Rh5CG344600

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0010308
Physical Location & Seq
Reverse (-)
39715330 .. 39718061
2732 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG344600.1

Sequence Viewer

Length: 1566 bp
ATGGAACCAAAGCTGTTGCTTTCTTCAACCACAGCCTTACCAGCCACTTCCTTACCCTTTTTTCTTTCATACAAGTCTCCTTTTCATTTAACATCCAAACAGTCTGTGAAAACCCATCTCTCAATCTCAAGGACACAGCCAGAAAAATCAAACTTTTGGGGAAATAGTTTGGTTTTACCTGAGAGAGATGTTATTTTGGGTGATTTGAGACATGTCCCAGTTGGACCGATACGTGCTGCTGTGAAGAGAAGGAAAGAACTTCCTTTCGACAATGTGATCCAAAGGGATAAGAAGTTGAAGTTAGTTTTGAAGATTAGAAAAATTTTAGTGAGCCAGCCTGATAGAATTATGTCACTTAGGGAATTAGGTAGGTATAGAAGAGAACTGGGTCTGCAGAAAAAGAGGCGGTTTATTGCATTACTGAAGAAGTTCCCTGCTGTGTTTGAGATTGTTGAAGAAGGTGTATTTTCGTTGAAATTTAAATTAACGCCCGAAGCAGAAAGGCTTTATCTTGAAGAGTTGCAGGTTCGAAATGAGATGGAAGACTTGCTGGTCGTGAAGTTGAGGAAATTATTGATGATGTCATTGGATAAACGGATTTTGTTGGAGAAGATTGCTCATTTGAGGACCGATTTAGCGCTTCCTTTAGAATTTCGTGATACAATTTGTCTTCGATACCCACAGTATTTTAAAGTTGTTGCAACTGCGAGAGGTCCAGCATTAGAATTAACTCATTGGGATCCTGAGCTTGCTGTATCAGCTGCTGAGTTATCTGTAGAGGAAAATCGTGCTAGGGAATTAGAAGAGAAGGATTTGATTATAGATCGGCCTCTCAAGTTCAACAGACTAAAGTTACCAAGGGGTCTTAATCTTTCCAAGGGTGAGATGAGGAGAATCTGTCTGTTTAGAGACATCCCTTATATATCCCCTTACTCTGATTTCTCGGGGCTGAGGTCAGGTACAATTGAGAAAGAGAAACATGCTTGTGCAGTTGTCCATGAGATATTGAGCCTTACTGTGGAGAAGAAAACTCTTGTAGATCACCTTACTCATTTCCGCGAGGAGTTTAGGTTCTCTCAACAGGTCAGGGGAATGCTGATAAGGCACCCTGATATGTTTTATGTCTCGTTGAAAGGAGATAGGGATTCAGTTTTCCTTAGGGAAGCATATCGTGATTCTCAATTGATAGACAAGGATCGTCTGCTGATTATAAAAGAGAAGCTTCGATCTATTATTGCAGTTCCACGGTATCCTAGAAGGGGTGCTCCCAATAGAGAGGCAGATGGTGCTGAAGGAACCAATGAGGCACAAGATGGAACTGTTGATGAGGGAGAGGAATGGTCTGATACTGATAACTTTATGAGTGATGAAGATGATGATGATGATGATGGTGTAGATGATTGGAGTGATGAAGATGAAGATACGCCCCCAGATTTCAACGAAGATGGGAAAACATTAAACAATGAACCGAGCAAACCAATTAATCAAGAAGGCTATTTAACAGAGAATGATGAGAGGGTGCTTGTTCCAGTCTTGCCAGATGGTCGGCCAAGAGAGCGCTGGTAA

Protein Analysis

521

Amino Acids

60.45

Weight (kDa)

6.17

Isoelectric Point (pI)

43.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 85 - 412 3.1e-106 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1211
AasI GACNNNNNNGTC 1 cut(s) 551
Acc36I ACCTGC 1 cut(s) 514
AccB1I GGYRCC 1 cut(s) 1104
AccII CGCG 1 cut(s) 1059
AciI CCGC 2 cut(s) 406, 1057
AclWI GGATC 4 cut(s) 271, 734, 747, 1203
AcoI YGGCCR 1 cut(s) 1547
AcsI RAATTY 3 cut(s) 321, 476, 650
AcuI CTGAAG 2 cut(s) 443, 1311
AfaI GTAC 1 cut(s) 961
AfeI AGCGCT 2 cut(s) 639, 1559
AfiI CCNNNNNNNGG 2 cut(s) 1018, 1259
AflIII ACRYGT 1 cut(s) 211
AgsI TTSAA 9 cut(s) 27, 298, 310, 455, 475, 515, 841, 1132, 1438
AloI GAACNNNNNNTCC 2 cut(s) 1055, 1087
AluBI AGCT 4 cut(s) 13, 748, 761, 1222
AluI AGCT 4 cut(s) 13, 748, 761, 1222
Alw21I GWGCWC 1 cut(s) 1267
Alw26I GTCTC 4 cut(s) 81, 202, 903, 1129
AlwI GGATC 4 cut(s) 271, 734, 747, 1203
AlwNI CAGNNNCTG 1 cut(s) 764
Ama87I CYCGRG 1 cut(s) 943
Aor51HI AGCGCT 2 cut(s) 639, 1559
AoxI GGCC 2 cut(s) 827, 1547
ApeKI GCWGC 2 cut(s) 236, 761
ApoI RAATTY 3 cut(s) 321, 476, 650
AseI ATTAAT 1 cut(s) 1482
Asp700I GAANNNNTTC 1 cut(s) 428
AspLEI GCGC 2 cut(s) 640, 1560
AspS9I GGNCC 3 cut(s) 224, 627, 713
AsuHPI GGTGA 3 cut(s) 212, 893, 1034
AsuII TTCGAA 1 cut(s) 529
AvaI CYCGRG 1 cut(s) 943
AvaII GGWCC 3 cut(s) 224, 627, 713
AxyI CCTNAGG 1 cut(s) 1157
BamHI GGATCC 1 cut(s) 739
BanI GGYRCC 1 cut(s) 1104
BbsI GAAGAC 2 cut(s) 549, 662
Bbv12I GWGCWC 1 cut(s) 1267
BbvCI CCTCAGC 1 cut(s) 950
BbvI GCAGC 2 cut(s) 223, 748
BccI CCATC 7 cut(s) 123, 532, 1277, 1307, 1382, 1439, 1535
BciVI GTATCC 1 cut(s) 1260
BcoDI GTCTC 4 cut(s) 81, 202, 903, 1129
BfaI CTAG 2 cut(s) 792, 1254
BfmI CTRYAG 2 cut(s) 392, 774
BfoI RGCGCY 2 cut(s) 641, 1561
BfuAI ACCTGC 1 cut(s) 514
BfuI GTATCC 1 cut(s) 1260
BisI GCNGC 2 cut(s) 237, 762
BlsI GCNGC 2 cut(s) 238, 763
Bme18I GGWCC 3 cut(s) 224, 627, 713
BmeT110I CYCGRG 1 cut(s) 943
BmgT120I GGNCC 3 cut(s) 224, 627, 713
BmiI GGNNCC 4 cut(s) 6, 741, 1106, 1297
BmrI ACTGGG 2 cut(s) 212, 395
BmuI ACTGGG 2 cut(s) 212, 395
BpiI GAAGAC 2 cut(s) 549, 662
Bpu10I CCTNAGC 2 cut(s) 744, 950
Bpu14I TTCGAA 1 cut(s) 529
BpuEI CTTGAG 2 cut(s) 112, 818
BsaAI YACGTR 1 cut(s) 233
BsaJI CCNNGG 3 cut(s) 857, 876, 1244
BsaXI ACNNNNNCTCC 4 cut(s) 883, 913, 1055, 1085
Bsc4I CCNNNNNNNGG 2 cut(s) 1018, 1259
Bse1I ACTGG 3 cut(s) 218, 390, 1529
Bse21I CCTNAGG 1 cut(s) 1157
BseDI CCNNGG 3 cut(s) 857, 876, 1244
BseGI GGATG 2 cut(s) 92, 912
BseLI CCNNNNNNNGG 2 cut(s) 1018, 1259
BseMII CTCAG 4 cut(s) 171, 735, 756, 941
BseNI ACTGG 3 cut(s) 218, 390, 1529
BseRI GAGGAG 2 cut(s) 904, 1076
BseXI GCAGC 2 cut(s) 223, 748
BsgI GTGCAG 1 cut(s) 1008
Bsh1236I CGCG 1 cut(s) 1059
BshFI GGCC 2 cut(s) 829, 1549
BshNI GGYRCC 1 cut(s) 1104
BsiHKAI GWGCWC 1 cut(s) 1267
BsiHKCI CYCGRG 1 cut(s) 943
BslFI GGGAC 1 cut(s) 200
BslI CCNNNNNNNGG 2 cut(s) 1018, 1259
BsmAI GTCTC 4 cut(s) 81, 202, 903, 1129
BsmFI GGGAC 1 cut(s) 200
BsmI GAATGC 1 cut(s) 1098
BsnI GGCC 2 cut(s) 829, 1549
BsoBI CYCGRG 1 cut(s) 943
Bsp119I TTCGAA 1 cut(s) 529
Bsp1286I GDGCHC 1 cut(s) 1267
Bsp143I GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
BspACI CCGC 2 cut(s) 406, 1057
BspANI GGCC 2 cut(s) 829, 1549
BspCNI CTCAG 4 cut(s) 172, 736, 757, 942
BspFNI CGCG 1 cut(s) 1059
BspLI GGNNCC 4 cut(s) 6, 741, 1106, 1297
BspMAI CTGCAG 1 cut(s) 396
BspMI ACCTGC 1 cut(s) 514
BspPI GGATC 4 cut(s) 271, 734, 747, 1203
BspT104I TTCGAA 1 cut(s) 529
BspT107I GGYRCC 1 cut(s) 1104
BsrI ACTGG 3 cut(s) 218, 390, 1529
BssECI CCNNGG 3 cut(s) 857, 876, 1244
BssMI GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
BssT1I CCWWGG 2 cut(s) 857, 876
Bst4CI ACNGT 5 cut(s) 102, 684, 1018, 1248, 1321
Bst6I CTCTTC 4 cut(s) 239, 373, 510, 798
BstAPI GCANNNNNTGC 1 cut(s) 1286
BstBAI YACGTR 1 cut(s) 233
BstBI TTCGAA 1 cut(s) 529
BstC8I GCNNGC 2 cut(s) 335, 750
BstDEI CTNAG 6 cut(s) 180, 356, 744, 765, 950, 1157
BstDSI CCRYGG 1 cut(s) 1244
BstF5I GGATG 2 cut(s) 92, 912
BstFNI CGCG 1 cut(s) 1059
BstH2I RGCGCY 2 cut(s) 641, 1561
BstHHI GCGC 2 cut(s) 640, 1560
BstKTI GATC 6 cut(s) 279, 742, 826, 1042, 1198, 1229
BstMAI GTCTC 4 cut(s) 81, 202, 903, 1129
BstMBI GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
BstMWI GCNNNNNNNGC 5 cut(s) 41, 758, 1102, 1286, 1555
BstNSI RCATGY 2 cut(s) 215, 983
BstSFI CTRYAG 2 cut(s) 392, 774
BstUI CGCG 1 cut(s) 1059
BstV1I GCAGC 2 cut(s) 223, 748
BstV2I GAAGAC 2 cut(s) 549, 662
BstX2I RGATCY 1 cut(s) 739
BstYI RGATCY 1 cut(s) 739
Bsu36I CCTNAGG 1 cut(s) 1157
BsuI GTATCC 1 cut(s) 1260
BsuRI GGCC 2 cut(s) 829, 1549
BtgI CCRYGG 1 cut(s) 1244
BtsCI GGATG 2 cut(s) 92, 912
BveI ACCTGC 1 cut(s) 514
Cac8I GCNNGC 2 cut(s) 335, 750
CaiI CAGNNNCTG 1 cut(s) 764
CfoI GCGC 2 cut(s) 640, 1560
Cfr13I GGNCC 3 cut(s) 224, 627, 713
Csp6I GTAC 1 cut(s) 960
CviAII CATG 3 cut(s) 212, 980, 998
CviQI GTAC 1 cut(s) 960
DdeI CTNAG 6 cut(s) 180, 356, 744, 765, 950, 1157
DpnI GATC 6 cut(s) 278, 741, 825, 1041, 1197, 1228
DpnII GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
DraI TTTAAA 2 cut(s) 481, 691
DrdI GACNNNNNNGTC 1 cut(s) 551
DseDI GACNNNNNNGTC 1 cut(s) 551
EaeI YGGCCR 1 cut(s) 1547
Eam1104I CTCTTC 4 cut(s) 239, 373, 510, 798
EarI CTCTTC 4 cut(s) 239, 373, 510, 798
Eco130I CCWWGG 2 cut(s) 857, 876
Eco47I GGWCC 3 cut(s) 224, 627, 713
Eco47III AGCGCT 2 cut(s) 639, 1559
Eco57I CTGAAG 2 cut(s) 443, 1311
Eco81I CCTNAGG 1 cut(s) 1157
Eco88I CYCGRG 1 cut(s) 943
EcoT14I CCWWGG 2 cut(s) 857, 876
ErhI CCWWGG 2 cut(s) 857, 876
FaeI CATG 3 cut(s) 215, 983, 1001
FalI AAGNNNNNCTT 2 cut(s) 1206, 1238
FaqI GGGAC 1 cut(s) 200
FatI CATG 3 cut(s) 211, 979, 997
Fnu4HI GCNGC 2 cut(s) 237, 762
FokI GGATG 2 cut(s) 79, 899
Fsp4HI GCNGC 2 cut(s) 237, 762
FspBI CTAG 2 cut(s) 792, 1254
GlaI GCGC 2 cut(s) 639, 1559
GluI GCNGC 2 cut(s) 237, 762
HaeII RGCGCY 2 cut(s) 641, 1561
HaeIII GGCC 2 cut(s) 829, 1549
HhaI GCGC 2 cut(s) 640, 1560
Hin1II CATG 3 cut(s) 215, 983, 1001
Hin6I GCGC 2 cut(s) 638, 1558
HinP1I GCGC 2 cut(s) 638, 1558
HindIII AAGCTT 1 cut(s) 1220
HinfI GANTC 3 cut(s) 894, 1145, 1175
HphI GGTGA 3 cut(s) 212, 893, 1034
Hpy188I TCNGA 2 cut(s) 937, 1345
Hpy188III TCNNGA 6 cut(s) 512, 556, 656, 743, 1172, 1487
HpyAV CCTTC 6 cut(s) 243, 452, 802, 1251, 1286, 1484
HpyCH4III ACNGT 5 cut(s) 102, 684, 1018, 1248, 1321
HpyCH4IV ACGT 1 cut(s) 232
HpyCH4V TGCA 6 cut(s) 394, 416, 523, 701, 989, 1238
HpyF10VI GCNNNNNNNGC 5 cut(s) 41, 758, 1102, 1286, 1555
HpyF3I CTNAG 6 cut(s) 180, 356, 744, 765, 950, 1157
HpySE526I ACGT 1 cut(s) 232
Hsp92II CATG 3 cut(s) 215, 983, 1001
HspAI GCGC 2 cut(s) 638, 1558
Kzo9I GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
LmnI GCTCC 1 cut(s) 1270
Lsp1109I GCAGC 2 cut(s) 223, 748
MaeI CTAG 2 cut(s) 792, 1254
MaeII ACGT 1 cut(s) 232
MaeIII GTNAC 2 cut(s) 351, 852
MalI GATC 6 cut(s) 278, 741, 825, 1041, 1197, 1228
MboI GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
MfeI CAATTG 2 cut(s) 963, 1181
MflI RGATCY 1 cut(s) 739
MhlI GDGCHC 1 cut(s) 1267
MmeI TCCRAC 2 cut(s) 202, 585
MroXI GAANNNNTTC 1 cut(s) 428
MseI TTAA 9 cut(s) 89, 480, 485, 690, 728, 867, 1457, 1482, 1499
MslI CAYNNNNRTG 1 cut(s) 984
MspA1I CMGCKG 1 cut(s) 761
MunI CAATTG 2 cut(s) 963, 1181
Mva1269I GAATGC 1 cut(s) 1098
MvnI CGCG 1 cut(s) 1059
MwoI GCNNNNNNNGC 5 cut(s) 41, 758, 1102, 1286, 1555
NdeII GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
NlaIII CATG 3 cut(s) 215, 983, 1001
NlaIV GGNNCC 4 cut(s) 6, 741, 1106, 1297
NmuCI GTSAC 1 cut(s) 351
NspI RCATGY 2 cut(s) 215, 983
NspV TTCGAA 1 cut(s) 529
PciI ACATGT 1 cut(s) 211
PctI GAATGC 1 cut(s) 1098
PdmI GAANNNNTTC 1 cut(s) 428
PfeI GAWTC 3 cut(s) 894, 1145, 1175
PkrI GCNGC 2 cut(s) 238, 763
Ppu21I YACGTR 1 cut(s) 233
PscI ACATGT 1 cut(s) 211
PshBI ATTAAT 1 cut(s) 1482
PsiI TTATAA 1 cut(s) 1211
PspN4I GGNNCC 4 cut(s) 6, 741, 1106, 1297
PspPI GGNCC 3 cut(s) 224, 627, 713
PstI CTGCAG 1 cut(s) 396
PstNI CAGNNNCTG 1 cut(s) 764
PsuI RGATCY 1 cut(s) 739
PvuII CAGCTG 1 cut(s) 761
RsaI GTAC 1 cut(s) 961
RsaNI GTAC 1 cut(s) 960
RseI CAYNNNNRTG 1 cut(s) 984
SaqAI TTAA 9 cut(s) 89, 480, 485, 690, 728, 867, 1457, 1482, 1499
SatI GCNGC 2 cut(s) 237, 762
Sau3AI GATC 6 cut(s) 276, 739, 823, 1039, 1195, 1226
Sau96I GGNCC 3 cut(s) 224, 627, 713
SduI GDGCHC 1 cut(s) 1267
SfcI CTRYAG 2 cut(s) 392, 774
SfuI TTCGAA 1 cut(s) 529
SinI GGWCC 3 cut(s) 224, 627, 713
SmiI ATTTAAAT 1 cut(s) 481
SmiMI CAYNNNNRTG 1 cut(s) 984
SmlI CTYRAG 2 cut(s) 127, 833
SmoI CTYRAG 2 cut(s) 127, 833
SsiI CCGC 2 cut(s) 406, 1057
SspMI CTAG 2 cut(s) 792, 1254
StyI CCWWGG 2 cut(s) 857, 876
SwaI ATTTAAAT 1 cut(s) 481
TaaI ACNGT 5 cut(s) 102, 684, 1018, 1248, 1321
TaiI ACGT 1 cut(s) 235
TaqI TCGA 4 cut(s) 267, 529, 673, 1225
TaqII GACCGA 2 cut(s) 241, 644
TfiI GAWTC 3 cut(s) 894, 1145, 1175
Tru1I TTAA 9 cut(s) 89, 480, 485, 690, 728, 867, 1457, 1482, 1499
Tru9I TTAA 9 cut(s) 89, 480, 485, 690, 728, 867, 1457, 1482, 1499
TseFI GTSAC 1 cut(s) 351
TseI GCWGC 2 cut(s) 236, 761
Tsp45I GTSAC 1 cut(s) 351
TspDTI ATGAA 6 cut(s) 57, 74, 1383, 1425, 1431, 1479
TspGWI ACGGA 1 cut(s) 610
VpaK11BI GGWCC 3 cut(s) 224, 627, 713
VspI ATTAAT 1 cut(s) 1482
XapI RAATTY 3 cut(s) 321, 476, 650
XceI RCATGY 2 cut(s) 215, 983
XcmI CCANNNNNNNNNTGG 1 cut(s) 1557
XmnI GAANNNNTTC 1 cut(s) 428
XspI CTAG 2 cut(s) 792, 1254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.