Rh5BG133800

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0017100
Physical Location & Seq
Reverse (-)
13297735 .. 13298943
1209 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG133800.1

Sequence Viewer

Length: 1209 bp
ATGGGTACCCAAGTTATGAGATTGATAATGAAGCAGCCCCAGTATCGGTTATTGGGTGTTCGGTTGAAAACAACCTCATCACAGTATGTAGCATCAAGAGCCAGAGATCCCACATTTGAGAAATTAATGGATAAGTACAAGAACCTTGTCAAAGTCGTTGCAGTGCAAGATCTCATCCTCGCAAACCCCAGTGACCCTGCAGTTTCTGTTGATTTTCTCTCCAGGCTCTCCCAAAAGCTCCATCTCAACCGTGGTGCAGTCGCCTTCCTCCGCAAATACCCTCATATCTTCCACATTTACCATGACCCAATAAAGGGACAGACCCGATGCACATTAACTGATACTGCTTTTCGAATTTCAGAAGAAGAAGCAGAGGCTATTAATGCCTCATTGCCACTTGTTGTTGATCGATTGGTTCGGCTTCTGTCCATGTCGACTTCCAAGATGTTGCCACTGCGCGCCATTTTTAAAGTTTGCAGGGAACTTGGGCTTCCTGATGATTTTGAGGAGTCTGTAATATCTAAAAACTCCCAGCTTTTTCAACTTTGCGATGCTCATGAACCCAACACTCATAACTTGAAACTGGTTGGTGCAATTTCTGACAAGTTTGTTGCAGCTGTTGAGAATTGGAGGGTAGAGGAATATTGCAAAGAGGGTTGCAGTGTTGATAGGGCTGAACTTCAGTTTAGTTTTAAGCATGGATATCCTCCAGGGATGAGGTTAAGAAAGAATTTTAGAGCCAAGGTTAAAGAATGGCAGAAGTTGCCATACATCGGGCCATATGATGAGGTCACAGAGAAGAGGTTGTCTAAAGCTGGAATGATAGTTGGGGAGAAACGAGCAGTTGCAATAGTTCATGAGTTCTTGAATCTGACAGTTGAGAGGATGGTTGAAGTGGAGAAAATCAGTCATTTCAGAAAATGGTTTGGGTTTGATTTGAATATAAGGGATTTGTTCCTGGATCACCCTGGGATGTTTTATTTGTCTACCAAGGGAAAGAGACACACTGTTTTTCTGAGAGAAGCTTATGAGAGAGGGTGTTTGATTCACCCAAATCCGGTTTATAATGCAAGGAGAAAGCTACTGGATCTTGTTGTTTTGGGACGTCATGATATGTTTACTGGTGACACAAAGATGAGGAGTATTGCTAATAGCAAGGAGGCTGAGTTTCTGGAGCAGTACAATGGAGAAACCTCCGACTCTGATTAG
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

402

Amino Acids

46.33

Weight (kDa)

9.23

Isoelectric Point (pI)

30.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 35 - 369 7.8e-109 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: OG0017100)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G06440
fragaria_vesca FvH4_3g11420 FvH4_3g11420 FvH4_3g11420
prunus_persica Prupe.4G102100_v2.0.a1
rosa_laevigata RLG00000032356
rosa_multiflora Rmu_sc0004464.1_g000003
rosa_rugosa Rorug05G0041900
rosa_samantha Rh5AG135200 Rh5BG133800 Rh5CG145600 Rh5DG135200
rosa_wichuraiana Rw5G011810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1065
AatII GACGTC 1 cut(s) 1108
Acc65I GGTACC 1 cut(s) 5
AccB1I GGYRCC 1 cut(s) 5
AccI GTMKAC 2 cut(s) 434, 986
AccII CGCG 1 cut(s) 459
AciI CCGC 1 cut(s) 271
AclWI GGATC 3 cut(s) 101, 969, 1095
AcsI RAATTY 2 cut(s) 354, 730
AcuI CTGAAG 1 cut(s) 665
AcyI GRCGYC 1 cut(s) 1105
AfaI GTAC 3 cut(s) 7, 137, 1181
AfiI CCNNNNNNNGG 5 cut(s) 45, 313, 314, 773, 1057
AgsI TTSAA 6 cut(s) 67, 542, 580, 868, 893, 940
AjnI CCWGG 4 cut(s) 221, 709, 957, 967
AluBI AGCT 6 cut(s) 238, 535, 617, 815, 1025, 1081
AluI AGCT 6 cut(s) 238, 535, 617, 815, 1025, 1081
Alw26I GTCTC 1 cut(s) 994
AlwI GGATC 3 cut(s) 101, 969, 1095
AlwNI CAGNNNCTG 1 cut(s) 206
AoxI GGCC 1 cut(s) 776
ApeKI GCWGC 2 cut(s) 34, 614
ApoI RAATTY 2 cut(s) 354, 730
AseI ATTAAT 2 cut(s) 125, 381
Asp718I GGTACC 1 cut(s) 5
AspLEI GCGC 2 cut(s) 459, 461
AspS9I GGNCC 1 cut(s) 776
AsuHPI GGTGA 3 cut(s) 956, 1040, 1136
AsuII TTCGAA 1 cut(s) 352
BaeI ACNNNNGTAYC 1 cut(s) 30
BanI GGYRCC 1 cut(s) 5
BarI GAAGNNNNNNTAC 2 cut(s) 752, 784
BbvI GCAGC 2 cut(s) 46, 626
BccI CCATC 2 cut(s) 249, 880
BciT130I CCWGG 4 cut(s) 223, 711, 959, 969
BcoDI GTCTC 1 cut(s) 994
BfmI CTRYAG 1 cut(s) 198
BglII AGATCT 1 cut(s) 169
BisI GCNGC 2 cut(s) 35, 615
BlsI GCNGC 2 cut(s) 36, 616
Bme1390I CCNGG 4 cut(s) 223, 711, 959, 969
BmgT120I GGNCC 1 cut(s) 776
BmiI GGNNCC 1 cut(s) 7
BmrFI CCNGG 4 cut(s) 223, 711, 959, 969
BmrI ACTGGG 2 cut(s) 34, 183
BmsI GCATC 3 cut(s) 101, 317, 541
BmuI ACTGGG 2 cut(s) 34, 183
BpmI CTGGAG 3 cut(s) 205, 693, 1193
Bpu14I TTCGAA 1 cut(s) 352
Bsa29I ATCGAT 1 cut(s) 409
BsaHI GRCGYC 1 cut(s) 1105
BsaJI CCNNGG 6 cut(s) 250, 710, 741, 967, 968, 990
BsaWI WCCGGW 1 cut(s) 1057
BsaXI ACNNNNNCTCC 2 cut(s) 1151, 1181
Bsc4I CCNNNNNNNGG 5 cut(s) 45, 313, 314, 773, 1057
Bse1I ACTGG 5 cut(s) 40, 189, 588, 1089, 1126
Bse3DI GCAATG 1 cut(s) 389
BseBI CCWGG 4 cut(s) 223, 711, 959, 969
BseCI ATCGAT 1 cut(s) 409
BseDI CCNNGG 6 cut(s) 250, 710, 741, 967, 968, 990
BseGI GGATG 4 cut(s) 174, 720, 891, 978
BseLI CCNNNNNNNGG 5 cut(s) 45, 313, 314, 773, 1057
BseMI GCAATG 1 cut(s) 389
BseMII CTCAG 2 cut(s) 1007, 1155
BseNI ACTGG 5 cut(s) 40, 189, 588, 1089, 1126
BsePI GCGCGC 1 cut(s) 457
BseRI GAGGAG 2 cut(s) 521, 1153
BseXI GCAGC 2 cut(s) 46, 626
BseYI CCCAGC 1 cut(s) 531
BsgI GTGCAG 1 cut(s) 276
Bsh1236I CGCG 1 cut(s) 459
BshFI GGCC 1 cut(s) 778
BshNI GGYRCC 1 cut(s) 5
BshVI ATCGAT 1 cut(s) 409
BsiSI CCGG 1 cut(s) 1058
BslFI GGGAC 2 cut(s) 330, 1116
BslI CCNNNNNNNGG 5 cut(s) 45, 313, 314, 773, 1057
BsmAI GTCTC 1 cut(s) 994
BsmFI GGGAC 2 cut(s) 330, 1116
BsnI GGCC 1 cut(s) 778
Bsp119I TTCGAA 1 cut(s) 352
Bsp143I GATC 5 cut(s) 106, 169, 406, 961, 1087
BspACI CCGC 1 cut(s) 271
BspANI GGCC 1 cut(s) 778
BspCNI CTCAG 2 cut(s) 1008, 1156
BspDI ATCGAT 1 cut(s) 409
BspFNI CGCG 1 cut(s) 459
BspHI TCATGA 3 cut(s) 556, 856, 1108
BspLI GGNNCC 1 cut(s) 7
BspMAI CTGCAG 1 cut(s) 202
BspPI GGATC 3 cut(s) 101, 969, 1095
BspT104I TTCGAA 1 cut(s) 352
BspT107I GGYRCC 1 cut(s) 5
BsrDI GCAATG 1 cut(s) 389
BsrI ACTGG 5 cut(s) 40, 189, 588, 1089, 1126
BssECI CCNNGG 6 cut(s) 250, 710, 741, 967, 968, 990
BssHII GCGCGC 1 cut(s) 457
BssMI GATC 5 cut(s) 106, 169, 406, 961, 1087
BssNI GRCGYC 1 cut(s) 1105
BssT1I CCWWGG 2 cut(s) 741, 990
Bst2UI CCWGG 4 cut(s) 223, 711, 959, 969
Bst4CI ACNGT 4 cut(s) 84, 251, 877, 1009
Bst6I CTCTTC 1 cut(s) 794
BstACI GRCGYC 1 cut(s) 1105
BstAPI GCANNNNNTGC 1 cut(s) 763
BstBI TTCGAA 1 cut(s) 352
BstC8I GCNNGC 1 cut(s) 459
BstDEI CTNAG 2 cut(s) 1016, 1164
BstDSI CCRYGG 1 cut(s) 250
BstF5I GGATG 4 cut(s) 174, 720, 891, 978
BstFNI CGCG 1 cut(s) 459
BstHHI GCGC 2 cut(s) 459, 461
BstKTI GATC 5 cut(s) 109, 172, 409, 964, 1090
BstMAI GTCTC 1 cut(s) 994
BstMBI GATC 5 cut(s) 106, 169, 406, 961, 1087
BstMWI GCNNNNNNNGC 3 cut(s) 98, 383, 763
BstNI CCWGG 4 cut(s) 223, 711, 959, 969
BstSCI CCNGG 4 cut(s) 221, 709, 957, 967
BstSFI CTRYAG 1 cut(s) 198
BstUI CGCG 1 cut(s) 459
BstV1I GCAGC 2 cut(s) 46, 626
BstX2I RGATCY 3 cut(s) 106, 169, 1087
BstYI RGATCY 3 cut(s) 106, 169, 1087
Bsu15I ATCGAT 1 cut(s) 409
BsuRI GGCC 1 cut(s) 778
BsuTUI ATCGAT 1 cut(s) 409
BtgI CCRYGG 1 cut(s) 250
BtgZI GCGATG 1 cut(s) 564
BtsCI GGATG 4 cut(s) 174, 720, 891, 978
BtsI GCAGTG 3 cut(s) 168, 452, 667
BtsIMutI CAGTG 5 cut(s) 168, 196, 452, 667, 1005
Cac8I GCNNGC 1 cut(s) 459
CaiI CAGNNNCTG 1 cut(s) 206
CciI TCATGA 3 cut(s) 556, 856, 1108
CfoI GCGC 2 cut(s) 459, 461
Cfr13I GGNCC 1 cut(s) 776
ClaI ATCGAT 1 cut(s) 409
Csp6I GTAC 3 cut(s) 6, 136, 1180
CviAII CATG 6 cut(s) 302, 430, 557, 698, 857, 1109
CviQI GTAC 3 cut(s) 6, 136, 1180
DdeI CTNAG 2 cut(s) 1016, 1164
DpnI GATC 5 cut(s) 108, 171, 408, 963, 1089
DpnII GATC 5 cut(s) 106, 169, 406, 961, 1087
DraI TTTAAA 1 cut(s) 469
Eam1104I CTCTTC 1 cut(s) 794
EarI CTCTTC 1 cut(s) 794
Eco130I CCWWGG 2 cut(s) 741, 990
Eco32I GATATC 1 cut(s) 704
Eco57I CTGAAG 1 cut(s) 665
EcoRII CCWGG 4 cut(s) 221, 709, 957, 967
EcoRV GATATC 1 cut(s) 704
EcoT14I CCWWGG 2 cut(s) 741, 990
ErhI CCWWGG 2 cut(s) 741, 990
FaeI CATG 6 cut(s) 305, 433, 560, 701, 860, 1112
FaqI GGGAC 2 cut(s) 330, 1116
FatI CATG 6 cut(s) 301, 429, 556, 697, 856, 1108
FauNDI CATATG 1 cut(s) 781
FblI GTMKAC 2 cut(s) 434, 986
Fnu4HI GCNGC 2 cut(s) 35, 615
FokI GGATG 4 cut(s) 161, 727, 898, 985
Fsp4HI GCNGC 2 cut(s) 35, 615
GlaI GCGC 2 cut(s) 458, 460
GluI GCNGC 2 cut(s) 35, 615
GsaI CCCAGC 1 cut(s) 535
GsuI CTGGAG 3 cut(s) 205, 693, 1193
HaeIII GGCC 1 cut(s) 778
HapII CCGG 1 cut(s) 1058
HhaI GCGC 2 cut(s) 459, 461
Hin1I GRCGYC 1 cut(s) 1105
Hin1II CATG 6 cut(s) 305, 433, 560, 701, 860, 1112
Hin6I GCGC 2 cut(s) 457, 459
HinP1I GCGC 2 cut(s) 457, 459
HincII GTYRAC 1 cut(s) 435
HindII GTYRAC 1 cut(s) 435
HindIII AAGCTT 1 cut(s) 1023
HinfI GANTC 4 cut(s) 509, 868, 1045, 1199
HpaII CCGG 1 cut(s) 1058
HphI GGTGA 3 cut(s) 956, 1040, 1136
Hpy166II GTNNAC 3 cut(s) 435, 987, 1119
Hpy188I TCNGA 7 cut(s) 361, 601, 873, 917, 1017, 1198, 1204
Hpy188III TCNNGA 7 cut(s) 96, 494, 557, 857, 865, 1109, 1172
Hpy8I GTNNAC 3 cut(s) 435, 987, 1119
HpyAV CCTTC 1 cut(s) 274
HpyCH4III ACNGT 4 cut(s) 84, 251, 877, 1009
HpyCH4IV ACGT 1 cut(s) 1105
HpyF10VI GCNNNNNNNGC 3 cut(s) 98, 383, 763
HpyF3I CTNAG 2 cut(s) 1016, 1164
HpySE526I ACGT 1 cut(s) 1105
Hsp92I GRCGYC 1 cut(s) 1105
Hsp92II CATG 6 cut(s) 305, 433, 560, 701, 860, 1112
HspAI GCGC 2 cut(s) 457, 459
KpnI GGTACC 1 cut(s) 9
Kzo9I GATC 5 cut(s) 106, 169, 406, 961, 1087
LmnI GCTCC 2 cut(s) 243, 1174
Lsp1109I GCAGC 2 cut(s) 46, 626
LweI GCATC 3 cut(s) 101, 317, 541
MaeII ACGT 1 cut(s) 1105
MaeIII GTNAC 3 cut(s) 191, 790, 1124
MalI GATC 5 cut(s) 108, 171, 408, 963, 1089
MboI GATC 5 cut(s) 106, 169, 406, 961, 1087
MboII GAAGA 4 cut(s) 280, 374, 377, 811
MflI RGATCY 3 cut(s) 106, 169, 1087
MluCI AATT 5 cut(s) 122, 354, 594, 625, 730
MlyI GAGTC 2 cut(s) 518, 1193
MseI TTAA 7 cut(s) 125, 335, 381, 468, 693, 722, 747
MslI CAYNNNNRTG 1 cut(s) 1133
MspA1I CMGCKG 1 cut(s) 617
MspI CCGG 1 cut(s) 1058
MspR9I CCNGG 4 cut(s) 223, 711, 959, 969
MvaI CCWGG 4 cut(s) 223, 711, 959, 969
MvnI CGCG 1 cut(s) 459
MwoI GCNNNNNNNGC 3 cut(s) 98, 383, 763
NdeI CATATG 1 cut(s) 781
NdeII GATC 5 cut(s) 106, 169, 406, 961, 1087
NlaIII CATG 6 cut(s) 305, 433, 560, 701, 860, 1112
NlaIV GGNNCC 1 cut(s) 7
NmuCI GTSAC 3 cut(s) 191, 790, 1124
NspV TTCGAA 1 cut(s) 352
PagI TCATGA 3 cut(s) 556, 856, 1108
PasI CCCWGGG 1 cut(s) 968
PauI GCGCGC 1 cut(s) 457
PfeI GAWTC 2 cut(s) 868, 1045
PfoI TCCNGGA 1 cut(s) 957
PkrI GCNGC 2 cut(s) 36, 616
PleI GAGTC 2 cut(s) 517, 1193
PpsI GAGTC 2 cut(s) 517, 1193
PshBI ATTAAT 2 cut(s) 125, 381
PsiI TTATAA 1 cut(s) 1065
Psp6I CCWGG 4 cut(s) 221, 709, 957, 967
PspFI CCCAGC 1 cut(s) 531
PspGI CCWGG 4 cut(s) 221, 709, 957, 967
PspN4I GGNNCC 1 cut(s) 7
PspPI GGNCC 1 cut(s) 776
PstI CTGCAG 1 cut(s) 202
PstNI CAGNNNCTG 1 cut(s) 206
PsuI RGATCY 3 cut(s) 106, 169, 1087
PteI GCGCGC 1 cut(s) 457
PvuII CAGCTG 1 cut(s) 617
RsaI GTAC 3 cut(s) 7, 137, 1181
RsaNI GTAC 3 cut(s) 6, 136, 1180
RseI CAYNNNNRTG 1 cut(s) 1133
SalI GTCGAC 1 cut(s) 433
SaqAI TTAA 7 cut(s) 125, 335, 381, 468, 693, 722, 747
SatI GCNGC 2 cut(s) 35, 615
Sau3AI GATC 5 cut(s) 106, 169, 406, 961, 1087
Sau96I GGNCC 1 cut(s) 776
SchI GAGTC 2 cut(s) 518, 1193
ScrFI CCNGG 4 cut(s) 223, 711, 959, 969
SfaNI GCATC 3 cut(s) 101, 317, 541
SfcI CTRYAG 1 cut(s) 198
SfuI TTCGAA 1 cut(s) 352
SmiMI CAYNNNNRTG 1 cut(s) 1133
Sse9I AATT 5 cut(s) 122, 354, 594, 625, 730
SsiI CCGC 1 cut(s) 271
SspI AATATT 1 cut(s) 644
StyD4I CCNGG 4 cut(s) 221, 709, 957, 967
StyI CCWWGG 2 cut(s) 741, 990
TaaI ACNGT 4 cut(s) 84, 251, 877, 1009
TaiI ACGT 1 cut(s) 1108
TaqI TCGA 3 cut(s) 352, 409, 434
TasI AATT 5 cut(s) 122, 354, 594, 625, 730
TatI WGTACW 2 cut(s) 135, 1179
TfiI GAWTC 2 cut(s) 868, 1045
Tru1I TTAA 7 cut(s) 125, 335, 381, 468, 693, 722, 747
Tru9I TTAA 7 cut(s) 125, 335, 381, 468, 693, 722, 747
TscAI CASTG 5 cut(s) 168, 196, 459, 667, 1012
TseFI GTSAC 3 cut(s) 191, 790, 1124
TseI GCWGC 2 cut(s) 34, 614
Tsp45I GTSAC 3 cut(s) 191, 790, 1124
TspDTI ATGAA 3 cut(s) 44, 573, 845
TspRI CASTG 5 cut(s) 168, 196, 459, 667, 1012
VspI ATTAAT 2 cut(s) 125, 381
XapI RAATTY 2 cut(s) 354, 730
XcmI CCANNNNNNNNNTGG 1 cut(s) 248
XmiI GTMKAC 2 cut(s) 434, 986
ZraI GACGTC 1 cut(s) 1106
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.