Rh4DG144600

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0011284
Physical Location & Seq
Forward (+)
28749262 .. 28751804
2543 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG144600.1

Sequence Viewer

Length: 1278 bp
ATGGTCCTGTACATGCTATTCGGTAAGGTTGGGGTTGGCTTCATCCGTGGAACACAAGTATTTAATTACCAGCACAAGCGTACTCTGGTGAATATTAGATTGAAATGGGTTAAAGATAGGGCACTGGATGCTGTTGTGACTGCTGAGAGGGATCTCAAAGCCGCCTGTGTTCTTGTTTCCATTATCTCCTCCTCGTCTGATGGCTGCCTTCCCATATACCATCTCACTTGTCATCGTGGACAACTCGATCTTCCTTATGACCTCAAGGTCTCTACTTTTATCAGGAGATACCCATCTGTTTTTCTAGAGTCCCATGTTCTTGATAGTGGTGGCACTCGTGTCCCATGTTTTAGCTTAACTCCTGAAGCCATAAAACTCCGCCAGGAAGAGTCCAATGTCGTCCAGCAGAATCAGAGTGATATCCTTAATAGGCTTCAGAAACTGCTCATGCTCACTAGGGGCTGGAAGCTTCCTTTACAAACCATTGACCAGCTGAAATGGGACCTAGGTTTGCCATATGATTACCAGCATTCAGTAATTCCACATCACCCTGATCTATTCTCTTTCATCAGCTTACCTGATGACCGTGTTGGCTTAAAGCTCTTATCCTGGGATGATGACCTTGCTGTCTCCCAGTTGCAAAAGAATTCTGCTATACAACAAGAGGAAGAAGTTGTGAGAAATGGCTGTTTAGCTTTTCCAATTGGATTTACTAGGGGTTTTGGATTGAAGAGAAAATGCATGGAGTGGTTGAAAGAGTGGCAAAGCCTCCCTTATAATTCTCCATACTGTGATGCCTCCCATTTAGATCCTCGTACAGATGAATCGGAGAAGAGGATTGTTGGAGTCTTCCATGAGCTTCTTCATCTCACTATGCAAAAGAAAACTGAACGTAAGAATGTGAGCAACCTTCGTAAACCTTTGGCCCTACCCCAGAAGTTCACTAAAGTGTTTGAGCGTCATCCAGGTATTTTCTACATTTCAAAAAAATGTGCCACTCAAACTGTCATTCTGAGGGAAGCCTATGATCGTCAACAACTCTTGCAGAAACACCCTATTGCAGAACTGAGAGAAAAATTTGCGATACTGTTGAGGAAAGGTTTGCTGGATAGGAGCAAAGGTCTATACAAGAAAAGTCCAGGCGATGTATTTGAAGTGGATCCATCAAAAAATATCGTTGTTGATAATATCAGTGATTACCGATCCAGCTTTAAAGAGGATTCGGAGAATGATTTGCTTTATGAGTATGACTCAGATGAACAATACGACCCTTGCTGA
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

425

Amino Acids

49.14

Weight (kDa)

8.56

Isoelectric Point (pI)

46.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 37 - 367 4.5e-120 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 777
AasI GACNNNNNNGTC 2 cut(s) 266, 626
AciI CCGC 2 cut(s) 162, 379
AclWI GGATC 5 cut(s) 159, 803, 1154, 1167, 1197
AcsI RAATTY 2 cut(s) 646, 1076
AcuI CTGAAG 2 cut(s) 384, 419
AfaI GTAC 3 cut(s) 11, 82, 817
AgsI TTSAA 5 cut(s) 103, 730, 754, 984, 1154
AjnI CCWGG 4 cut(s) 381, 608, 964, 1138
AleI CACNNNNGTG 1 cut(s) 947
AluBI AGCT 8 cut(s) 354, 469, 493, 573, 601, 695, 859, 1209
AluI AGCT 8 cut(s) 354, 469, 493, 573, 601, 695, 859, 1209
Alw26I GTCTC 2 cut(s) 274, 634
AlwI GGATC 5 cut(s) 159, 803, 1154, 1167, 1197
AlwNI CAGNNNCTG 1 cut(s) 442
AoxI GGCC 1 cut(s) 924
ApeKI GCWGC 1 cut(s) 204
ApoI RAATTY 2 cut(s) 646, 1076
AspA2I CCTAGG 1 cut(s) 505
AspS9I GGNCC 3 cut(s) 4, 502, 925
AsuHPI GGTGA 2 cut(s) 100, 539
AvaII GGWCC 2 cut(s) 4, 502
AvrII CCTAGG 1 cut(s) 505
BaeGI GKGCMC 1 cut(s) 124
BamHI GGATCC 1 cut(s) 1159
BauI CACGAG 1 cut(s) 336
BbsI GAAGAC 1 cut(s) 841
BbvI GCAGC 1 cut(s) 191
BccI CCATC 4 cut(s) 194, 228, 301, 1171
BciT130I CCWGG 4 cut(s) 383, 610, 966, 1140
BcoDI GTCTC 2 cut(s) 274, 634
BfaI CTAG 4 cut(s) 305, 456, 506, 714
BisI GCNGC 2 cut(s) 162, 205
BlnI CCTAGG 1 cut(s) 505
BlsI GCNGC 2 cut(s) 163, 206
Bme1390I CCNGG 4 cut(s) 383, 610, 966, 1140
Bme18I GGWCC 2 cut(s) 4, 502
BmgT120I GGNCC 3 cut(s) 4, 502, 925
BmiI GGNNCC 2 cut(s) 503, 1161
BmrFI CCNGG 4 cut(s) 383, 610, 966, 1140
BmrI ACTGGG 1 cut(s) 628
BmsI GCATC 2 cut(s) 118, 784
BmuI ACTGGG 1 cut(s) 628
BpiI GAAGAC 1 cut(s) 841
BplI GAGNNNNNCTC 2 cut(s) 1235, 1267
BpuEI CTTGAG 1 cut(s) 248
BsaBI GATNNNNATC 1 cut(s) 292
BsaI GGTCTC 1 cut(s) 274
BsaJI CCNNGG 3 cut(s) 46, 505, 609
BsaXI ACNNNNNCTCC 2 cut(s) 1105, 1135
Bse1I ACTGG 2 cut(s) 129, 634
Bse8I GATNNNNATC 1 cut(s) 292
BseBI CCWGG 4 cut(s) 383, 610, 966, 1140
BseDI CCNNGG 3 cut(s) 46, 505, 609
BseGI GGATG 4 cut(s) 42, 133, 619, 961
BseJI GATNNNNATC 1 cut(s) 292
BseMII CTCAG 4 cut(s) 135, 1004, 1058, 1266
BseNI ACTGG 2 cut(s) 129, 634
BseRI GAGGAG 2 cut(s) 178, 181
BseSI GKGCMC 1 cut(s) 124
BseXI GCAGC 1 cut(s) 191
BshFI GGCC 1 cut(s) 926
BslFI GGGAC 3 cut(s) 295, 326, 515
BsmAI GTCTC 2 cut(s) 274, 634
BsmFI GGGAC 3 cut(s) 295, 326, 515
BsmI GAATGC 1 cut(s) 529
BsnI GGCC 1 cut(s) 926
Bso31I GGTCTC 1 cut(s) 274
Bsp1286I GDGCHC 1 cut(s) 124
Bsp1407I TGTACA 1 cut(s) 9
Bsp143I GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
BspACI CCGC 2 cut(s) 162, 379
BspANI GGCC 1 cut(s) 926
BspCNI CTCAG 4 cut(s) 136, 1005, 1059, 1265
BspLI GGNNCC 2 cut(s) 503, 1161
BspPI GGATC 5 cut(s) 159, 803, 1154, 1167, 1197
BspTNI GGTCTC 1 cut(s) 274
BsrGI TGTACA 1 cut(s) 9
BsrI ACTGG 2 cut(s) 129, 634
BssECI CCNNGG 3 cut(s) 46, 505, 609
BssMI GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
BssSI CACGAG 1 cut(s) 336
BssT1I CCWWGG 1 cut(s) 505
Bst2BI CACGAG 1 cut(s) 336
Bst2UI CCWGG 4 cut(s) 383, 610, 966, 1140
Bst4CI ACNGT 4 cut(s) 587, 791, 1006, 1089
Bst6I CTCTTC 3 cut(s) 381, 725, 827
BstAPI GCANNNNNTGC 1 cut(s) 128
BstAUI TGTACA 1 cut(s) 9
BstDEI CTNAG 4 cut(s) 144, 1013, 1067, 1252
BstDSI CCRYGG 1 cut(s) 46
BstF5I GGATG 4 cut(s) 42, 133, 619, 961
BstKTI GATC 7 cut(s) 154, 250, 556, 811, 1030, 1162, 1205
BstMAI GTCTC 2 cut(s) 274, 634
BstMBI GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
BstMWI GCNNNNNNNGC 1 cut(s) 128
BstNI CCWGG 4 cut(s) 383, 610, 966, 1140
BstNSI RCATGY 1 cut(s) 16
BstSCI CCNGG 4 cut(s) 381, 608, 964, 1138
BstSLI GKGCMC 1 cut(s) 124
BstV1I GCAGC 1 cut(s) 191
BstV2I GAAGAC 1 cut(s) 841
BstX2I RGATCY 3 cut(s) 151, 808, 1159
BstYI RGATCY 3 cut(s) 151, 808, 1159
BsuRI GGCC 1 cut(s) 926
BtgI CCRYGG 1 cut(s) 46
BtgZI GCGATG 1 cut(s) 1158
BtsCI GGATG 4 cut(s) 42, 133, 619, 961
BtsIMutI CAGTG 2 cut(s) 122, 1198
CaiI CAGNNNCTG 1 cut(s) 442
Cfr13I GGNCC 3 cut(s) 4, 502, 925
CseI GACGC 1 cut(s) 947
Csp6I GTAC 3 cut(s) 10, 81, 816
CviAII CATG 6 cut(s) 13, 314, 345, 448, 742, 854
CviQI GTAC 3 cut(s) 10, 81, 816
DdeI CTNAG 4 cut(s) 144, 1013, 1067, 1252
DpnI GATC 7 cut(s) 153, 249, 555, 810, 1029, 1161, 1204
DpnII GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
DraI TTTAAA 1 cut(s) 1213
DrdI GACNNNNNNGTC 2 cut(s) 266, 626
DseDI GACNNNNNNGTC 2 cut(s) 266, 626
Eam1104I CTCTTC 3 cut(s) 381, 725, 827
EarI CTCTTC 3 cut(s) 381, 725, 827
EciI GGCGGA 1 cut(s) 368
Eco130I CCWWGG 1 cut(s) 505
Eco31I GGTCTC 1 cut(s) 274
Eco32I GATATC 1 cut(s) 421
Eco47I GGWCC 2 cut(s) 4, 502
Eco57I CTGAAG 2 cut(s) 384, 419
EcoO109I RGGNCCY 1 cut(s) 502
EcoRI GAATTC 1 cut(s) 646
EcoRII CCWGG 4 cut(s) 381, 608, 964, 1138
EcoRV GATATC 1 cut(s) 421
EcoT14I CCWWGG 1 cut(s) 505
EcoT22I ATGCAT 1 cut(s) 743
ErhI CCWWGG 1 cut(s) 505
FaeI CATG 6 cut(s) 16, 317, 348, 451, 745, 857
FalI AAGNNNNNCTT 2 cut(s) 757, 789
FaqI GGGAC 3 cut(s) 295, 326, 515
FatI CATG 6 cut(s) 12, 313, 344, 447, 741, 853
FauNDI CATATG 1 cut(s) 517
Fnu4HI GCNGC 2 cut(s) 162, 205
FokI GGATG 4 cut(s) 29, 140, 626, 948
Fsp4HI GCNGC 2 cut(s) 162, 205
FspBI CTAG 4 cut(s) 305, 456, 506, 714
GluI GCNGC 2 cut(s) 162, 205
HaeIII GGCC 1 cut(s) 926
HgaI GACGC 1 cut(s) 947
Hin1II CATG 6 cut(s) 16, 317, 348, 451, 745, 857
HincII GTYRAC 1 cut(s) 1034
HindII GTYRAC 1 cut(s) 1034
HindIII AAGCTT 1 cut(s) 467
HinfI GANTC 7 cut(s) 308, 389, 409, 824, 846, 1220, 1250
HphI GGTGA 2 cut(s) 100, 539
Hpy166II GTNNAC 4 cut(s) 239, 917, 942, 1034
Hpy188I TCNGA 7 cut(s) 199, 414, 438, 829, 1014, 1225, 1255
Hpy188III TCNNGA 4 cut(s) 283, 305, 320, 362
Hpy8I GTNNAC 4 cut(s) 239, 917, 942, 1034
HpyAV CCTTC 2 cut(s) 218, 920
HpyCH4III ACNGT 4 cut(s) 587, 791, 1006, 1089
HpyCH4IV ACGT 1 cut(s) 892
HpyCH4V TGCA 5 cut(s) 640, 741, 877, 1045, 1061
HpyF10VI GCNNNNNNNGC 1 cut(s) 128
HpyF3I CTNAG 4 cut(s) 144, 1013, 1067, 1252
HpySE526I ACGT 1 cut(s) 892
Hsp92II CATG 6 cut(s) 16, 317, 348, 451, 745, 857
Kzo9I GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
LmnI GCTCC 1 cut(s) 1113
Lsp1109I GCAGC 1 cut(s) 191
LweI GCATC 2 cut(s) 118, 784
MaeI CTAG 4 cut(s) 305, 456, 506, 714
MaeII ACGT 1 cut(s) 892
MaeIII GTNAC 1 cut(s) 136
MalI GATC 7 cut(s) 153, 249, 555, 810, 1029, 1161, 1204
MboI GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
MboII GAAGA 7 cut(s) 242, 398, 680, 742, 841, 844, 854
MfeI CAATTG 1 cut(s) 702
MflI RGATCY 3 cut(s) 151, 808, 1159
MhlI GDGCHC 1 cut(s) 124
MluCI AATT 6 cut(s) 64, 537, 646, 702, 778, 1076
MlyI GAGTC 4 cut(s) 317, 398, 855, 1244
MmeI TCCRAC 1 cut(s) 823
Mph1103I ATGCAT 1 cut(s) 743
MseI TTAA 6 cut(s) 63, 111, 356, 426, 596, 1212
MslI CAYNNNNRTG 1 cut(s) 947
MspA1I CMGCKG 1 cut(s) 493
MspR9I CCNGG 4 cut(s) 383, 610, 966, 1140
MunI CAATTG 1 cut(s) 702
Mva1269I GAATGC 1 cut(s) 529
MvaI CCWGG 4 cut(s) 383, 610, 966, 1140
MwoI GCNNNNNNNGC 1 cut(s) 128
NdeI CATATG 1 cut(s) 517
NdeII GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
NlaIII CATG 6 cut(s) 16, 317, 348, 451, 745, 857
NlaIV GGNNCC 2 cut(s) 503, 1161
NmuCI GTSAC 1 cut(s) 136
NsiI ATGCAT 1 cut(s) 743
NspI RCATGY 1 cut(s) 16
OliI CACNNNNGTG 1 cut(s) 947
PctI GAATGC 1 cut(s) 529
PfeI GAWTC 3 cut(s) 409, 824, 1220
PkrI GCNGC 2 cut(s) 163, 206
PleI GAGTC 4 cut(s) 316, 397, 854, 1244
PpsI GAGTC 4 cut(s) 316, 397, 854, 1244
PpuMI RGGWCCY 1 cut(s) 502
PsiI TTATAA 1 cut(s) 777
Psp5II RGGWCCY 1 cut(s) 502
Psp6I CCWGG 4 cut(s) 381, 608, 964, 1138
PspGI CCWGG 4 cut(s) 381, 608, 964, 1138
PspN4I GGNNCC 2 cut(s) 503, 1161
PspPI GGNCC 3 cut(s) 4, 502, 925
PspPPI RGGWCCY 1 cut(s) 502
PstNI CAGNNNCTG 1 cut(s) 442
PsuI RGATCY 3 cut(s) 151, 808, 1159
PvuII CAGCTG 1 cut(s) 493
RsaI GTAC 3 cut(s) 11, 82, 817
RsaNI GTAC 3 cut(s) 10, 81, 816
RseI CAYNNNNRTG 1 cut(s) 947
SaqAI TTAA 6 cut(s) 63, 111, 356, 426, 596, 1212
SatI GCNGC 2 cut(s) 162, 205
Sau3AI GATC 7 cut(s) 151, 247, 553, 808, 1027, 1159, 1202
Sau96I GGNCC 3 cut(s) 4, 502, 925
SchI GAGTC 4 cut(s) 317, 398, 855, 1244
ScrFI CCNGG 4 cut(s) 383, 610, 966, 1140
SduI GDGCHC 1 cut(s) 124
SfaNI GCATC 2 cut(s) 118, 784
SinI GGWCC 2 cut(s) 4, 502
SmiMI CAYNNNNRTG 1 cut(s) 947
SmlI CTYRAG 1 cut(s) 263
SmoI CTYRAG 1 cut(s) 263
Sse9I AATT 6 cut(s) 64, 537, 646, 702, 778, 1076
SsiI CCGC 2 cut(s) 162, 379
SspI AATATT 1 cut(s) 94
SspMI CTAG 4 cut(s) 305, 456, 506, 714
StyD4I CCNGG 4 cut(s) 381, 608, 964, 1138
StyI CCWWGG 1 cut(s) 505
TaaI ACNGT 4 cut(s) 587, 791, 1006, 1089
TaiI ACGT 1 cut(s) 895
TaqI TCGA 1 cut(s) 246
TasI AATT 6 cut(s) 64, 537, 646, 702, 778, 1076
TatI WGTACW 1 cut(s) 9
TauI GCSGC 1 cut(s) 164
TfiI GAWTC 3 cut(s) 409, 824, 1220
Tru1I TTAA 6 cut(s) 63, 111, 356, 426, 596, 1212
Tru9I TTAA 6 cut(s) 63, 111, 356, 426, 596, 1212
TscAI CASTG 2 cut(s) 129, 1198
TseFI GTSAC 1 cut(s) 136
TseI GCWGC 1 cut(s) 204
Tsp45I GTSAC 1 cut(s) 136
TspDTI ATGAA 5 cut(s) 31, 556, 837, 854, 1272
TspGWI ACGGA 1 cut(s) 35
TspRI CASTG 2 cut(s) 129, 1198
VpaK11BI GGWCC 2 cut(s) 4, 502
XapI RAATTY 2 cut(s) 646, 1076
XbaI TCTAGA 1 cut(s) 304
XceI RCATGY 1 cut(s) 16
XmaJI CCTAGG 1 cut(s) 505
XspI CTAG 4 cut(s) 305, 456, 506, 714
Zsp2I ATGCAT 1 cut(s) 743
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.