Rh3BG238900

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0009141
Physical Location & Seq
Forward (+)
22489345 .. 22492433
3089 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG238900.1

Sequence Viewer

Length: 1281 bp
ATGTTTGCGAGGAGATGCTGCTCCTCCGTTGGTTGGTGGTCAAAGAATCAGAAGCGGCTCATGACCACCAGTAAGCGTGTGCAGGACAGGAGCAAGTTGAAGAGGGTTCATGATCTTGAGATTGTCACTGAGAAATGGAAGATAGCCTCCAAGGTCCTTTTTTTGATGGAATTACTAAAGAAGGAGCCGGAAATGATAATTCCGGTGAGGTCATTGGACAAGTTCCGGGCGCAGATTAGTCTTCCTAAGCCCCATAGGATGTCTGATTTCATTAGGAAATCGCCGAAACTGTTTGAATTGTATAGGGATCGTAGGGGGGTTTTATGGTGTGGGATGACTGAGCAAGCTGAGGAGTTGGTAGAGGAGGAGGATAGGTTACTTGAGCAGCATCAAGATAAGGCTGCTGAGTATGTTACTCGTTTTCTTATGATGTCTCTTGATAAGCGGCTTCGAGTTGACAAGATTGCTCATTATAGGAGAGACTTTGCTCTCCCAAATGATTTTAGGACTACCTGGGTGCACAAGTATCCCCAACACTTTAGGCTGGTACGGGATAATGAGGATATCGAGTACTTGGAACTTGTTACTTGGAATCCTGCTTGGGCTATAACGGAGTTGGAGAAGAAGAAGATGGGGGTTACTGATGCCAGTGCTCATACCCCTGGCTTGCTTTCGCTCTCGTTTCCTTTGAAGTTCCCTCCCAATTACAAGAAGAGAGTGTACAAATATCGGGGAGCGCTTGATCATTTTCAGAAGAGGTCTTATTTGTCACCCTATGCAGATGCCAGGGGACTTAAAGCTGGGTCGAAAGAATTTGACAAGAGGGCAGTGGCTATTATGCATGAGCTTCTCAGCTTTACTGTTGAGAAGAGATTGGTGACTGATCACCTCACTCACTTCAGACAGGAACTTGTGATGCCCCAAAAGCTTATGAGACTATTTCTGAAGCATTTTGGCATCTTCTATGTCTCGGAGAGAGGGAAGAGATTTAGTGTCTTCTTGACAGAAGCTTATGAAGGTTCAGAGCTCATTGAGAAGTGCCCTTTGGTTATTTGGAAGGAAAAAGTTCAGAGCCTTATTGGTTACAGAGGAAAGAAGAAGATTGAGACTTTTACTGACATGTCAGACATGGAAGACAGTGGTTTATATAGGAGCAATTCTGAAAGTGAAAATGATTCTGAAGAAGAGAGCATTCACTTGGAGGATAACTCACATACAGATAATTCTGAAATGGAGATTGACGAGGTTTTCAGTGCTTACGAGGACTCTAAAACATCATAA
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

426

Amino Acids

50.49

Weight (kDa)

8.92

Isoelectric Point (pI)

50.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 34 - 362 2.2e-107 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)
AciI CCGC 2 cut(s) 55, 445
AclWI GGATC 1 cut(s) 315
AcsI RAATTY 1 cut(s) 812
AcuI CTGAAG 3 cut(s) 883, 965, 1200
AfaI GTAC 3 cut(s) 549, 572, 722
AfeI AGCGCT 1 cut(s) 738
AfiI CCNNNNNNNGG 1 cut(s) 33
AflIII ACRYGT 1 cut(s) 1119
AgsI TTSAA 3 cut(s) 100, 296, 691
AjnI CCWGG 3 cut(s) 512, 661, 785
AjuI GAANNNNNNNTTGG 2 cut(s) 1028, 1060
AluBI AGCT 7 cut(s) 347, 800, 847, 855, 928, 1010, 1027
AluI AGCT 7 cut(s) 347, 800, 847, 855, 928, 1010, 1027
Alw21I GWGCWC 3 cut(s) 522, 655, 1029
Alw26I GTCTC 5 cut(s) 438, 474, 928, 973, 1100
Alw44I GTGCAC 1 cut(s) 518
AlwI GGATC 1 cut(s) 315
Aor51HI AGCGCT 1 cut(s) 738
ApaLI GTGCAC 1 cut(s) 518
ApeKI GCWGC 3 cut(s) 18, 385, 401
ApoI RAATTY 1 cut(s) 812
Asp700I GAANNNNTTC 1 cut(s) 1065
AspLEI GCGC 2 cut(s) 232, 739
AspS9I GGNCC 1 cut(s) 154
AsuC2I CCSGG 1 cut(s) 227
AsuHPI GGTGA 4 cut(s) 217, 762, 878, 889
AvaII GGWCC 1 cut(s) 154
BaeGI GKGCMC 2 cut(s) 522, 1043
BanII GRGCYC 1 cut(s) 1029
BarI GAAGNNNNNNTAC 2 cut(s) 704, 736
BbsI GAAGAC 3 cut(s) 233, 988, 1140
Bbv12I GWGCWC 3 cut(s) 522, 655, 1029
BbvCI CCTCAGC 1 cut(s) 348
BbvI GCAGC 3 cut(s) 5, 388, 397
BccI CCATC 2 cut(s) 160, 625
BciT130I CCWGG 3 cut(s) 514, 663, 787
BciVI GTATCC 1 cut(s) 537
BclI TGATCA 2 cut(s) 742, 883
BcnI CCSGG 1 cut(s) 227
BcoDI GTCTC 5 cut(s) 438, 474, 928, 973, 1100
BfoI RGCGCY 1 cut(s) 740
BfuI GTATCC 1 cut(s) 537
BisI GCNGC 5 cut(s) 19, 56, 386, 402, 446
BlsI GCNGC 5 cut(s) 20, 57, 387, 403, 447
BmcAI AGTACT 1 cut(s) 572
Bme1390I CCNGG 4 cut(s) 227, 514, 663, 787
Bme18I GGWCC 1 cut(s) 154
BmgT120I GGNCC 1 cut(s) 154
BmiI GGNNCC 1 cut(s) 186
BmrFI CCNGG 4 cut(s) 227, 514, 663, 787
BmsI GCATC 6 cut(s) 5, 397, 634, 772, 906, 966
BpiI GAAGAC 3 cut(s) 233, 988, 1140
BplI GAGNNNNNCTC 2 cut(s) 1193, 1225
Bpu10I CCTNAGC 2 cut(s) 246, 348
BpuEI CTTGAG 2 cut(s) 137, 401
BpuMI CCSGG 1 cut(s) 227
BsaJI CCNNGG 4 cut(s) 150, 513, 661, 786
BsaWI WCCGGW 1 cut(s) 202
BsaXI ACNNNNNCTCC 2 cut(s) 359, 389
Bsc4I CCNNNNNNNGG 1 cut(s) 33
Bse1I ACTGG 2 cut(s) 69, 648
BseBI CCWGG 3 cut(s) 514, 663, 787
BseDI CCNNGG 4 cut(s) 150, 513, 661, 786
BseGI GGATG 2 cut(s) 264, 339
BseLI CCNNNNNNNGG 1 cut(s) 33
BseMII CTCAG 5 cut(s) 120, 330, 339, 396, 865
BseNI ACTGG 2 cut(s) 69, 648
BseRI GAGGAG 5 cut(s) 13, 25, 365, 377, 380
BseSI GKGCMC 2 cut(s) 522, 1043
BseXI GCAGC 3 cut(s) 5, 388, 397
BseYI CCCAGC 1 cut(s) 800
BsgI GTGCAG 1 cut(s) 101
BsiHKAI GWGCWC 3 cut(s) 522, 655, 1029
BsiSI CCGG 3 cut(s) 188, 203, 226
BslFI GGGAC 1 cut(s) 804
BslI CCNNNNNNNGG 1 cut(s) 33
BsmAI GTCTC 5 cut(s) 438, 474, 928, 973, 1100
BsmFI GGGAC 1 cut(s) 804
BsmI GAATGC 1 cut(s) 1191
Bsp1286I GDGCHC 4 cut(s) 522, 655, 1029, 1043
Bsp1407I TGTACA 1 cut(s) 720
Bsp143I GATC 4 cut(s) 112, 307, 742, 883
BspACI CCGC 2 cut(s) 55, 445
BspCNI CTCAG 5 cut(s) 121, 331, 340, 397, 864
BspHI TCATGA 2 cut(s) 60, 109
BspLI GGNNCC 1 cut(s) 186
BspPI GGATC 1 cut(s) 315
BsrGI TGTACA 1 cut(s) 720
BsrI ACTGG 2 cut(s) 69, 648
BssECI CCNNGG 4 cut(s) 150, 513, 661, 786
BssMI GATC 4 cut(s) 112, 307, 742, 883
BssT1I CCWWGG 1 cut(s) 150
Bst2UI CCWGG 3 cut(s) 514, 663, 787
Bst4CI ACNGT 3 cut(s) 291, 862, 1139
Bst6I CTCTTC 6 cut(s) 95, 707, 749, 863, 977, 1179
BstAUI TGTACA 1 cut(s) 720
BstC8I GCNNGC 2 cut(s) 345, 668
BstDEI CTNAG 6 cut(s) 129, 246, 339, 348, 405, 851
BstF5I GGATG 2 cut(s) 264, 339
BstH2I RGCGCY 1 cut(s) 740
BstHHI GCGC 2 cut(s) 232, 739
BstKTI GATC 4 cut(s) 115, 310, 745, 886
BstMAI GTCTC 5 cut(s) 438, 474, 928, 973, 1100
BstMBI GATC 4 cut(s) 112, 307, 742, 883
BstMWI GCNNNNNNNGC 1 cut(s) 925
BstNI CCWGG 3 cut(s) 514, 663, 787
BstNSI RCATGY 1 cut(s) 1123
BstSCI CCNGG 4 cut(s) 225, 512, 661, 785
BstSLI GKGCMC 2 cut(s) 522, 1043
BstV1I GCAGC 3 cut(s) 5, 388, 397
BstV2I GAAGAC 3 cut(s) 233, 988, 1140
BsuI GTATCC 1 cut(s) 537
BtsCI GGATG 2 cut(s) 264, 339
BtsI GCAGTG 1 cut(s) 834
BtsIMutI CAGTG 5 cut(s) 126, 655, 834, 1144, 1258
Cac8I GCNNGC 2 cut(s) 345, 668
CciI TCATGA 2 cut(s) 60, 109
CfoI GCGC 2 cut(s) 232, 739
Cfr13I GGNCC 1 cut(s) 154
Csp6I GTAC 3 cut(s) 548, 571, 721
CviAII CATG 5 cut(s) 61, 110, 842, 1120, 1129
CviQI GTAC 3 cut(s) 548, 571, 721
DdeI CTNAG 6 cut(s) 129, 246, 339, 348, 405, 851
DpnI GATC 4 cut(s) 114, 309, 744, 885
DpnII GATC 4 cut(s) 112, 307, 742, 883
Eam1104I CTCTTC 6 cut(s) 95, 707, 749, 863, 977, 1179
EarI CTCTTC 6 cut(s) 95, 707, 749, 863, 977, 1179
Ecl136II GAGCTC 1 cut(s) 1027
Eco130I CCWWGG 1 cut(s) 150
Eco24I GRGCYC 1 cut(s) 1029
Eco32I GATATC 1 cut(s) 565
Eco47I GGWCC 1 cut(s) 154
Eco47III AGCGCT 1 cut(s) 738
Eco53kI GAGCTC 1 cut(s) 1027
Eco57I CTGAAG 3 cut(s) 883, 965, 1200
EcoICRI GAGCTC 1 cut(s) 1027
EcoO109I RGGNCCY 1 cut(s) 154
EcoRII CCWGG 3 cut(s) 512, 661, 785
EcoRV GATATC 1 cut(s) 565
EcoT14I CCWWGG 1 cut(s) 150
EcoT22I ATGCAT 1 cut(s) 843
EcoT38I GRGCYC 1 cut(s) 1029
ErhI CCWWGG 1 cut(s) 150
FaeI CATG 5 cut(s) 64, 113, 845, 1123, 1132
FaqI GGGAC 1 cut(s) 804
FatI CATG 5 cut(s) 60, 109, 841, 1119, 1128
FbaI TGATCA 2 cut(s) 742, 883
Fnu4HI GCNGC 5 cut(s) 19, 56, 386, 402, 446
FokI GGATG 2 cut(s) 271, 346
FriOI GRGCYC 1 cut(s) 1029
Fsp4HI GCNGC 5 cut(s) 19, 56, 386, 402, 446
GlaI GCGC 2 cut(s) 231, 738
GluI GCNGC 5 cut(s) 19, 56, 386, 402, 446
GsaI CCCAGC 1 cut(s) 804
HaeII RGCGCY 1 cut(s) 740
HapII CCGG 3 cut(s) 188, 203, 226
HhaI GCGC 2 cut(s) 232, 739
Hin1II CATG 5 cut(s) 64, 113, 845, 1123, 1132
Hin6I GCGC 2 cut(s) 230, 737
HinP1I GCGC 2 cut(s) 230, 737
HincII GTYRAC 1 cut(s) 457
HindII GTYRAC 1 cut(s) 457
HindIII AAGCTT 2 cut(s) 926, 1008
HinfI GANTC 4 cut(s) 46, 592, 1175, 1265
HpaII CCGG 3 cut(s) 188, 203, 226
HphI GGTGA 4 cut(s) 217, 762, 878, 889
Hpy166II GTNNAC 3 cut(s) 457, 520, 721
Hpy188III TCNNGA 6 cut(s) 61, 110, 116, 392, 437, 1000
Hpy8I GTNNAC 3 cut(s) 457, 520, 721
HpyAV CCTTC 3 cut(s) 175, 1010, 1051
HpyCH4III ACNGT 3 cut(s) 291, 862, 1139
HpyCH4V TGCA 4 cut(s) 82, 520, 779, 841
HpyF10VI GCNNNNNNNGC 1 cut(s) 925
HpyF3I CTNAG 6 cut(s) 129, 246, 339, 348, 405, 851
Hsp92II CATG 5 cut(s) 64, 113, 845, 1123, 1132
HspAI GCGC 2 cut(s) 230, 737
Ksp22I TGATCA 2 cut(s) 742, 883
Kzo9I GATC 4 cut(s) 112, 307, 742, 883
LmnI GCTCC 5 cut(s) 26, 90, 184, 734, 1152
Lsp1109I GCAGC 3 cut(s) 5, 388, 397
LweI GCATC 6 cut(s) 5, 397, 634, 772, 906, 966
MaeIII GTNAC 8 cut(s) 124, 375, 412, 583, 637, 768, 877, 1082
MalI GATC 4 cut(s) 114, 309, 744, 885
MboI GATC 4 cut(s) 112, 307, 742, 883
MhlI GDGCHC 4 cut(s) 522, 655, 1029, 1043
MluCI AATT 7 cut(s) 170, 198, 296, 703, 812, 1156, 1222
MlyI GAGTC 1 cut(s) 1259
MmeI TCCRAC 1 cut(s) 597
Mph1103I ATGCAT 1 cut(s) 843
MroXI GAANNNNTTC 1 cut(s) 1065
MseI TTAA 1 cut(s) 795
MspI CCGG 3 cut(s) 188, 203, 226
MspR9I CCNGG 4 cut(s) 227, 514, 663, 787
Mva1269I GAATGC 1 cut(s) 1191
MvaI CCWGG 3 cut(s) 514, 663, 787
MwoI GCNNNNNNNGC 1 cut(s) 925
NciI CCSGG 1 cut(s) 227
NdeII GATC 4 cut(s) 112, 307, 742, 883
NlaIII CATG 5 cut(s) 64, 113, 845, 1123, 1132
NlaIV GGNNCC 1 cut(s) 186
NmuCI GTSAC 3 cut(s) 124, 768, 877
NsiI ATGCAT 1 cut(s) 843
NspI RCATGY 1 cut(s) 1123
PagI TCATGA 2 cut(s) 60, 109
PciI ACATGT 1 cut(s) 1119
PctI GAATGC 1 cut(s) 1191
PdmI GAANNNNTTC 1 cut(s) 1065
PfeI GAWTC 3 cut(s) 46, 592, 1175
PkrI GCNGC 5 cut(s) 20, 57, 387, 403, 447
PleI GAGTC 1 cut(s) 1259
PpsI GAGTC 1 cut(s) 1259
PpuMI RGGWCCY 1 cut(s) 154
PscI ACATGT 1 cut(s) 1119
Psp124BI GAGCTC 1 cut(s) 1029
Psp5II RGGWCCY 1 cut(s) 154
Psp6I CCWGG 3 cut(s) 512, 661, 785
PspFI CCCAGC 1 cut(s) 800
PspGI CCWGG 3 cut(s) 512, 661, 785
PspN4I GGNNCC 1 cut(s) 186
PspPI GGNCC 1 cut(s) 154
PspPPI RGGWCCY 1 cut(s) 154
RsaI GTAC 3 cut(s) 549, 572, 722
RsaNI GTAC 3 cut(s) 548, 571, 721
SacI GAGCTC 1 cut(s) 1029
SaqAI TTAA 1 cut(s) 795
SatI GCNGC 5 cut(s) 19, 56, 386, 402, 446
Sau3AI GATC 4 cut(s) 112, 307, 742, 883
Sau96I GGNCC 1 cut(s) 154
ScaI AGTACT 1 cut(s) 572
SchI GAGTC 1 cut(s) 1259
ScrFI CCNGG 4 cut(s) 227, 514, 663, 787
SduI GDGCHC 4 cut(s) 522, 655, 1029, 1043
SfaNI GCATC 6 cut(s) 5, 397, 634, 772, 906, 966
SinI GGWCC 1 cut(s) 154
SmlI CTYRAG 2 cut(s) 116, 380
SmoI CTYRAG 2 cut(s) 116, 380
Sse9I AATT 7 cut(s) 170, 198, 296, 703, 812, 1156, 1222
SsiI CCGC 2 cut(s) 55, 445
SstI GAGCTC 1 cut(s) 1029
StyD4I CCNGG 4 cut(s) 225, 512, 661, 785
StyI CCWWGG 1 cut(s) 150
TaaI ACNGT 3 cut(s) 291, 862, 1139
TaqI TCGA 3 cut(s) 451, 567, 806
TasI AATT 7 cut(s) 170, 198, 296, 703, 812, 1156, 1222
TatI WGTACW 2 cut(s) 570, 720
TauI GCSGC 2 cut(s) 58, 448
TfiI GAWTC 3 cut(s) 46, 592, 1175
Tru1I TTAA 1 cut(s) 795
Tru9I TTAA 1 cut(s) 795
TscAI CASTG 5 cut(s) 133, 655, 834, 1144, 1258
TseFI GTSAC 3 cut(s) 124, 768, 877
TseI GCWGC 3 cut(s) 18, 385, 401
Tsp45I GTSAC 3 cut(s) 124, 768, 877
TspDTI ATGAA 3 cut(s) 98, 259, 1029
TspGWI ACGGA 2 cut(s) 16, 626
TspRI CASTG 5 cut(s) 133, 655, 834, 1144, 1258
VneI GTGCAC 1 cut(s) 518
VpaK11BI GGWCC 1 cut(s) 154
XapI RAATTY 1 cut(s) 812
XceI RCATGY 1 cut(s) 1123
XmnI GAANNNNTTC 1 cut(s) 1065
ZrmI AGTACT 1 cut(s) 572
Zsp2I ATGCAT 1 cut(s) 843
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.