Rh3BG252100

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0014471
Physical Location & Seq
Reverse (-)
24306987 .. 24308670
1684 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG252100.1

Sequence Viewer

Length: 1287 bp
ATGAAAGCTTTCCTCTTCTCTCTCCTAAAACCCCAAACCCTGTCTAAACCCACCAAACTCCTACCTCACCAACACTACCAATGTCGAGGCATCATCGCCAAGGTCCGCCTGAAATGGGTCAAGAACCGAAGCTTAGATCACATCATCGACACCGAGACCGATCTCAAAGCCGCCAGTCTCCTCAAGGATGCCATCAAGCGATCCCCAACTGGGTTCCTCACCGCCAAGTCCTTCGCCGATTGGCAAAAGCTTCTGGGCCTCACCGTCCCCGTTCTCCGATTCATGCGCAGGTACCCGACTCTGTTTCTAGAATTCCCACATGCCCGTTATGCCAATCTGCCTTGCTTTAAGTTAACAGACACTGCATTATTGCTAGACTCACATGAACAAACCATACACCAAACCCATGAGAGTGACACTGTGGAGAGGCTTAGTAGAGTTCTTATGATGATGAAAACCAAGAGTTTACCTCTGCAGTCTTTGTATCCTTTGAAATGGGATCTGGGTTTGCCTGATGGGTTTGAGAAAGTATTGGTTCCAAAGTACCCGGACTGTTTTCGATTTGTTAAGGCCTCGGATGGGGTTACGCGATTGAAGGTCATACATTGTCCTGATGAGTATGCTGTTTCGGCATTGCAGAGGAGTAAAGAGGGTGGTGATGTGGGGGATGAGTATAGGCAGTTCAAGAGGGGGCAGACTGTGTTGGCTTTCCCTATGAGTTTCCCGAGGGGTTATGGGGCGCAGAAGAAGGTGAGGGCATGGATGGAGGAGTTTCAGAAGTTGCCATACATTTCGCCGTATGAGGATTCTAGGCATATTGATCCCAATAGTGATCTTATGGAGAAAAGGGTTGTTGGAGTTTTGCATGAGTTATTGAGCTTGACCATTCATAAGAAGACCAAGAGGAACTACTTGAGGATCATTAGGGAGGAGTTGAATCTTCCACATAAGTTTACGAGAATCTTCACAAGGTATCCGGGGATTTTCTACCTTTCATTGAAGTGTAAAACAACCACGGTAGCGCTCAGGGAAGGTTACCAACGAGGGAAGCTAGTGCACCCGCATCCCCTTGCACGTTTGAGAGAGAAGTTTTATCATGTAATGAGAACAGGGCTTATTTATCGTGGTAAAGGTGTGAATATGCTGTCTCAGCAAGATATGTTGCTTGACAATGTGGAGAGTGAAAGTGGTCAAGACGACTCTGAGGAGGAACAGGTTGGAACAGGTGATGAATGCGATGAGGAGGAAGTATCAGACTTTGAAATGGAAGGATCTGATGAAGATTGA
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

428

Amino Acids

49.6

Weight (kDa)

8.95

Isoelectric Point (pI)

42.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 40 - 371 4e-117 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0014471)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G58520 AT3G58520
fragaria_vesca FvH4_6g21580
malus_domestica MD14G1051500.v1.1
prunus_persica Prupe.7G084500_v2.0.a1
pyrus_communis pycom14g04280
rosa_chinensis RchiOBHm_Chr3g0478831
rosa_laevigata RLG00000023622
rosa_multiflora Rmu_sc0004831.1_g000011 Rmu_sc0005751.1_g000005 Rmu_sc0037242.1_g000002
rosa_roxburghii Rroxscaffold_6G00403040
rosa_rugosa Rorug03G0168500
rosa_samantha Rh3BG252100 Rh3CG249000 Rh3DG245200
rosa_wichuraiana Rw3G019800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 287
Acc36I ACCTGC 1 cut(s) 279
Acc65I GGTACC 1 cut(s) 291
AccB1I GGYRCC 1 cut(s) 291
AccII CGCG 1 cut(s) 589
AciI CCGC 4 cut(s) 106, 171, 222, 1061
AclWI GGATC 5 cut(s) 195, 507, 815, 926, 1279
AcsI RAATTY 1 cut(s) 311
AfaI GTAC 2 cut(s) 293, 545
AfeI AGCGCT 1 cut(s) 1023
AfiI CCNNNNNNNGG 3 cut(s) 115, 210, 579
AgsI TTSAA 6 cut(s) 493, 595, 685, 937, 1000, 1262
AluBI AGCT 5 cut(s) 8, 132, 250, 879, 1051
AluI AGCT 5 cut(s) 8, 132, 250, 879, 1051
Alw21I GWGCWC 1 cut(s) 1059
Alw26I GTCTC 3 cut(s) 149, 182, 1152
Alw44I GTGCAC 1 cut(s) 1055
AlwI GGATC 5 cut(s) 195, 507, 815, 926, 1279
AlwNI CAGNNNCTG 1 cut(s) 362
Ama87I CYCGRG 1 cut(s) 724
Aor51HI AGCGCT 1 cut(s) 1023
AoxI GGCC 2 cut(s) 256, 570
ApaLI GTGCAC 1 cut(s) 1055
ApoI RAATTY 1 cut(s) 311
Asp700I GAANNNNTTC 1 cut(s) 8
Asp718I GGTACC 1 cut(s) 291
AspLEI GCGC 3 cut(s) 288, 742, 1024
AspS9I GGNCC 2 cut(s) 103, 256
AsuC2I CCSGG 2 cut(s) 548, 978
AsuHPI GGTGA 6 cut(s) 59, 211, 253, 668, 763, 1238
AvaI CYCGRG 1 cut(s) 724
AvaII GGWCC 1 cut(s) 103
BaeGI GKGCMC 1 cut(s) 1059
BanI GGYRCC 1 cut(s) 291
BarI GAAGNNNNNNTAC 2 cut(s) 770, 802
BbsI GAAGAC 1 cut(s) 902
Bbv12I GWGCWC 1 cut(s) 1059
BccI CCATC 4 cut(s) 200, 509, 572, 757
BceAI ACGGC 1 cut(s) 781
BciVI GTATCC 2 cut(s) 495, 984
BcnI CCSGG 2 cut(s) 548, 978
BcoDI GTCTC 3 cut(s) 149, 182, 1152
BfaI CTAG 4 cut(s) 308, 374, 810, 1052
BfmI CTRYAG 1 cut(s) 473
BfoI RGCGCY 1 cut(s) 1025
BfuAI ACCTGC 1 cut(s) 279
BfuI GTATCC 2 cut(s) 495, 984
BisI GCNGC 1 cut(s) 171
BlsI GCNGC 1 cut(s) 172
Bme1390I CCNGG 2 cut(s) 548, 978
Bme18I GGWCC 1 cut(s) 103
BmeT110I CYCGRG 1 cut(s) 724
BmgT120I GGNCC 2 cut(s) 103, 256
BmiI GGNNCC 3 cut(s) 215, 293, 537
BmrFI CCNGG 2 cut(s) 548, 978
BmrI ACTGGG 1 cut(s) 219
BmsI GCATC 3 cut(s) 99, 178, 1072
BmuI ACTGGG 1 cut(s) 219
BpiI GAAGAC 1 cut(s) 902
BplI GAGNNNNNCTC 2 cut(s) 454, 486
Bpu10I CCTNAGC 1 cut(s) 1025
BpuEI CTTGAG 2 cut(s) 167, 934
BpuMI CCSGG 2 cut(s) 548, 978
BsaI GGTCTC 1 cut(s) 149
BsaJI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
Bsc4I CCNNNNNNNGG 3 cut(s) 115, 210, 579
Bse1I ACTGG 2 cut(s) 174, 214
Bse3DI GCAATG 1 cut(s) 632
BseDI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
BseGI GGATG 5 cut(s) 193, 583, 673, 768, 1063
BseLI CCNNNNNNNGG 3 cut(s) 115, 210, 579
BseMI GCAATG 1 cut(s) 632
BseMII CTCAG 3 cut(s) 1039, 1163, 1194
BseNI ACTGG 2 cut(s) 174, 214
BseRI GAGGAG 6 cut(s) 170, 655, 782, 944, 1220, 1256
BseSI GKGCMC 1 cut(s) 1059
Bsh1236I CGCG 1 cut(s) 589
BshFI GGCC 2 cut(s) 258, 572
BshNI GGYRCC 1 cut(s) 291
BsiHKAI GWGCWC 1 cut(s) 1059
BsiHKCI CYCGRG 1 cut(s) 724
BsiSI CCGG 2 cut(s) 548, 977
BslFI GGGAC 1 cut(s) 251
BslI CCNNNNNNNGG 3 cut(s) 115, 210, 579
BsmAI GTCTC 3 cut(s) 149, 182, 1152
BsmFI GGGAC 1 cut(s) 251
BsmI GAATGC 1 cut(s) 1238
BsnI GGCC 2 cut(s) 258, 572
Bso31I GGTCTC 1 cut(s) 149
BsoBI CYCGRG 1 cut(s) 724
Bsp1286I GDGCHC 1 cut(s) 1059
Bsp143I GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
BspACI CCGC 4 cut(s) 106, 171, 222, 1061
BspANI GGCC 2 cut(s) 258, 572
BspCNI CTCAG 3 cut(s) 1038, 1162, 1195
BspFNI CGCG 1 cut(s) 589
BspLI GGNNCC 3 cut(s) 215, 293, 537
BspMAI CTGCAG 1 cut(s) 477
BspMI ACCTGC 1 cut(s) 279
BspPI GGATC 5 cut(s) 195, 507, 815, 926, 1279
BspT107I GGYRCC 1 cut(s) 291
BspTNI GGTCTC 1 cut(s) 149
BsrDI GCAATG 1 cut(s) 632
BsrI ACTGG 2 cut(s) 174, 214
BssECI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
BssMI GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
BssT1I CCWWGG 1 cut(s) 99
Bst4CI ACNGT 5 cut(s) 265, 421, 554, 700, 1018
Bst6I CTCTTC 1 cut(s) 20
BstDEI CTNAG 5 cut(s) 133, 431, 1025, 1149, 1203
BstDSI CCRYGG 1 cut(s) 1014
BstEII GGTNACC 1 cut(s) 1034
BstF5I GGATG 5 cut(s) 193, 583, 673, 768, 1063
BstFNI CGCG 1 cut(s) 589
BstH2I RGCGCY 1 cut(s) 1025
BstHHI GCGC 3 cut(s) 288, 742, 1024
BstKTI GATC 8 cut(s) 139, 163, 203, 502, 823, 835, 921, 1274
BstMAI GTCTC 3 cut(s) 149, 182, 1152
BstMBI GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
BstMWI GCNNNNNNNGC 3 cut(s) 329, 629, 1150
BstNSI RCATGY 1 cut(s) 323
BstPI GGTNACC 1 cut(s) 1034
BstSCI CCNGG 2 cut(s) 546, 976
BstSFI CTRYAG 1 cut(s) 473
BstSLI GKGCMC 1 cut(s) 1059
BstUI CGCG 1 cut(s) 589
BstV2I GAAGAC 1 cut(s) 902
BstX2I RGATCY 2 cut(s) 499, 1271
BstYI RGATCY 2 cut(s) 499, 1271
BsuI GTATCC 2 cut(s) 495, 984
BsuRI GGCC 2 cut(s) 258, 572
BtgI CCRYGG 1 cut(s) 1014
BtgZI GCGATG 2 cut(s) 79, 1251
BtsCI GGATG 5 cut(s) 193, 583, 673, 768, 1063
BtsI GCAGTG 1 cut(s) 360
BtsIMutI CAGTG 2 cut(s) 360, 417
BveI ACCTGC 1 cut(s) 279
CaiI CAGNNNCTG 1 cut(s) 362
CfoI GCGC 3 cut(s) 288, 742, 1024
Cfr13I GGNCC 2 cut(s) 103, 256
Csp6I GTAC 2 cut(s) 292, 544
CviAII CATG 7 cut(s) 283, 320, 383, 407, 759, 866, 1097
CviQI GTAC 2 cut(s) 292, 544
DdeI CTNAG 5 cut(s) 133, 431, 1025, 1149, 1203
DpnI GATC 8 cut(s) 138, 162, 202, 501, 822, 834, 920, 1273
DpnII GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
Eam1104I CTCTTC 1 cut(s) 20
EarI CTCTTC 1 cut(s) 20
EciI GGCGGA 1 cut(s) 95
Eco130I CCWWGG 1 cut(s) 99
Eco147I AGGCCT 1 cut(s) 572
Eco31I GGTCTC 1 cut(s) 149
Eco47I GGWCC 1 cut(s) 103
Eco47III AGCGCT 1 cut(s) 1023
Eco88I CYCGRG 1 cut(s) 724
Eco91I GGTNACC 1 cut(s) 1034
EcoO65I GGTNACC 1 cut(s) 1034
EcoRI GAATTC 1 cut(s) 311
EcoT14I CCWWGG 1 cut(s) 99
ErhI CCWWGG 1 cut(s) 99
FaeI CATG 7 cut(s) 286, 323, 386, 410, 762, 869, 1100
FaqI GGGAC 1 cut(s) 251
FatI CATG 7 cut(s) 282, 319, 382, 406, 758, 865, 1096
FauI CCCGC 1 cut(s) 1068
Fnu4HI GCNGC 1 cut(s) 171
FokI GGATG 5 cut(s) 200, 590, 680, 775, 1050
Fsp4HI GCNGC 1 cut(s) 171
FspBI CTAG 4 cut(s) 308, 374, 810, 1052
FspI TGCGCA 1 cut(s) 287
GlaI GCGC 3 cut(s) 287, 741, 1023
GluI GCNGC 1 cut(s) 171
HaeII RGCGCY 1 cut(s) 1025
HaeIII GGCC 2 cut(s) 258, 572
HapII CCGG 2 cut(s) 548, 977
HhaI GCGC 3 cut(s) 288, 742, 1024
Hin1II CATG 7 cut(s) 286, 323, 386, 410, 762, 869, 1100
Hin6I GCGC 3 cut(s) 286, 740, 1022
HinP1I GCGC 3 cut(s) 286, 740, 1022
HincII GTYRAC 1 cut(s) 354
HindII GTYRAC 1 cut(s) 354
HindIII AAGCTT 3 cut(s) 6, 130, 248
HinfI GANTC 7 cut(s) 279, 298, 377, 806, 937, 960, 1199
HpaI GTTAAC 1 cut(s) 354
HpaII CCGG 2 cut(s) 548, 977
HphI GGTGA 6 cut(s) 59, 211, 253, 668, 763, 1238
Hpy166II GTNNAC 4 cut(s) 354, 467, 954, 1057
Hpy188I TCNGA 6 cut(s) 278, 577, 777, 1204, 1255, 1276
Hpy188III TCNNGA 6 cut(s) 121, 308, 611, 685, 724, 1193
Hpy8I GTNNAC 4 cut(s) 354, 467, 954, 1057
HpyAV CCTTC 5 cut(s) 241, 589, 742, 1025, 1262
HpyCH4III ACNGT 5 cut(s) 265, 421, 554, 700, 1018
HpyCH4IV ACGT 1 cut(s) 1075
HpyCH4V TGCA 6 cut(s) 365, 475, 637, 865, 1057, 1073
HpyF10VI GCNNNNNNNGC 3 cut(s) 329, 629, 1150
HpyF3I CTNAG 5 cut(s) 133, 431, 1025, 1149, 1203
HpySE526I ACGT 1 cut(s) 1075
Hsp92II CATG 7 cut(s) 286, 323, 386, 410, 762, 869, 1100
HspAI GCGC 3 cut(s) 286, 740, 1022
KpnI GGTACC 1 cut(s) 295
KspAI GTTAAC 1 cut(s) 354
Kzo9I GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
LweI GCATC 3 cut(s) 99, 178, 1072
MaeI CTAG 4 cut(s) 308, 374, 810, 1052
MaeII ACGT 1 cut(s) 1075
MaeIII GTNAC 3 cut(s) 413, 583, 1034
MalI GATC 8 cut(s) 138, 162, 202, 501, 822, 834, 920, 1273
MboI GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
MboII GAAGA 5 cut(s) 7, 757, 907, 932, 955
MflI RGATCY 2 cut(s) 499, 1271
MhlI GDGCHC 1 cut(s) 1059
MluCI AATT 1 cut(s) 311
MlyI GAGTC 3 cut(s) 292, 371, 1193
MmeI TCCRAC 2 cut(s) 835, 1198
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 3 cut(s) 348, 353, 567
MslI CAYNNNNRTG 2 cut(s) 411, 1000
MspI CCGG 2 cut(s) 548, 977
MspR9I CCNGG 2 cut(s) 548, 978
Mva1269I GAATGC 1 cut(s) 1238
MvnI CGCG 1 cut(s) 589
MwoI GCNNNNNNNGC 3 cut(s) 329, 629, 1150
NciI CCSGG 2 cut(s) 548, 978
NdeII GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
NlaIII CATG 7 cut(s) 286, 323, 386, 410, 762, 869, 1100
NlaIV GGNNCC 3 cut(s) 215, 293, 537
NmuCI GTSAC 1 cut(s) 413
NsbI TGCGCA 1 cut(s) 287
NspI RCATGY 1 cut(s) 323
PceI AGGCCT 1 cut(s) 572
PctI GAATGC 1 cut(s) 1238
PdmI GAANNNNTTC 1 cut(s) 8
PfeI GAWTC 4 cut(s) 279, 806, 937, 960
PkrI GCNGC 1 cut(s) 172
PleI GAGTC 3 cut(s) 292, 371, 1193
PpsI GAGTC 3 cut(s) 292, 371, 1193
PspEI GGTNACC 1 cut(s) 1034
PspN4I GGNNCC 3 cut(s) 215, 293, 537
PspPI GGNCC 2 cut(s) 103, 256
PsrI GAACNNNNNNTAC 4 cut(s) 378, 410, 665, 697
PstI CTGCAG 1 cut(s) 477
PstNI CAGNNNCTG 1 cut(s) 362
PsuI RGATCY 2 cut(s) 499, 1271
RsaI GTAC 2 cut(s) 293, 545
RsaNI GTAC 2 cut(s) 292, 544
RseI CAYNNNNRTG 2 cut(s) 411, 1000
SaqAI TTAA 3 cut(s) 348, 353, 567
SatI GCNGC 1 cut(s) 171
Sau3AI GATC 8 cut(s) 136, 160, 200, 499, 820, 832, 918, 1271
Sau96I GGNCC 2 cut(s) 103, 256
SchI GAGTC 3 cut(s) 292, 371, 1193
ScrFI CCNGG 2 cut(s) 548, 978
SduI GDGCHC 1 cut(s) 1059
SfaNI GCATC 3 cut(s) 99, 178, 1072
SfcI CTRYAG 1 cut(s) 473
SinI GGWCC 1 cut(s) 103
SmiMI CAYNNNNRTG 2 cut(s) 411, 1000
SmlI CTYRAG 2 cut(s) 182, 913
SmoI CTYRAG 2 cut(s) 182, 913
Sse9I AATT 1 cut(s) 311
SseBI AGGCCT 1 cut(s) 572
SsiI CCGC 4 cut(s) 106, 171, 222, 1061
SspMI CTAG 4 cut(s) 308, 374, 810, 1052
StuI AGGCCT 1 cut(s) 572
StyD4I CCNGG 2 cut(s) 546, 976
StyI CCWWGG 1 cut(s) 99
TaaI ACNGT 5 cut(s) 265, 421, 554, 700, 1018
TaiI ACGT 1 cut(s) 1078
TaqI TCGA 3 cut(s) 85, 147, 559
TaqII GACCGA 1 cut(s) 173
TasI AATT 1 cut(s) 311
TauI GCSGC 1 cut(s) 173
TfiI GAWTC 4 cut(s) 279, 806, 937, 960
Tru1I TTAA 3 cut(s) 348, 353, 567
Tru9I TTAA 3 cut(s) 348, 353, 567
TscAI CASTG 2 cut(s) 367, 424
TseFI GTSAC 1 cut(s) 413
Tsp45I GTSAC 1 cut(s) 413
TspDTI ATGAA 7 cut(s) 17, 271, 399, 467, 878, 984, 1245
TspRI CASTG 2 cut(s) 367, 424
VneI GTGCAC 1 cut(s) 1055
VpaK11BI GGWCC 1 cut(s) 103
XapI RAATTY 1 cut(s) 311
XbaI TCTAGA 1 cut(s) 307
XceI RCATGY 1 cut(s) 323
XmnI GAANNNNTTC 1 cut(s) 8
XspI CTAG 4 cut(s) 308, 374, 810, 1052
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.