Rroxscaffold_1G00002130

PPR repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0018016
Physical Location & Seq
Reverse (-)
2561555 .. 2565614
4060 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00002130.1

Sequence Viewer

Length: 1239 bp
ATGTCTCCTCCGCCGCTGTTTGCTTGGAATTCAATCTTCAGGGCCTTTGCGAAGAGCCCAGCTCCGATTGAATCGATCAAGTTTTTCTTTGAGCTGCGTAGAATTGGGCTTAAACCCGACTACTTTACTTACCCTTTTGTTGTGAAAGCCTGCGGTCGATGTAAGATGGTTGGAGTTGGTGGGTTGCTGCAGTGTTTGATTGTGAAAGGTGGTTTTGATTCGGATCGGTATATAGGGAATGCCCTTTTCAGAATGTATGCTGATTGTGGCGCGGTTGGCATTGCGAGGAAGGTGTTTGATGAAATGTCTGTGAGAGATGTGGTTTCTTGGAGCTCTTTGATTGCCGGATATGTTGCTTGCAACTACCCATTGGAAGCCTTTAGAGTGTTTCGAGAGATGAAGCTAGCCAATGAAAAACCAAATTCAGTCACTTTGGTAAGCTTGCTTTCTGCCTGTACCTGTGTACACAATATTAGCACAGGGAAGTCAATTCATTGCTACATTATTGTCCATCCCATAGAGATAGATGTTGCGTTGGGAACTGCTCTGATTGAGATGTATTCCAAGTGTGGGCATGTTGAGAAAGCCTTCCGTATCTTCAATTCAATGAGTGAAAAGAATTTGCAGTCTTGGACTATTATGATTTGTGGTCTTGCCGATCATGGTAGTGGAAACGATGCTATCTTGTTGTTTTCTCGCATGGAACAAGCTGGATTGGTACCGGACAGCATGGCATTTTCTGCTATCTTGAACCACAATGTAGTTTTTACTTTAGATGATAAGTTCAGGAAAGTCCTTAAGTCGGAGTCTCACCTTGGAGCAAACTATGTACTTGCAGCTAATGTATCTTCGGTCTCTGGTTGTTGGAGTGATGCTGCTGATCTCCGACTATCCATGAAACAGAAGGGTGTGGTAAAGGTTCCTGGGTGCAGTTGGGTGGAGGTGGGTGGTAGTTCATCTGGAGATATTTTAAAAGAGACCATAACTTATGTTGTTTACGACGCTGTAATGGCCACTATATCCGAGCTGCTGCAACGTTTGCTGGTGATTTCGCCTTTGCTTTTAGTGATTGTGGTTCATTGGCTCTCCACAGGCAGCCAGGTCAACATTGGGATTCCGGGGTCTGAGCCGGGAGCTATCCACAGAGCTGGGGGATCGCCTTGGGGTGTGGCCTTTGTTTTAGTACTGCTTTTCTTTCTCATATCCTATCAGCCTTCTTTCCTTGGCCTTCTTTTCTAG
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
PPR PPR_2

Protein Analysis

412

Amino Acids

45.02

Weight (kDa)

8.38

Isoelectric Point (pI)

45.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 105 - 152 1.2e-10 PPR repeat family
PPR_2 PF13041 207 - 251 1.9e-06 PPR repeat family
E_motif PF20431 269 - 314 6.1e-12 E motif
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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Orthologous Genes (Group: OG0018016)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g44710
prunus_persica Prupe.6G010900_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0081411
rosa_laevigata RLG00000036932
rosa_multiflora Rmu_sc0007768.1_g000022
rosa_roxburghii Rroxscaffold_1G00002130
rosa_rugosa Rorug05G0476200
rosa_samantha Rh5BG552100 Rh5CG574700 Rh5DG561700
rosa_wichuraiana Rw5G049070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 718
AccB1I GGYRCC 1 cut(s) 718
AccII CGCG 1 cut(s) 272
AciI CCGC 4 cut(s) 11, 14, 153, 272
AclI AACGTT 1 cut(s) 1036
AclWI GGATC 2 cut(s) 231, 1162
AcoI YGGCCR 1 cut(s) 1011
AcsI RAATTY 3 cut(s) 28, 421, 619
AcuI CTGAAG 1 cut(s) 22
AfaI GTAC 5 cut(s) 457, 465, 720, 831, 1185
AfiI CCNNNNNNNGG 2 cut(s) 570, 802
AflII CTTAAG 1 cut(s) 797
AgsI TTSAA 5 cut(s) 33, 71, 601, 606, 751
AjnI CCWGG 2 cut(s) 922, 1098
Alw21I GWGCWC 1 cut(s) 335
Alw26I GTCTC 4 cut(s) 9, 813, 859, 971
AlwI GGATC 2 cut(s) 231, 1162
AoxI GGCC 4 cut(s) 42, 1011, 1170, 1225
ApeKI GCWGC 7 cut(s) 94, 187, 836, 875, 1027, 1030, 1095
ApoI RAATTY 3 cut(s) 28, 421, 619
Asp700I GAANNNNTTC 1 cut(s) 587
Asp718I GGTACC 1 cut(s) 718
AspLEI GCGC 1 cut(s) 272
AspS9I GGNCC 1 cut(s) 42
AsuC2I CCSGG 2 cut(s) 1119, 1131
AsuHPI GGTGA 2 cut(s) 803, 1057
AsuNHI GCTAGC 1 cut(s) 403
BalI TGGCCA 1 cut(s) 1013
BanI GGYRCC 1 cut(s) 718
BanII GRGCYC 2 cut(s) 59, 335
Bbv12I GWGCWC 1 cut(s) 335
BbvI GCAGC 7 cut(s) 81, 174, 848, 862, 1014, 1017, 1107
BccI CCATC 2 cut(s) 160, 519
BciT130I CCWGG 2 cut(s) 924, 1100
BcnI CCSGG 2 cut(s) 1119, 1131
BcoDI GTCTC 4 cut(s) 9, 813, 859, 971
BfaI CTAG 2 cut(s) 404, 1237
BfmI CTRYAG 1 cut(s) 188
BfrI CTTAAG 1 cut(s) 797
BisI GCNGC 8 cut(s) 14, 95, 188, 837, 876, 1028, 1031, 1096
BlsI GCNGC 8 cut(s) 15, 96, 189, 838, 877, 1029, 1032, 1097
BmcAI AGTACT 1 cut(s) 1185
Bme1390I CCNGG 4 cut(s) 924, 1100, 1119, 1131
BmgT120I GGNCC 1 cut(s) 42
BmiI GGNNCC 2 cut(s) 720, 921
BmrFI CCNGG 4 cut(s) 924, 1100, 1119, 1131
BmsI GCATC 2 cut(s) 667, 862
BmtI GCTAGC 1 cut(s) 407
BplI GAGNNNNNCTC 2 cut(s) 46, 78
BpmI CTGGAG 1 cut(s) 981
BpuMI CCSGG 2 cut(s) 1119, 1131
Bsa29I ATCGAT 1 cut(s) 74
BsaBI GATNNNNATC 1 cut(s) 222
BsaI GGTCTC 2 cut(s) 859, 971
BsaJI CCNNGG 5 cut(s) 814, 923, 1118, 1160, 1222
BsaWI WCCGGW 1 cut(s) 721
Bsc4I CCNNNNNNNGG 2 cut(s) 570, 802
Bse3DI GCAATG 2 cut(s) 279, 493
Bse8I GATNNNNATC 1 cut(s) 222
BseBI CCWGG 2 cut(s) 924, 1100
BseCI ATCGAT 1 cut(s) 74
BseDI CCNNGG 5 cut(s) 814, 923, 1118, 1160, 1222
BseGI GGATG 1 cut(s) 511
BseJI GATNNNNATC 1 cut(s) 222
BseLI CCNNNNNNNGG 2 cut(s) 570, 802
BseMI GCAATG 2 cut(s) 279, 493
BseMII CTCAG 1 cut(s) 1116
BseXI GCAGC 7 cut(s) 81, 174, 848, 862, 1014, 1017, 1107
BseYI CCCAGC 2 cut(s) 58, 1148
BsgI GTGCAG 1 cut(s) 949
Bsh1236I CGCG 1 cut(s) 272
Bsh1285I CGRYCG 1 cut(s) 157
BshFI GGCC 4 cut(s) 44, 1013, 1172, 1227
BshNI GGYRCC 1 cut(s) 718
BshVI ATCGAT 1 cut(s) 74
BsiEI CGRYCG 1 cut(s) 157
BsiHKAI GWGCWC 1 cut(s) 335
BsiSI CCGG 4 cut(s) 345, 722, 1118, 1130
BslI CCNNNNNNNGG 2 cut(s) 570, 802
BsmAI GTCTC 4 cut(s) 9, 813, 859, 971
BsmI GAATGC 1 cut(s) 244
BsnI GGCC 4 cut(s) 44, 1013, 1172, 1227
Bso31I GGTCTC 2 cut(s) 859, 971
Bsp1286I GDGCHC 2 cut(s) 59, 335
Bsp1407I TGTACA 1 cut(s) 463
Bsp143I GATC 5 cut(s) 75, 223, 658, 880, 1154
BspACI CCGC 4 cut(s) 11, 14, 153, 272
BspANI GGCC 4 cut(s) 44, 1013, 1172, 1227
BspCNI CTCAG 1 cut(s) 1117
BspDI ATCGAT 1 cut(s) 74
BspFNI CGCG 1 cut(s) 272
BspLI GGNNCC 2 cut(s) 720, 921
BspMAI CTGCAG 1 cut(s) 192
BspOI GCTAGC 1 cut(s) 407
BspPI GGATC 2 cut(s) 231, 1162
BspQI GCTCTTC 1 cut(s) 47
BspT107I GGYRCC 1 cut(s) 718
BspTI CTTAAG 1 cut(s) 797
BspTNI GGTCTC 2 cut(s) 859, 971
BsrDI GCAATG 2 cut(s) 279, 493
BsrGI TGTACA 1 cut(s) 463
BssECI CCNNGG 5 cut(s) 814, 923, 1118, 1160, 1222
BssMI GATC 5 cut(s) 75, 223, 658, 880, 1154
BssT1I CCWWGG 3 cut(s) 814, 1160, 1222
Bst2UI CCWGG 2 cut(s) 924, 1100
Bst6I CTCTTC 1 cut(s) 47
BstAFI CTTAAG 1 cut(s) 797
BstAPI GCANNNNNTGC 2 cut(s) 740, 1039
BstAUI TGTACA 1 cut(s) 463
BstC8I GCNNGC 4 cut(s) 151, 358, 405, 443
BstDEI CTNAG 1 cut(s) 1125
BstF5I GGATG 1 cut(s) 511
BstFNI CGCG 1 cut(s) 272
BstHHI GCGC 1 cut(s) 272
BstKTI GATC 5 cut(s) 78, 226, 661, 883, 1157
BstMAI GTCTC 4 cut(s) 9, 813, 859, 971
BstMBI GATC 5 cut(s) 75, 223, 658, 880, 1154
BstMCI CGRYCG 1 cut(s) 157
BstMWI GCNNNNNNNGC 4 cut(s) 276, 740, 1010, 1039
BstNI CCWGG 2 cut(s) 924, 1100
BstNSI RCATGY 1 cut(s) 578
BstSCI CCNGG 4 cut(s) 922, 1098, 1117, 1129
BstSFI CTRYAG 1 cut(s) 188
BstUI CGCG 1 cut(s) 272
BstV1I GCAGC 7 cut(s) 81, 174, 848, 862, 1014, 1017, 1107
BstXI CCANNNNNNTGG 1 cut(s) 1148
Bsu15I ATCGAT 1 cut(s) 74
BsuRI GGCC 4 cut(s) 44, 1013, 1172, 1227
BsuTUI ATCGAT 1 cut(s) 74
BtsCI GGATG 1 cut(s) 511
BtsI GCAGTG 1 cut(s) 197
BtsIMutI CAGTG 1 cut(s) 197
Cac8I GCNNGC 4 cut(s) 151, 358, 405, 443
CfoI GCGC 1 cut(s) 272
Cfr13I GGNCC 1 cut(s) 42
ClaI ATCGAT 1 cut(s) 74
CseI GACGC 1 cut(s) 1010
Csp6I GTAC 5 cut(s) 456, 464, 719, 830, 1184
CviAII CATG 5 cut(s) 575, 662, 700, 730, 895
CviQI GTAC 5 cut(s) 456, 464, 719, 830, 1184
DdeI CTNAG 1 cut(s) 1125
DpnI GATC 5 cut(s) 77, 225, 660, 882, 1156
DpnII GATC 5 cut(s) 75, 223, 658, 880, 1154
DraI TTTAAA 1 cut(s) 972
EaeI YGGCCR 1 cut(s) 1011
Eam1104I CTCTTC 1 cut(s) 47
EarI CTCTTC 1 cut(s) 47
Ecl136II GAGCTC 1 cut(s) 333
Eco130I CCWWGG 3 cut(s) 814, 1160, 1222
Eco24I GRGCYC 2 cut(s) 59, 335
Eco31I GGTCTC 2 cut(s) 859, 971
Eco53kI GAGCTC 1 cut(s) 333
Eco57I CTGAAG 1 cut(s) 22
EcoICRI GAGCTC 1 cut(s) 333
EcoO109I RGGNCCY 1 cut(s) 42
EcoRI GAATTC 1 cut(s) 28
EcoRII CCWGG 2 cut(s) 922, 1098
EcoT14I CCWWGG 3 cut(s) 814, 1160, 1222
EcoT38I GRGCYC 2 cut(s) 59, 335
ErhI CCWWGG 3 cut(s) 814, 1160, 1222
FaeI CATG 5 cut(s) 578, 665, 703, 733, 898
FalI AAGNNNNNCTT 2 cut(s) 71, 103
FatI CATG 5 cut(s) 574, 661, 699, 729, 894
Fnu4HI GCNGC 8 cut(s) 14, 95, 188, 837, 876, 1028, 1031, 1096
FokI GGATG 1 cut(s) 498
FriOI GRGCYC 2 cut(s) 59, 335
Fsp4HI GCNGC 8 cut(s) 14, 95, 188, 837, 876, 1028, 1031, 1096
FspBI CTAG 2 cut(s) 404, 1237
GlaI GCGC 1 cut(s) 271
GluI GCNGC 8 cut(s) 14, 95, 188, 837, 876, 1028, 1031, 1096
GsaI CCCAGC 2 cut(s) 62, 1152
GsuI CTGGAG 1 cut(s) 981
HaeIII GGCC 4 cut(s) 44, 1013, 1172, 1227
HapII CCGG 4 cut(s) 345, 722, 1118, 1130
HgaI GACGC 1 cut(s) 1010
HhaI GCGC 1 cut(s) 272
Hin1II CATG 5 cut(s) 578, 665, 703, 733, 898
Hin6I GCGC 1 cut(s) 270
HinP1I GCGC 1 cut(s) 270
HincII GTYRAC 1 cut(s) 1105
HindII GTYRAC 1 cut(s) 1105
HindIII AAGCTT 1 cut(s) 439
HinfI GANTC 4 cut(s) 71, 218, 806, 1114
HpaII CCGG 4 cut(s) 345, 722, 1118, 1130
HphI GGTGA 2 cut(s) 803, 1057
Hpy166II GTNNAC 4 cut(s) 464, 466, 997, 1105
Hpy188I TCNGA 8 cut(s) 66, 223, 251, 549, 805, 887, 1024, 1126
Hpy188III TCNNGA 4 cut(s) 392, 748, 787, 960
Hpy8I GTNNAC 4 cut(s) 464, 466, 997, 1105
Hpy99I CGWCG 1 cut(s) 1004
HpyAV CCTTC 5 cut(s) 283, 598, 898, 1224, 1238
HpyCH4IV ACGT 1 cut(s) 1036
HpyCH4V TGCA 6 cut(s) 190, 360, 625, 836, 930, 1033
HpyF10VI GCNNNNNNNGC 4 cut(s) 276, 740, 1010, 1039
HpyF3I CTNAG 1 cut(s) 1125
HpySE526I ACGT 1 cut(s) 1036
Hsp92II CATG 5 cut(s) 578, 665, 703, 733, 898
HspAI GCGC 1 cut(s) 270
KpnI GGTACC 1 cut(s) 722
Kzo9I GATC 5 cut(s) 75, 223, 658, 880, 1154
LguI GCTCTTC 1 cut(s) 47
LmnI GCTCC 4 cut(s) 67, 330, 818, 1133
Lsp1109I GCAGC 7 cut(s) 81, 174, 848, 862, 1014, 1017, 1107
LweI GCATC 2 cut(s) 667, 862
MaeI CTAG 2 cut(s) 404, 1237
MaeII ACGT 1 cut(s) 1036
MaeIII GTNAC 1 cut(s) 427
MalI GATC 5 cut(s) 77, 225, 660, 882, 1156
MboI GATC 5 cut(s) 75, 223, 658, 880, 1154
MboII GAAGA 4 cut(s) 28, 64, 589, 840
MhlI GDGCHC 2 cut(s) 59, 335
MlsI TGGCCA 1 cut(s) 1013
MluCI AATT 6 cut(s) 28, 102, 421, 489, 601, 619
MluNI TGGCCA 1 cut(s) 1013
MlyI GAGTC 1 cut(s) 815
MmeI TCCRAC 4 cut(s) 151, 783, 845, 910
MnlI CCTC 3 cut(s) 18, 279, 934
Mox20I TGGCCA 1 cut(s) 1013
MroXI GAANNNNTTC 1 cut(s) 587
MscI TGGCCA 1 cut(s) 1013
MseI TTAA 3 cut(s) 111, 798, 971
MslI CAYNNNNRTG 1 cut(s) 666
Msp20I TGGCCA 1 cut(s) 1013
MspA1I CMGCKG 1 cut(s) 16
MspCI CTTAAG 1 cut(s) 797
MspI CCGG 4 cut(s) 345, 722, 1118, 1130
MspR9I CCNGG 4 cut(s) 924, 1100, 1119, 1131
Mva1269I GAATGC 1 cut(s) 244
MvaI CCWGG 2 cut(s) 924, 1100
MvnI CGCG 1 cut(s) 272
MwoI GCNNNNNNNGC 4 cut(s) 276, 740, 1010, 1039
NciI CCSGG 2 cut(s) 1119, 1131
NdeII GATC 5 cut(s) 75, 223, 658, 880, 1154
NheI GCTAGC 1 cut(s) 403
NlaIII CATG 5 cut(s) 578, 665, 703, 733, 898
NlaIV GGNNCC 2 cut(s) 720, 921
NmuCI GTSAC 1 cut(s) 427
NspI RCATGY 1 cut(s) 578
PciSI GCTCTTC 1 cut(s) 47
PctI GAATGC 1 cut(s) 244
PdmI GAANNNNTTC 1 cut(s) 587
PfeI GAWTC 3 cut(s) 71, 218, 1114
PkrI GCNGC 8 cut(s) 15, 96, 189, 838, 877, 1029, 1032, 1097
PleI GAGTC 1 cut(s) 814
PpsI GAGTC 1 cut(s) 814
Psp124BI GAGCTC 1 cut(s) 335
Psp1406I AACGTT 1 cut(s) 1036
Psp6I CCWGG 2 cut(s) 922, 1098
PspFI CCCAGC 2 cut(s) 58, 1148
PspGI CCWGG 2 cut(s) 922, 1098
PspN4I GGNNCC 2 cut(s) 720, 921
PspPI GGNCC 1 cut(s) 42
PstI CTGCAG 1 cut(s) 192
RsaI GTAC 5 cut(s) 457, 465, 720, 831, 1185
RsaNI GTAC 5 cut(s) 456, 464, 719, 830, 1184
RseI CAYNNNNRTG 1 cut(s) 666
SacI GAGCTC 1 cut(s) 335
SapI GCTCTTC 1 cut(s) 47
SaqAI TTAA 3 cut(s) 111, 798, 971
SatI GCNGC 8 cut(s) 14, 95, 188, 837, 876, 1028, 1031, 1096
Sau3AI GATC 5 cut(s) 75, 223, 658, 880, 1154
Sau96I GGNCC 1 cut(s) 42
ScaI AGTACT 1 cut(s) 1185
SchI GAGTC 1 cut(s) 815
ScrFI CCNGG 4 cut(s) 924, 1100, 1119, 1131
SduI GDGCHC 2 cut(s) 59, 335
SfaNI GCATC 2 cut(s) 667, 862
SfcI CTRYAG 1 cut(s) 188
SmiMI CAYNNNNRTG 1 cut(s) 666
SmlI CTYRAG 1 cut(s) 797
SmoI CTYRAG 1 cut(s) 797
Sse9I AATT 6 cut(s) 28, 102, 421, 489, 601, 619
SsiI CCGC 4 cut(s) 11, 14, 153, 272
SspI AATATT 1 cut(s) 472
SspMI CTAG 2 cut(s) 404, 1237
SstI GAGCTC 1 cut(s) 335
StyD4I CCNGG 4 cut(s) 922, 1098, 1117, 1129
StyI CCWWGG 3 cut(s) 814, 1160, 1222
TaiI ACGT 1 cut(s) 1039
TaqI TCGA 3 cut(s) 74, 157, 391
TaqII GACCGA 1 cut(s) 841
TasI AATT 6 cut(s) 28, 102, 421, 489, 601, 619
TatI WGTACW 3 cut(s) 463, 829, 1183
TauI GCSGC 1 cut(s) 16
TfiI GAWTC 3 cut(s) 71, 218, 1114
Tru1I TTAA 3 cut(s) 111, 798, 971
Tru9I TTAA 3 cut(s) 111, 798, 971
TscAI CASTG 1 cut(s) 197
TseFI GTSAC 1 cut(s) 427
TseI GCWGC 7 cut(s) 94, 187, 836, 875, 1027, 1030, 1095
Tsp45I GTSAC 1 cut(s) 427
TspDTI ATGAA 7 cut(s) 315, 413, 426, 482, 911, 945, 1067
TspGWI ACGGA 1 cut(s) 581
TspRI CASTG 1 cut(s) 197
Vha464I CTTAAG 1 cut(s) 797
XapI RAATTY 3 cut(s) 28, 421, 619
XceI RCATGY 1 cut(s) 578
XcmI CCANNNNNNNNNTGG 1 cut(s) 1106
XmnI GAANNNNTTC 1 cut(s) 587
XspI CTAG 2 cut(s) 404, 1237
ZrmI AGTACT 1 cut(s) 1185
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.