Rorug04G0087200

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0011284
Physical Location & Seq
Reverse (-)
13505137 .. 13513414
8278 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0087200.1

Sequence Viewer

Length: 1635 bp
ATGAAAAACTTTGCTTGTTTTGGCAAGAAATTGCACCATCTTTGTAGTTGTTCATTTCTCAAACTAGCATTTCTTAGCCAATCCATGGGATTTCTACTTCTATGCTATTATCGATTCCTCCTCCTTAGAGCTAAGCAATTCTGGGTGGAACTCGTTTATTTTGTCACCCTTTCCTTTTTGGGTTACTGGGTTCTGAAGGTATTGCCAGTTAGAACCACCGACTCTTTTACCCCTAGAAACTTAGATTTGTTCTTCACCTCAGTTTCTGCCACAACCGTTTCGAGCATGTCCACGGTTGAAATGGAGGTCTTCTCCAATGGCCAGCTCATCGTAATGACCATCCTAATGTTCATAGGTGGGGAGGTCTTCACCTCCATGGTTGGACTTCATTTCAAGAAGTTCAAGCTCATGATGATGATGAGCAGAACAGAGAAGACTGCTTTAGTTAACAGCGATGTTAGCTCCTTATCAAGTCCCGCAAAGGCGATTGATGAGAATATTGAATTGGGTCTGGCAATCGAGCCCGAATTTTCTCATGACCAAATTGACAAAATTCCAGCAGTAGATGATCAATCCTTGACACTTCACAATTCCATTAAGCTTTTGGGTTACGTTGTTTTAGCTTATCTTCTAGTGGTTCATTTCCTTGGGGTGGCTATGGTGTTGGTTTATCTAGAATTTACTTCAAGTGCAAGAAACGTAGTAAAGAACAAGGGGCTAAATGTTCATACATTCTCACTTTTCACCACAGTTTCAACTTTCTCGAGCTGTGGTTTTGTTCCCACCAATGAAAACATGATTGTCTTTAGCAAAAACTCAGGTCTCCTCCTAATACTCATTCCTCAAGTCCTTCTTGGGAACACATTGTATCCATCTTGCTTGAGATTTTCAATTTGGCTTTTGGGGAAAAGTTTCAAAAAGCTAAGAGATTCTTGCAATTACCTGTTGAAGAACACAGAGGAGGTTGGATACCTACACTTGCTTCCTAGTCTGCACTCATCACTCTTGGTCGTTACAGTTTTTGGCTTCATCCTGGTACAACTTGTACCTTTTGCCTCCATGGAGTGGAGTTCAGAAAGCTTAAGTGGACTTAATTCTTACCAGAAAATCATTGGATCTTTTTTCCAAACCGTCAATTCAAGACATACCGGTGAAACCATCATCGACCTCTCCATTATTTCTCCCGCAATCCTGGTATTATTCATCGTGATGATGTACCTTCCTCCTTACACTTCGTTCCTGCCCGCTAAAAAAAATCTACAACCTCATAATCAGAGGAGGAAAAAGAGAAGAGGAAAGCTCATGGAGAATCTCATATTCTCACAGCTCTCCTATTTGACCATCTTTATCATCTTAGTCTGCATAACTGAGAGGAAAAGCTTGAAAGAAGATCCTCTCAATTTCAATGTGCTCAATATCGTGCTAGAAGTCATCAGTGCTTATGGAAATGTAGGGTTTACGACTGGCTATAGTTGTAAACGACAGCTCAACCCTAATGGCGATTGTCAGGATAAATGGTATGGATTTTCAGGAAGATGGAGCGACGAGGGGAAAATAGTTCTCATAGCTGTCATGTTCTTCGGAAGACTCAAGAAATTCAACATGGATGGAGGTAAAGGATGGAAACTCCTCTAA
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

544

Amino Acids

61.5

Weight (kDa)

9.28

Isoelectric Point (pI)

35.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TrkH PF02386 196 - 531 9.3e-28 Cation transport protein
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 85, 1065
AciI CCGC 3 cut(s) 477, 1185, 1245
AclWI GGATC 2 cut(s) 1123, 1385
AcoI YGGCCR 1 cut(s) 319
AcsI RAATTY 4 cut(s) 527, 552, 677, 1595
AcuI CTGAAG 1 cut(s) 215
AfaI GTAC 3 cut(s) 1038, 1047, 1217
AfiI CCNNNNNNNGG 3 cut(s) 85, 652, 1065
AflII CTTAAG 1 cut(s) 1081
AgeI ACCGGT 1 cut(s) 1148
AjnI CCWGG 2 cut(s) 1032, 1191
AjuI GAANNNNNNNTTGG 2 cut(s) 488, 520
Alw21I GWGCWC 1 cut(s) 1413
Alw26I GTCTC 1 cut(s) 827
AlwI GGATC 2 cut(s) 1123, 1385
AlwNI CAGNNNCTG 1 cut(s) 266
Ama87I CYCGRG 1 cut(s) 763
AoxI GGCC 1 cut(s) 319
ApoI RAATTY 4 cut(s) 527, 552, 677, 1595
AsiGI ACCGGT 1 cut(s) 1148
Asp700I GAANNNNTTC 1 cut(s) 911
AsuHPI GGTGA 5 cut(s) 157, 247, 361, 736, 1163
AvaI CYCGRG 1 cut(s) 763
BalI TGGCCA 1 cut(s) 321
BanII GRGCYC 1 cut(s) 525
BbsI GAAGAC 4 cut(s) 301, 358, 440, 1591
Bbv12I GWGCWC 1 cut(s) 1413
BccI CCATC 8 cut(s) 45, 347, 880, 1166, 1349, 1530, 1601, 1614
BciT130I CCWGG 2 cut(s) 1034, 1193
BciVI GTATCC 2 cut(s) 879, 962
BclI TGATCA 1 cut(s) 568
BcoDI GTCTC 1 cut(s) 827
BfaI CTAG 6 cut(s) 65, 234, 632, 674, 987, 1424
BfmI CTRYAG 1 cut(s) 1468
BfrI CTTAAG 1 cut(s) 1081
BfuI GTATCC 2 cut(s) 879, 962
BlpI GCTNAGC 1 cut(s) 132
Bme1390I CCNGG 2 cut(s) 1034, 1193
BmeT110I CYCGRG 1 cut(s) 763
BmrFI CCNGG 2 cut(s) 1034, 1193
BmrI ACTGGG 1 cut(s) 196
BmuI ACTGGG 1 cut(s) 196
BpiI GAAGAC 4 cut(s) 301, 358, 440, 1591
BplI GAGNNNNNCTC 4 cut(s) 296, 328, 1284, 1316
Bpu1102I GCTNAGC 1 cut(s) 132
BpuEI CTTGAG 3 cut(s) 828, 901, 1574
Bsa29I ATCGAT 1 cut(s) 112
BsaI GGTCTC 1 cut(s) 827
BsaJI CCNNGG 5 cut(s) 84, 291, 375, 646, 1059
BsaWI WCCGGW 1 cut(s) 1148
Bsc4I CCNNNNNNNGG 3 cut(s) 85, 652, 1065
Bse118I RCCGGY 1 cut(s) 1148
Bse1I ACTGG 3 cut(s) 191, 206, 1468
BseBI CCWGG 2 cut(s) 1034, 1193
BseCI ATCGAT 1 cut(s) 112
BseDI CCNNGG 5 cut(s) 84, 291, 375, 646, 1059
BseGI GGATG 4 cut(s) 339, 1029, 1612, 1625
BseLI CCNNNNNNNGG 3 cut(s) 85, 652, 1065
BseMII CTCAG 3 cut(s) 273, 831, 1359
BseNI ACTGG 3 cut(s) 191, 206, 1468
BseRI GAGGAG 5 cut(s) 110, 815, 974, 1291, 1619
BsgI GTGCAG 1 cut(s) 977
BshFI GGCC 1 cut(s) 321
BshTI ACCGGT 1 cut(s) 1148
BshVI ATCGAT 1 cut(s) 112
BsiHKAI GWGCWC 1 cut(s) 1413
BsiHKCI CYCGRG 1 cut(s) 763
BsiSI CCGG 1 cut(s) 1149
BslFI GGGAC 1 cut(s) 459
BslI CCNNNNNNNGG 3 cut(s) 85, 652, 1065
BsmAI GTCTC 1 cut(s) 827
BsmFI GGGAC 1 cut(s) 459
BsnI GGCC 1 cut(s) 321
Bso31I GGTCTC 1 cut(s) 827
BsoBI CYCGRG 1 cut(s) 763
Bsp1286I GDGCHC 2 cut(s) 525, 1413
Bsp143I GATC 3 cut(s) 568, 1115, 1390
Bsp1720I GCTNAGC 1 cut(s) 132
Bsp19I CCATGG 3 cut(s) 84, 375, 1059
BspACI CCGC 3 cut(s) 477, 1185, 1245
BspANI GGCC 1 cut(s) 321
BspCNI CTCAG 3 cut(s) 272, 830, 1360
BspDI ATCGAT 1 cut(s) 112
BspHI TCATGA 2 cut(s) 408, 535
BspPI GGATC 2 cut(s) 1123, 1385
BspTI CTTAAG 1 cut(s) 1081
BspTNI GGTCTC 1 cut(s) 827
BsrFI RCCGGY 1 cut(s) 1148
BsrI ACTGG 3 cut(s) 191, 206, 1468
BssAI RCCGGY 1 cut(s) 1148
BssECI CCNNGG 5 cut(s) 84, 291, 375, 646, 1059
BssMI GATC 3 cut(s) 568, 1115, 1390
BssT1I CCWWGG 4 cut(s) 84, 375, 646, 1059
Bst2UI CCWGG 2 cut(s) 1034, 1193
Bst4CI ACNGT 5 cut(s) 277, 295, 751, 1018, 1132
Bst6I CTCTTC 1 cut(s) 1285
BstAFI CTTAAG 1 cut(s) 1081
BstC8I GCNNGC 2 cut(s) 323, 1245
BstDEI CTNAG 9 cut(s) 74, 125, 132, 241, 259, 817, 923, 1354, 1368
BstDSI CCRYGG 4 cut(s) 84, 291, 375, 1059
BstF5I GGATG 4 cut(s) 339, 1029, 1612, 1625
BstKTI GATC 3 cut(s) 571, 1118, 1393
BstMAI GTCTC 1 cut(s) 827
BstMBI GATC 3 cut(s) 568, 1115, 1390
BstMWI GCNNNNNNNGC 1 cut(s) 459
BstNI CCWGG 2 cut(s) 1034, 1193
BstNSI RCATGY 1 cut(s) 289
BstSCI CCNGG 2 cut(s) 1032, 1191
BstSFI CTRYAG 1 cut(s) 1468
BstV2I GAAGAC 4 cut(s) 301, 358, 440, 1591
BstX2I RGATCY 2 cut(s) 1115, 1390
BstYI RGATCY 2 cut(s) 1115, 1390
Bsu15I ATCGAT 1 cut(s) 112
BsuI GTATCC 2 cut(s) 879, 962
BsuRI GGCC 1 cut(s) 321
BsuTUI ATCGAT 1 cut(s) 112
BtgI CCRYGG 4 cut(s) 84, 291, 375, 1059
BtgZI GCGATG 1 cut(s) 468
BtsCI GGATG 4 cut(s) 339, 1029, 1612, 1625
BtsIMutI CAGTG 1 cut(s) 1441
Cac8I GCNNGC 2 cut(s) 323, 1245
CaiI CAGNNNCTG 1 cut(s) 266
CciI TCATGA 2 cut(s) 408, 535
Cfr10I RCCGGY 1 cut(s) 1148
ClaI ATCGAT 1 cut(s) 112
Csp6I GTAC 3 cut(s) 1037, 1046, 1216
CspAI ACCGGT 1 cut(s) 1148
CviQI GTAC 3 cut(s) 1037, 1046, 1216
DdeI CTNAG 9 cut(s) 74, 125, 132, 241, 259, 817, 923, 1354, 1368
DpnI GATC 3 cut(s) 570, 1117, 1392
DpnII GATC 3 cut(s) 568, 1115, 1390
EaeI YGGCCR 1 cut(s) 319
Eam1104I CTCTTC 1 cut(s) 1285
EarI CTCTTC 1 cut(s) 1285
Eco130I CCWWGG 4 cut(s) 84, 375, 646, 1059
Eco24I GRGCYC 1 cut(s) 525
Eco31I GGTCTC 1 cut(s) 827
Eco57I CTGAAG 1 cut(s) 215
Eco88I CYCGRG 1 cut(s) 763
EcoRII CCWGG 2 cut(s) 1032, 1191
EcoT14I CCWWGG 4 cut(s) 84, 375, 646, 1059
EcoT38I GRGCYC 1 cut(s) 525
ErhI CCWWGG 4 cut(s) 84, 375, 646, 1059
FalI AAGNNNNNCTT 4 cut(s) 837, 869, 916, 948
FaqI GGGAC 1 cut(s) 459
FauI CCCGC 3 cut(s) 484, 1192, 1252
FbaI TGATCA 1 cut(s) 568
FokI GGATG 3 cut(s) 326, 1016, 1619
FriOI GRGCYC 1 cut(s) 525
FspBI CTAG 6 cut(s) 65, 234, 632, 674, 987, 1424
HaeIII GGCC 1 cut(s) 321
HapII CCGG 1 cut(s) 1149
HincII GTYRAC 1 cut(s) 448
HindII GTYRAC 1 cut(s) 448
HindIII AAGCTT 3 cut(s) 599, 1078, 1378
HinfI GANTC 5 cut(s) 114, 221, 929, 1309, 1587
HpaI GTTAAC 1 cut(s) 448
HpaII CCGG 1 cut(s) 1149
HphI GGTGA 5 cut(s) 157, 247, 361, 736, 1163
Hpy166II GTNNAC 5 cut(s) 291, 448, 1088, 1458, 1478
Hpy188I TCNGA 4 cut(s) 195, 1075, 1275, 1583
Hpy8I GTNNAC 5 cut(s) 291, 448, 1088, 1458, 1478
Hpy99I CGWCG 1 cut(s) 1547
HpyAV CCTTC 3 cut(s) 190, 860, 1229
HpyCH4III ACNGT 5 cut(s) 277, 295, 751, 1018, 1132
HpyCH4IV ACGT 2 cut(s) 612, 699
HpyCH4V TGCA 5 cut(s) 34, 692, 936, 994, 1362
HpyF10VI GCNNNNNNNGC 1 cut(s) 459
HpyF3I CTNAG 9 cut(s) 74, 125, 132, 241, 259, 817, 923, 1354, 1368
HpySE526I ACGT 2 cut(s) 612, 699
Ksp22I TGATCA 1 cut(s) 568
KspAI GTTAAC 1 cut(s) 448
Kzo9I GATC 3 cut(s) 568, 1115, 1390
LmnI GCTCC 2 cut(s) 467, 1539
MaeI CTAG 6 cut(s) 65, 234, 632, 674, 987, 1424
MaeII ACGT 2 cut(s) 612, 699
MaeIII GTNAC 4 cut(s) 163, 182, 608, 1012
MalI GATC 3 cut(s) 570, 1117, 1392
MboI GATC 3 cut(s) 568, 1115, 1390
MflI RGATCY 2 cut(s) 1115, 1390
MhlI GDGCHC 2 cut(s) 525, 1413
MlsI TGGCCA 1 cut(s) 321
MluNI TGGCCA 1 cut(s) 321
MlyI GAGTC 2 cut(s) 215, 1581
MmeI TCCRAC 2 cut(s) 361, 946
Mox20I TGGCCA 1 cut(s) 321
MroXI GAANNNNTTC 1 cut(s) 911
MscI TGGCCA 1 cut(s) 321
MseI TTAA 4 cut(s) 447, 597, 1082, 1092
MslI CAYNNNNRTG 6 cut(s) 332, 344, 374, 413, 1149, 1208
Msp20I TGGCCA 1 cut(s) 321
MspCI CTTAAG 1 cut(s) 1081
MspI CCGG 1 cut(s) 1149
MspR9I CCNGG 2 cut(s) 1034, 1193
MvaI CCWGG 2 cut(s) 1034, 1193
MwoI GCNNNNNNNGC 1 cut(s) 459
NcoI CCATGG 3 cut(s) 84, 375, 1059
NdeII GATC 3 cut(s) 568, 1115, 1390
NmuCI GTSAC 1 cut(s) 163
NspI RCATGY 1 cut(s) 289
PaeR7I CTCGAG 1 cut(s) 763
PagI TCATGA 2 cut(s) 408, 535
PdmI GAANNNNTTC 1 cut(s) 911
PfeI GAWTC 3 cut(s) 114, 929, 1309
PflMI CCANNNNNTGG 2 cut(s) 85, 1065
PinAI ACCGGT 1 cut(s) 1148
PleI GAGTC 2 cut(s) 215, 1581
PpsI GAGTC 2 cut(s) 215, 1581
Psp6I CCWGG 2 cut(s) 1032, 1191
PspGI CCWGG 2 cut(s) 1032, 1191
PstNI CAGNNNCTG 1 cut(s) 266
PsuI RGATCY 2 cut(s) 1115, 1390
RsaI GTAC 3 cut(s) 1038, 1047, 1217
RsaNI GTAC 3 cut(s) 1037, 1046, 1216
RseI CAYNNNNRTG 6 cut(s) 332, 344, 374, 413, 1149, 1208
SaqAI TTAA 4 cut(s) 447, 597, 1082, 1092
Sau3AI GATC 3 cut(s) 568, 1115, 1390
SchI GAGTC 2 cut(s) 215, 1581
ScrFI CCNGG 2 cut(s) 1034, 1193
SduI GDGCHC 2 cut(s) 525, 1413
SfcI CTRYAG 1 cut(s) 1468
Sfr274I CTCGAG 1 cut(s) 763
SlaI CTCGAG 1 cut(s) 763
SmiMI CAYNNNNRTG 6 cut(s) 332, 344, 374, 413, 1149, 1208
SmlI CTYRAG 5 cut(s) 763, 843, 880, 1081, 1589
SmoI CTYRAG 5 cut(s) 763, 843, 880, 1081, 1589
SsiI CCGC 3 cut(s) 477, 1185, 1245
SspI AATATT 1 cut(s) 499
SspMI CTAG 6 cut(s) 65, 234, 632, 674, 987, 1424
StyD4I CCNGG 2 cut(s) 1032, 1191
StyI CCWWGG 4 cut(s) 84, 375, 646, 1059
TaaI ACNGT 5 cut(s) 277, 295, 751, 1018, 1132
TaiI ACGT 2 cut(s) 615, 702
TaqI TCGA 5 cut(s) 112, 281, 519, 764, 1164
TfiI GAWTC 3 cut(s) 114, 929, 1309
Tru1I TTAA 4 cut(s) 447, 597, 1082, 1092
Tru9I TTAA 4 cut(s) 447, 597, 1082, 1092
TscAI CASTG 1 cut(s) 1441
TseFI GTSAC 1 cut(s) 163
Tsp45I GTSAC 1 cut(s) 163
TspDTI ATGAA 9 cut(s) 17, 42, 340, 377, 629, 716, 804, 1018, 1192
TspRI CASTG 1 cut(s) 1441
Van91I CCANNNNNTGG 2 cut(s) 85, 1065
Vha464I CTTAAG 1 cut(s) 1081
XapI RAATTY 4 cut(s) 527, 552, 677, 1595
XbaI TCTAGA 1 cut(s) 673
XceI RCATGY 1 cut(s) 289
XcmI CCANNNNNNNNNTGG 3 cut(s) 298, 601, 1109
XhoI CTCGAG 1 cut(s) 763
XmnI GAANNNNTTC 1 cut(s) 911
XspI CTAG 6 cut(s) 65, 234, 632, 674, 987, 1424
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.