Rh5AG135200

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0017100
Physical Location & Seq
Reverse (-)
13801204 .. 13802412
1209 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG135200.1

Sequence Viewer

Length: 1209 bp
ATGGGTACCCAAGTTATGAGATTGATAATGAAGCAGCAGCCCCACTATCGGTTATTGGGTGTTCGGTTGAAAACAACCTCATCACAGTATGTAGCATCAAGAGCCAGAGATCCCACGTTTGAGAAACTAATGGATAAGTACAAGAACCTTGTCAAAGTCGTTGCAGTGCAAGATCTCATCCTGGCAAACCCCAGTGACCCTGCAGTTTCTGTTGATTTTCTCTCCAGGCTCTCCCAAAAACTCCATCTCAACCGTGGTGCAGTCGCCTTCCTCCGCAAATACCCTCATATCTTCCACATATACCATGACCCAATAAAGGGACAGACACGATGCACATTAACTGATACTGCTTTTCGAATTTCAGAAGAAGAAGCAGAGGCTATTAATGCCTCGTTGCCACTTGTTGTTGATCGATTGGTTCGGCTTCTGTCCATGTCGACTTCCAAGATGTTGCCACTGCGCGCCATTTTTAAAGTTTACAGGGAACTTGGGCTTCCTGATGATTTTGAGGAGTCTGTAATATCTAAAAACTCCCAGCTTTTTCAACTTTGCGATGCTCATGAACCCAACACTCATAACTTCAAACTGGTTGGTGCAATTTCTGACAAGTTTGTTGCAGCTGTTGAGAATTGGAGGGTAGAGGAATATTGCAAAGAGGGTTGCAGTGTTGATAGGGCTGAACTTCAGTTTAGTTTTAAGCATGGTTATCCTCCAGGGATGAGGTTAAGAAAGAATTTCAGAGCCAAGGTTAAAGAATGGCAGAAGTTGCCATACATCGGGCCATATGATGAGGTCACAGAGAAGAGGTTGTCTAAAGCTGGAATGATAGTTGGGGAGAAACGAGCAGTTGCAATAGTTCATGAGTTCTTGAATCTGACAGTTGAGAGGATGGTTGAAGTGGAGAAAATCAGTCATTTCAGAAAATGGTTTGGGTTTGATTTGAATATAAGGGATTTGTTCCTGGATCACCCTGGGATGTTTTATTTGTCTACCAAGGGAAAGAGACACACTGTTTTTCTGAGAGAAGCTTATGAGAGAGGGTGTTTGATTCACCCAAATCCGGTTTATAATGCAAGGAGAAAGCTACTGGATCTTGTTGTTTTGGGACGTCATGATATGTTTGGTGACACAAAGATGAGGAGTATTGCTAATAGCAAGGAGGCTGAGTTTCTGGAGCAGTACAATGGAGAAACCTCTGACTCTGATTAG
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

46.46

Weight (kDa)

9.26

Isoelectric Point (pI)

30.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 36 - 370 4.3e-108 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
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) 1068
AatII GACGTC 1 cut(s) 1111
Acc65I GGTACC 1 cut(s) 5
AccB1I GGYRCC 1 cut(s) 5
AccI GTMKAC 2 cut(s) 437, 989
AccII CGCG 1 cut(s) 462
AciI CCGC 1 cut(s) 274
AclWI GGATC 3 cut(s) 104, 972, 1098
AcsI RAATTY 2 cut(s) 357, 733
AcuI CTGAAG 1 cut(s) 668
AcyI GRCGYC 1 cut(s) 1108
AfaI GTAC 3 cut(s) 7, 140, 1181
AfiI CCNNNNNNNGG 5 cut(s) 48, 316, 317, 776, 1060
AgsI TTSAA 6 cut(s) 70, 545, 583, 871, 896, 943
AjnI CCWGG 5 cut(s) 180, 224, 712, 960, 970
AluBI AGCT 5 cut(s) 538, 620, 818, 1028, 1084
AluI AGCT 5 cut(s) 538, 620, 818, 1028, 1084
Alw26I GTCTC 1 cut(s) 997
AlwI GGATC 3 cut(s) 104, 972, 1098
AlwNI CAGNNNCTG 1 cut(s) 209
AoxI GGCC 1 cut(s) 779
ApeKI GCWGC 3 cut(s) 34, 37, 617
ApoI RAATTY 2 cut(s) 357, 733
AseI ATTAAT 1 cut(s) 384
Asp718I GGTACC 1 cut(s) 5
AspLEI GCGC 2 cut(s) 462, 464
AspS9I GGNCC 1 cut(s) 779
AsuHPI GGTGA 3 cut(s) 959, 1043, 1136
AsuII TTCGAA 1 cut(s) 355
BaeI ACNNNNGTAYC 1 cut(s) 30
BanI GGYRCC 1 cut(s) 5
BarI GAAGNNNNNNTAC 2 cut(s) 755, 787
BbvI GCAGC 3 cut(s) 46, 49, 629
BccI CCATC 2 cut(s) 252, 883
BciT130I CCWGG 5 cut(s) 182, 226, 714, 962, 972
BcoDI GTCTC 1 cut(s) 997
BfmI CTRYAG 1 cut(s) 201
BglII AGATCT 1 cut(s) 172
BisI GCNGC 3 cut(s) 35, 38, 618
BlsI GCNGC 3 cut(s) 36, 39, 619
Bme1390I CCNGG 5 cut(s) 182, 226, 714, 962, 972
BmgT120I GGNCC 1 cut(s) 779
BmiI GGNNCC 1 cut(s) 7
BmrFI CCNGG 5 cut(s) 182, 226, 714, 962, 972
BmrI ACTGGG 1 cut(s) 186
BmsI GCATC 3 cut(s) 104, 320, 544
BmuI ACTGGG 1 cut(s) 186
BpmI CTGGAG 3 cut(s) 208, 696, 1193
Bpu14I TTCGAA 1 cut(s) 355
Bsa29I ATCGAT 1 cut(s) 412
BsaHI GRCGYC 1 cut(s) 1108
BsaJI CCNNGG 6 cut(s) 253, 713, 744, 970, 971, 993
BsaWI WCCGGW 1 cut(s) 1060
BsaXI ACNNNNNCTCC 2 cut(s) 1151, 1181
Bsc4I CCNNNNNNNGG 5 cut(s) 48, 316, 317, 776, 1060
Bse1I ACTGG 3 cut(s) 192, 591, 1092
BseBI CCWGG 5 cut(s) 182, 226, 714, 962, 972
BseCI ATCGAT 1 cut(s) 412
BseDI CCNNGG 6 cut(s) 253, 713, 744, 970, 971, 993
BseGI GGATG 4 cut(s) 177, 723, 894, 981
BseLI CCNNNNNNNGG 5 cut(s) 48, 316, 317, 776, 1060
BseMII CTCAG 2 cut(s) 1010, 1155
BseNI ACTGG 3 cut(s) 192, 591, 1092
BsePI GCGCGC 1 cut(s) 460
BseRI GAGGAG 2 cut(s) 524, 1153
BseXI GCAGC 3 cut(s) 46, 49, 629
BseYI CCCAGC 1 cut(s) 534
BsgI GTGCAG 1 cut(s) 279
Bsh1236I CGCG 1 cut(s) 462
BshFI GGCC 1 cut(s) 781
BshNI GGYRCC 1 cut(s) 5
BshVI ATCGAT 1 cut(s) 412
BsiSI CCGG 1 cut(s) 1061
BslFI GGGAC 2 cut(s) 333, 1119
BslI CCNNNNNNNGG 5 cut(s) 48, 316, 317, 776, 1060
BsmAI GTCTC 1 cut(s) 997
BsmFI GGGAC 2 cut(s) 333, 1119
BsnI GGCC 1 cut(s) 781
Bsp119I TTCGAA 1 cut(s) 355
Bsp143I GATC 5 cut(s) 109, 172, 409, 964, 1090
BspACI CCGC 1 cut(s) 274
BspANI GGCC 1 cut(s) 781
BspCNI CTCAG 2 cut(s) 1011, 1156
BspDI ATCGAT 1 cut(s) 412
BspFNI CGCG 1 cut(s) 462
BspHI TCATGA 3 cut(s) 559, 859, 1111
BspLI GGNNCC 1 cut(s) 7
BspMAI CTGCAG 1 cut(s) 205
BspPI GGATC 3 cut(s) 104, 972, 1098
BspT104I TTCGAA 1 cut(s) 355
BspT107I GGYRCC 1 cut(s) 5
BsrI ACTGG 3 cut(s) 192, 591, 1092
BssECI CCNNGG 6 cut(s) 253, 713, 744, 970, 971, 993
BssHII GCGCGC 1 cut(s) 460
BssMI GATC 5 cut(s) 109, 172, 409, 964, 1090
BssNI GRCGYC 1 cut(s) 1108
BssT1I CCWWGG 2 cut(s) 744, 993
Bst2UI CCWGG 5 cut(s) 182, 226, 714, 962, 972
Bst4CI ACNGT 4 cut(s) 87, 254, 880, 1012
Bst6I CTCTTC 1 cut(s) 797
BstACI GRCGYC 1 cut(s) 1108
BstAPI GCANNNNNTGC 1 cut(s) 766
BstBI TTCGAA 1 cut(s) 355
BstC8I GCNNGC 1 cut(s) 462
BstDEI CTNAG 2 cut(s) 1019, 1164
BstDSI CCRYGG 1 cut(s) 253
BstF5I GGATG 4 cut(s) 177, 723, 894, 981
BstFNI CGCG 1 cut(s) 462
BstHHI GCGC 2 cut(s) 462, 464
BstKTI GATC 5 cut(s) 112, 175, 412, 967, 1093
BstMAI GTCTC 1 cut(s) 997
BstMBI GATC 5 cut(s) 109, 172, 409, 964, 1090
BstMWI GCNNNNNNNGC 3 cut(s) 101, 386, 766
BstNI CCWGG 5 cut(s) 182, 226, 714, 962, 972
BstSCI CCNGG 5 cut(s) 180, 224, 712, 960, 970
BstSFI CTRYAG 1 cut(s) 201
BstUI CGCG 1 cut(s) 462
BstV1I GCAGC 3 cut(s) 46, 49, 629
BstX2I RGATCY 3 cut(s) 109, 172, 1090
BstYI RGATCY 3 cut(s) 109, 172, 1090
Bsu15I ATCGAT 1 cut(s) 412
BsuRI GGCC 1 cut(s) 781
BsuTUI ATCGAT 1 cut(s) 412
BtgI CCRYGG 1 cut(s) 253
BtgZI GCGATG 1 cut(s) 567
BtsCI GGATG 4 cut(s) 177, 723, 894, 981
BtsI GCAGTG 3 cut(s) 171, 455, 670
BtsIMutI CAGTG 5 cut(s) 171, 199, 455, 670, 1008
Cac8I GCNNGC 1 cut(s) 462
CaiI CAGNNNCTG 1 cut(s) 209
CciI TCATGA 3 cut(s) 559, 859, 1111
CfoI GCGC 2 cut(s) 462, 464
Cfr13I GGNCC 1 cut(s) 779
ClaI ATCGAT 1 cut(s) 412
Csp6I GTAC 3 cut(s) 6, 139, 1180
CviAII CATG 6 cut(s) 305, 433, 560, 701, 860, 1112
CviQI GTAC 3 cut(s) 6, 139, 1180
DdeI CTNAG 2 cut(s) 1019, 1164
DpnI GATC 5 cut(s) 111, 174, 411, 966, 1092
DpnII GATC 5 cut(s) 109, 172, 409, 964, 1090
DraI TTTAAA 1 cut(s) 472
Eam1104I CTCTTC 1 cut(s) 797
EarI CTCTTC 1 cut(s) 797
Eco130I CCWWGG 2 cut(s) 744, 993
Eco57I CTGAAG 1 cut(s) 668
EcoRII CCWGG 5 cut(s) 180, 224, 712, 960, 970
EcoT14I CCWWGG 2 cut(s) 744, 993
ErhI CCWWGG 2 cut(s) 744, 993
FaeI CATG 6 cut(s) 308, 436, 563, 704, 863, 1115
FaqI GGGAC 2 cut(s) 333, 1119
FatI CATG 6 cut(s) 304, 432, 559, 700, 859, 1111
FauNDI CATATG 1 cut(s) 784
FblI GTMKAC 2 cut(s) 437, 989
Fnu4HI GCNGC 3 cut(s) 35, 38, 618
FokI GGATG 4 cut(s) 164, 730, 901, 988
Fsp4HI GCNGC 3 cut(s) 35, 38, 618
GlaI GCGC 2 cut(s) 461, 463
GluI GCNGC 3 cut(s) 35, 38, 618
GsaI CCCAGC 1 cut(s) 538
GsuI CTGGAG 3 cut(s) 208, 696, 1193
HaeIII GGCC 1 cut(s) 781
HapII CCGG 1 cut(s) 1061
HhaI GCGC 2 cut(s) 462, 464
Hin1I GRCGYC 1 cut(s) 1108
Hin1II CATG 6 cut(s) 308, 436, 563, 704, 863, 1115
Hin6I GCGC 2 cut(s) 460, 462
HinP1I GCGC 2 cut(s) 460, 462
HincII GTYRAC 1 cut(s) 438
HindII GTYRAC 1 cut(s) 438
HindIII AAGCTT 1 cut(s) 1026
HinfI GANTC 4 cut(s) 512, 871, 1048, 1199
HpaII CCGG 1 cut(s) 1061
HphI GGTGA 3 cut(s) 959, 1043, 1136
Hpy166II GTNNAC 3 cut(s) 438, 478, 990
Hpy188I TCNGA 8 cut(s) 364, 604, 740, 876, 920, 1020, 1198, 1204
Hpy188III TCNNGA 7 cut(s) 99, 497, 560, 860, 868, 1112, 1172
Hpy8I GTNNAC 3 cut(s) 438, 478, 990
HpyAV CCTTC 1 cut(s) 277
HpyCH4III ACNGT 4 cut(s) 87, 254, 880, 1012
HpyCH4IV ACGT 2 cut(s) 116, 1108
HpyF10VI GCNNNNNNNGC 3 cut(s) 101, 386, 766
HpyF3I CTNAG 2 cut(s) 1019, 1164
HpySE526I ACGT 2 cut(s) 116, 1108
Hsp92I GRCGYC 1 cut(s) 1108
Hsp92II CATG 6 cut(s) 308, 436, 563, 704, 863, 1115
HspAI GCGC 2 cut(s) 460, 462
KpnI GGTACC 1 cut(s) 9
Kzo9I GATC 5 cut(s) 109, 172, 409, 964, 1090
LmnI GCTCC 1 cut(s) 1174
Lsp1109I GCAGC 3 cut(s) 46, 49, 629
LweI GCATC 3 cut(s) 104, 320, 544
MaeII ACGT 2 cut(s) 116, 1108
MaeIII GTNAC 3 cut(s) 194, 793, 1124
MalI GATC 5 cut(s) 111, 174, 411, 966, 1092
MboI GATC 5 cut(s) 109, 172, 409, 964, 1090
MboII GAAGA 4 cut(s) 283, 377, 380, 814
MflI RGATCY 3 cut(s) 109, 172, 1090
MluCI AATT 4 cut(s) 357, 597, 628, 733
MlyI GAGTC 2 cut(s) 521, 1193
MseI TTAA 6 cut(s) 338, 384, 471, 696, 725, 750
MslI CAYNNNNRTG 1 cut(s) 1133
MspA1I CMGCKG 1 cut(s) 620
MspI CCGG 1 cut(s) 1061
MspR9I CCNGG 5 cut(s) 182, 226, 714, 962, 972
MvaI CCWGG 5 cut(s) 182, 226, 714, 962, 972
MvnI CGCG 1 cut(s) 462
MwoI GCNNNNNNNGC 3 cut(s) 101, 386, 766
NdeI CATATG 1 cut(s) 784
NdeII GATC 5 cut(s) 109, 172, 409, 964, 1090
NlaIII CATG 6 cut(s) 308, 436, 563, 704, 863, 1115
NlaIV GGNNCC 1 cut(s) 7
NmuCI GTSAC 3 cut(s) 194, 793, 1124
NspV TTCGAA 1 cut(s) 355
PagI TCATGA 3 cut(s) 559, 859, 1111
PasI CCCWGGG 1 cut(s) 971
PauI GCGCGC 1 cut(s) 460
PfeI GAWTC 2 cut(s) 871, 1048
PfoI TCCNGGA 1 cut(s) 960
PkrI GCNGC 3 cut(s) 36, 39, 619
PleI GAGTC 2 cut(s) 520, 1193
PpsI GAGTC 2 cut(s) 520, 1193
PshBI ATTAAT 1 cut(s) 384
PsiI TTATAA 1 cut(s) 1068
Psp6I CCWGG 5 cut(s) 180, 224, 712, 960, 970
PspFI CCCAGC 1 cut(s) 534
PspGI CCWGG 5 cut(s) 180, 224, 712, 960, 970
PspN4I GGNNCC 1 cut(s) 7
PspPI GGNCC 1 cut(s) 779
PstI CTGCAG 1 cut(s) 205
PstNI CAGNNNCTG 1 cut(s) 209
PsuI RGATCY 3 cut(s) 109, 172, 1090
PteI GCGCGC 1 cut(s) 460
PvuII CAGCTG 1 cut(s) 620
RsaI GTAC 3 cut(s) 7, 140, 1181
RsaNI GTAC 3 cut(s) 6, 139, 1180
RseI CAYNNNNRTG 1 cut(s) 1133
SalI GTCGAC 1 cut(s) 436
SaqAI TTAA 6 cut(s) 338, 384, 471, 696, 725, 750
SatI GCNGC 3 cut(s) 35, 38, 618
Sau3AI GATC 5 cut(s) 109, 172, 409, 964, 1090
Sau96I GGNCC 1 cut(s) 779
SchI GAGTC 2 cut(s) 521, 1193
ScrFI CCNGG 5 cut(s) 182, 226, 714, 962, 972
SfaNI GCATC 3 cut(s) 104, 320, 544
SfcI CTRYAG 1 cut(s) 201
SfuI TTCGAA 1 cut(s) 355
SmiMI CAYNNNNRTG 1 cut(s) 1133
Sse9I AATT 4 cut(s) 357, 597, 628, 733
SsiI CCGC 1 cut(s) 274
SspI AATATT 1 cut(s) 647
StyD4I CCNGG 5 cut(s) 180, 224, 712, 960, 970
StyI CCWWGG 2 cut(s) 744, 993
TaaI ACNGT 4 cut(s) 87, 254, 880, 1012
TaiI ACGT 2 cut(s) 119, 1111
TaqI TCGA 3 cut(s) 355, 412, 437
TasI AATT 4 cut(s) 357, 597, 628, 733
TatI WGTACW 2 cut(s) 138, 1179
TfiI GAWTC 2 cut(s) 871, 1048
Tru1I TTAA 6 cut(s) 338, 384, 471, 696, 725, 750
Tru9I TTAA 6 cut(s) 338, 384, 471, 696, 725, 750
TscAI CASTG 5 cut(s) 171, 199, 462, 670, 1015
TseFI GTSAC 3 cut(s) 194, 793, 1124
TseI GCWGC 3 cut(s) 34, 37, 617
Tsp45I GTSAC 3 cut(s) 194, 793, 1124
TspDTI ATGAA 3 cut(s) 44, 576, 848
TspRI CASTG 5 cut(s) 171, 199, 462, 670, 1015
VspI ATTAAT 1 cut(s) 384
XapI RAATTY 2 cut(s) 357, 733
XcmI CCANNNNNNNNNTGG 1 cut(s) 251
XmiI GTMKAC 2 cut(s) 437, 989
ZraI GACGTC 1 cut(s) 1109
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.