 389, 875, 929, 1028
MaeIII GTNAC 2 cut(s) 217, 510
MalI GATC 3 cut(s) 380, 681, 1113
MboI GATC 3 cut(s) 378, 679, 1111
MboII GAAGA 8 cut(s) 11, 70, 136, 373, 464, 599, 664, 949
MflI RGATCY 2 cut(s) 679, 1111
MhlI GDGCHC 1 cut(s) 327
MluCI AATT 5 cut(s) 128, 665, 713, 820, 903
Mly113I GGCGCC 1 cut(s) 13
MlyI GAGTC 2 cut(s) 19, 501
MmeI TCCRAC 2 cut(s) 858, 912
Mph1103I ATGCAT 1 cut(s) 1081
MroNI GCCGGC 1 cut(s) 305
MroXI GAANNNNTTC 2 cut(s) 128, 591
MseI TTAA 2 cut(s) 738, 1014
MspA1I CMGCKG 1 cut(s) 339
MspI CCGG 5 cut(s) 306, 343, 394, 601, 1041
MspR9I CCNGG 2 cut(s) 602, 1024
MvaI CCWGG 1 cut(s) 1024
MvnI CGCG 5 cut(s) 163, 225, 285, 321, 339
MwoI GCNNNNNNNGC 5 cut(s) 169, 291, 327, 336, 1015
NaeI GCCGGC 1 cut(s) 307
NarI GGCGCC 1 cut(s) 13
NciI CCSGG 1 cut(s) 602
NdeI CATATG 1 cut(s) 1081
NdeII GATC 3 cut(s) 378, 679, 1111
NgoMIV GCCGGC 1 cut(s) 305
NlaIII CATG 3 cut(s) 439, 770, 914
NlaIV GGNNCC 4 cut(s) 14, 599, 681, 1113
NmeAIII GCCGAG 1 cut(s) 306
NmuCI GTSAC 1 cut(s) 217
NruI TCGCGA 1 cut(s) 225
NsiI ATGCAT 1 cut(s) 1081
NspV TTCGAA 1 cut(s) 384
PcsI WCGNNNNNNNCGW 2 cut(s) 213, 222
PdiI GCCGGC 1 cut(s) 307
PdmI GAANNNNTTC 2 cut(s) 128, 591
PfeI GAWTC 6 cut(s) 240, 423, 538, 580, 797, 1181
PflMI CCANNNNNTGG 1 cut(s) 961
PkrI GCNGC 3 cut(s) 276, 341, 1020
PleI GAGTC 2 cut(s) 19, 500
PluTI GGCGCC 1 cut(s) 16
PpsI GAGTC 2 cut(s) 19, 500
Psp124BI GAGCTC 1 cut(s) 327
Psp6I CCWGG 1 cut(s) 1022
PspGI CCWGG 1 cut(s) 1022
PspN4I GGNNCC 4 cut(s) 14, 599, 681, 1113
PspPI GGNCC 3 cut(s) 175, 598, 865
PstI CTGCAG 1 cut(s) 566
PstNI CAGNNNCTG 2 cut(s) 1009, 1195
PsuI RGATCY 2 cut(s) 679, 1111
RruI TCGCGA 1 cut(s) 225
RsaI GTAC 1 cut(s) 392
RsaNI GTAC 1 cut(s) 391
SacI GAGCTC 1 cut(s) 327
SacII CCGCGG 1 cut(s) 340
SaqAI TTAA 2 cut(s) 738, 1014
SatI GCNGC 3 cut(s) 275, 340, 1019
Sau3AI GATC 3 cut(s) 378, 679, 1111
Sau96I GGNCC 3 cut(s) 175, 598, 865
SchI GAGTC 2 cut(s) 19, 501
ScrFI CCNGG 2 cut(s) 602, 1024
SduI GDGCHC 1 cut(s) 327
SfaNI GCATC 3 cut(s) 222, 996, 1066
SfcI CTRYAG 1 cut(s) 562
SfoI GGCGCC 1 cut(s) 14
Sfr303I CCGCGG 1 cut(s) 340
SfuI TTCGAA 1 cut(s) 384
SgrBI CCGCGG 1 cut(s) 340
SinI GGWCC 3 cut(s) 175, 598, 865
Sse9I AATT 5 cut(s) 128, 665, 713, 820, 903
SsiI CCGC 7 cut(s) 161, 283, 292, 319, 337, 339, 535
SspDI GGCGCC 1 cut(s) 12
SstI GAGCTC 1 cut(s) 327
StyD4I CCNGG 2 cut(s) 600, 1022
TaiI ACGT 4 cut(s) 392, 878, 932, 1031
TaqI TCGA 6 cut(s) 207, 269, 297, 384, 800, 857
TasI AATT 5 cut(s) 128, 665, 713, 820, 903
TauI GCSGC 1 cut(s) 342
TfiI GAWTC 6 cut(s) 240, 423, 538, 580, 797, 1181
Tru1I TTAA 2 cut(s) 738, 1014
Tru9I TTAA 2 cut(s) 738, 1014
TscAI CASTG 1 cut(s) 566
TseFI GTSAC 1 cut(s) 217
TseI GCWGC 2 cut(s) 274, 1018
Tsp45I GTSAC 1 cut(s) 217
TspDTI ATGAA 3 cut(s) 424, 1067, 1173
TspGWI ACGGA 2 cut(s) 443, 531
TspRI CASTG 1 cut(s) 566
Van91I CCANNNNNTGG 1 cut(s) 961
VpaK11BI GGWCC 3 cut(s) 175, 598, 865
XapI RAATTY 4 cut(s) 128, 713, 820, 903
XmnI GAANNNNTTC 2 cut(s) 128, 591
Zsp2I ATGCAT 1 cut(s) 1081
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.