Rmu_sc0003629.1_g000016

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003629.1
OG0012545
Physical Location & Seq
Forward (+)
82100 .. 83470
1371 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1371 bp
atggtctgtagattatcgactttgctgttgaacgtatgcatatcttcattttgtaaagtccggctattggggagagcggaggccgttataattgatggtataagattaggggtgattccagatgtagtcacttacaatactttggttcatgcatattgtcagtttgttagcgtagatgcggcttattccgttgttcatagaatgaaagaagctgggataagtccagatgtcgttacttacaattctttgatatccggggccaccaggaatcacttattatctcgagtcctggatctgtttgaggaaatgttacaggaaggtatacatcctgatgtgtggagttacaatattctgatgcactgtttctttaagttagggaaacctgatgaagccaacagagtcttccaggatattttacttagcgacctcactcctcatgcagctacatttaatattatgattaatggcctttgtaaaaatgggtacacggacaatgctcttatgttatttaggaatttacaacgtcatggatttgttcccccgttagtgacgtacaatattcttatcagtgggctttgcaaggcacgtagagtggggcaagcgaggagaattctaaaggaccttggagaatcaagtcataagccaaatgccgtaacctacactacagttatgagttgctgctttaggtctaagcaatacgaccaaggacttgagattatgtcagagatgaagagtaaagggtatacatttgacggctttgcgtactgcacagtcattgctgctttacttaagactggaaggatggaaggagcaaatgctttcatggaacagatgatgaatagtggcattgaaatggatttggtgtcttataacaccttacttaataagctttgtaaagaaggcaaggttgaagctgcctataagttgttggatgaaatagagaatgggggccttttgtgtgataagtatacccatacaatcatgattgatggattgtgtaaggcgggcaatattgctggtgctcaacaacatttacattatatgaatatgatgggattccaggaaaacttggttgcctttaactgtctgattgatggcttgggtaaagctggtgaaattgatcgtgcaatggaattgtacaattcaatggaaactagggattcttttacctatgactccttggtgctcaatctttgcaaggctggaagggtcctttgtgcatctaagcttatgatgaaatgtttaagagagggaatgatattactctactctaccaggcgagcactccttgatgggcttcgttcttcagggtttacaaatgaagcaagaaagcttcaatcaaaaattcggttagctcggctgttacgttaa

Protein Analysis

456

Amino Acids

51.08

Weight (kDa)

8.56

Isoelectric Point (pI)

38.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 35 - 85 8.8e-13 Pentatricopeptide repeat domain
PPR_1 PF12854 37 - 69 5.7e-09 PPR repeat
PPR_2 PF13041 40 - 86 1.3e-15 PPR repeat family
TPR_24 PF23276 43 - 137 3.1e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 72 - 103 2.1e-06 PPR repeat
PPR_2 PF13041 75 - 124 1.9e-14 PPR repeat family
PPR PF01535 78 - 108 2.2e-06 PPR repeat
PPR_3 PF13812 99 - 155 8.3e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 107 - 136 2e-06 PPR repeat
PPR_2 PF13041 110 - 159 7.6e-13 PPR repeat family
PPR_1 PF12854 143 - 171 1.1e-08 PPR repeat
PPR_2 PF13041 145 - 194 8e-15 PPR repeat family
PPR PF01535 149 - 178 2.1e-07 PPR repeat
PPR_3 PF13812 169 - 227 4.4e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 177 - 206 5.8e-08 PPR repeat
PPR_2 PF13041 182 - 228 1.5e-12 PPR repeat family
PPR_long PF17177 200 - 314 3.8e-07 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 215 - 263 1e-09 PPR repeat family
PPR PF01535 218 - 247 8.4e-06 PPR repeat
PPR_2 PF13041 253 - 298 1.9e-09 PPR repeat family
TPR_24 PF23276 277 - 383 1.3e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 282 - 313 1.8e-10 PPR repeat
PPR_2 PF13041 286 - 334 4.6e-17 PPR repeat family
PPR PF01535 288 - 317 5e-06 PPR repeat
PPR_1 PF12854 317 - 348 6.3e-07 PPR repeat
PPR_1 PF12854 353 - 384 1.4e-07 PPR repeat
PPR_2 PF13041 356 - 400 3.6e-08 PPR repeat family
PPR PF01535 358 - 386 2e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012545)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G46680
fragaria_vesca FvH4_6g27690
malus_domestica MD07G1055100.v1.1 MD15G1427800.v1.1
prunus_persica Prupe.3G114500_v2.0.a1 Prupe.3G114500_v2.0.a1 Prupe.4G280300_v2.0.a1
pyrus_communis pycom07g04330
rosa_chinensis RchiOBHm_Chr2g0130841
rosa_laevigata RLG00000019152
rosa_multiflora Rmu_sc0003629.1_g000016
rosa_roxburghii Rroxscaffold_2G00113500 Rroxscaffold_4G00318090
rosa_rugosa Rorug02G0293500 Rorug02G0293600
rosa_samantha Rh2AG344900 Rh2BG353300 Rh2DG371200
rosa_wichuraiana Rw2G027470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 89, 870
AccBSI CCGCTC 1 cut(s) 77
AccI GTMKAC 3 cut(s) 322, 743, 968
AciI CCGC 3 cut(s) 77, 179, 1004
AclWI GGATC 1 cut(s) 300
AcsI RAATTY 3 cut(s) 514, 609, 1344
AcuI CTGAAG 1 cut(s) 1290
AfaI GTAC 4 cut(s) 485, 554, 764, 1139
AfiI CCNNNNNNNGG 1 cut(s) 67
AflII CTTAAG 1 cut(s) 788
AgsI TTSAA 5 cut(s) 31, 851, 911, 1146, 1337
AjnI CCWGG 5 cut(s) 263, 288, 405, 1059, 1274
AjuI GAANNNNNNNTTGG 2 cut(s) 386, 418
AluBI AGCT 8 cut(s) 212, 443, 889, 914, 1109, 1228, 1333, 1355
AluI AGCT 8 cut(s) 212, 443, 889, 914, 1109, 1228, 1333, 1355
Alw21I GWGCWC 3 cut(s) 1024, 1188, 1285
AlwI GGATC 1 cut(s) 300
Ama87I CYCGRG 1 cut(s) 282
AoxI GGCC 4 cut(s) 81, 258, 466, 949
ApeKI GCWGC 4 cut(s) 440, 678, 779, 914
ApoI RAATTY 3 cut(s) 514, 609, 1344
AseI ATTAAT 1 cut(s) 462
AspS9I GGNCC 4 cut(s) 258, 619, 949, 1210
AsuC2I CCSGG 1 cut(s) 256
AsuHPI GGTGA 2 cut(s) 124, 1124
AvaI CYCGRG 1 cut(s) 282
AvaII GGWCC 2 cut(s) 619, 1210
BbsI GAAGAC 1 cut(s) 394
Bbv12I GWGCWC 3 cut(s) 1024, 1188, 1285
BbvI GCAGC 4 cut(s) 452, 665, 766, 901
BccI CCATC 6 cut(s) 89, 796, 983, 1045, 1088, 1286
BceAI ACGGC 3 cut(s) 68, 635, 769
BciT130I CCWGG 5 cut(s) 265, 290, 407, 1061, 1276
BcnI CCSGG 1 cut(s) 256
BfaI CTAG 1 cut(s) 1155
BfmI CTRYAG 2 cut(s) 7, 663
BfrI CTTAAG 1 cut(s) 788
BisI GCNGC 5 cut(s) 180, 441, 679, 780, 915
BlsI GCNGC 5 cut(s) 181, 442, 680, 781, 916
Bme1390I CCNGG 6 cut(s) 256, 265, 290, 407, 1061, 1276
Bme18I GGWCC 2 cut(s) 619, 1210
BmeT110I CYCGRG 1 cut(s) 282
BmgT120I GGNCC 4 cut(s) 258, 619, 949, 1210
BmiI GGNNCC 3 cut(s) 259, 950, 1211
BmrFI CCNGG 6 cut(s) 256, 265, 290, 407, 1061, 1276
BmsI GCATC 3 cut(s) 166, 345, 1229
BpiI GAAGAC 1 cut(s) 394
BpuEI CTTGAG 1 cut(s) 731
BpuMI CCSGG 1 cut(s) 256
BsaAI YACGTR 1 cut(s) 587
BsaJI CCNNGG 4 cut(s) 255, 622, 703, 1179
Bsc4I CCNNNNNNNGG 1 cut(s) 67
Bse1I ACTGG 1 cut(s) 799
Bse3DI GCAATG 2 cut(s) 774, 1134
BseBI CCWGG 5 cut(s) 265, 290, 407, 1061, 1276
BseDI CCNNGG 4 cut(s) 255, 622, 703, 1179
BseGI GGATG 3 cut(s) 325, 807, 937
BseLI CCNNNNNNNGG 1 cut(s) 67
BseMI GCAATG 2 cut(s) 774, 1134
BseNI ACTGG 1 cut(s) 799
BseRI GAGGAG 2 cut(s) 423, 619
BseXI GCAGC 4 cut(s) 452, 665, 766, 901
BseYI CCCAGC 1 cut(s) 212
BsgI GTGCAG 1 cut(s) 751
BshFI GGCC 4 cut(s) 83, 260, 468, 951
BsiHKAI GWGCWC 3 cut(s) 1024, 1188, 1285
BsiHKCI CYCGRG 1 cut(s) 282
BsiSI CCGG 2 cut(s) 61, 255
BslI CCNNNNNNNGG 1 cut(s) 67
BsnI GGCC 4 cut(s) 83, 260, 468, 951
BsoBI CYCGRG 1 cut(s) 282
Bsp1286I GDGCHC 3 cut(s) 1024, 1188, 1285
Bsp1407I TGTACA 1 cut(s) 1137
Bsp143I GATC 2 cut(s) 292, 1120
BspACI CCGC 3 cut(s) 77, 179, 1004
BspANI GGCC 4 cut(s) 83, 260, 468, 951
BspHI TCATGA 1 cut(s) 981
BspLI GGNNCC 3 cut(s) 259, 950, 1211
BspPI GGATC 1 cut(s) 300
BspTI CTTAAG 1 cut(s) 788
BsrBI CCGCTC 1 cut(s) 77
BsrDI GCAATG 2 cut(s) 774, 1134
BsrGI TGTACA 1 cut(s) 1137
BsrI ACTGG 1 cut(s) 799
BssECI CCNNGG 4 cut(s) 255, 622, 703, 1179
BssMI GATC 2 cut(s) 292, 1120
BssNAI GTATAC 3 cut(s) 323, 744, 969
BssT1I CCWWGG 3 cut(s) 622, 703, 1179
Bst1107I GTATAC 3 cut(s) 323, 744, 969
Bst2UI CCWGG 5 cut(s) 265, 290, 407, 1061, 1276
Bst4CI ACNGT 4 cut(s) 362, 667, 772, 1085
Bst6I CTCTTC 1 cut(s) 725
BstAFI CTTAAG 1 cut(s) 788
BstAUI TGTACA 1 cut(s) 1137
BstBAI YACGTR 1 cut(s) 587
BstC8I GCNNGC 3 cut(s) 600, 1006, 1281
BstDEI CTNAG 3 cut(s) 419, 690, 1224
BstF5I GGATG 3 cut(s) 325, 807, 937
BstKTI GATC 2 cut(s) 295, 1123
BstMBI GATC 2 cut(s) 292, 1120
BstNI CCWGG 5 cut(s) 265, 290, 407, 1061, 1276
BstSCI CCNGG 6 cut(s) 254, 263, 288, 405, 1059, 1274
BstSFI CTRYAG 2 cut(s) 7, 663
BstV1I GCAGC 4 cut(s) 452, 665, 766, 901
BstV2I GAAGAC 1 cut(s) 394
BstX2I RGATCY 1 cut(s) 292
BstYI RGATCY 1 cut(s) 292
BstZ17I GTATAC 3 cut(s) 323, 744, 969
BsuRI GGCC 4 cut(s) 83, 260, 468, 951
BtsCI GGATG 3 cut(s) 325, 807, 937
BtsIMutI CAGTG 2 cut(s) 358, 574
Cac8I GCNNGC 3 cut(s) 600, 1006, 1281
CciI TCATGA 1 cut(s) 981
Cfr13I GGNCC 4 cut(s) 258, 619, 949, 1210
Csp6I GTAC 4 cut(s) 484, 553, 763, 1138
CviAII CATG 5 cut(s) 149, 437, 527, 823, 982
CviQI GTAC 4 cut(s) 484, 553, 763, 1138
DdeI CTNAG 3 cut(s) 419, 690, 1224
DpnI GATC 2 cut(s) 294, 1122
DpnII GATC 2 cut(s) 292, 1120
Eam1104I CTCTTC 1 cut(s) 725
EarI CTCTTC 1 cut(s) 725
Eco130I CCWWGG 3 cut(s) 622, 703, 1179
Eco32I GATATC 1 cut(s) 252
Eco47I GGWCC 2 cut(s) 619, 1210
Eco57I CTGAAG 1 cut(s) 1290
Eco88I CYCGRG 1 cut(s) 282
EcoO109I RGGNCCY 3 cut(s) 619, 949, 1210
EcoRI GAATTC 1 cut(s) 609
EcoRII CCWGG 5 cut(s) 263, 288, 405, 1059, 1274
EcoRV GATATC 1 cut(s) 252
EcoT14I CCWWGG 3 cut(s) 622, 703, 1179
EcoT22I ATGCAT 2 cut(s) 41, 154
ErhI CCWWGG 3 cut(s) 622, 703, 1179
FaeI CATG 5 cut(s) 152, 440, 530, 826, 985
FatI CATG 5 cut(s) 148, 436, 526, 822, 981
FauI CCCGC 1 cut(s) 997
FblI GTMKAC 3 cut(s) 322, 743, 968
Fnu4HI GCNGC 5 cut(s) 180, 441, 679, 780, 915
FokI GGATG 3 cut(s) 312, 814, 944
Fsp4HI GCNGC 5 cut(s) 180, 441, 679, 780, 915
FspBI CTAG 1 cut(s) 1155
GluI GCNGC 5 cut(s) 180, 441, 679, 780, 915
GsaI CCCAGC 1 cut(s) 216
HaeIII GGCC 4 cut(s) 83, 260, 468, 951
HapII CCGG 2 cut(s) 61, 255
Hin1II CATG 5 cut(s) 152, 440, 530, 826, 985
HindIII AAGCTT 3 cut(s) 887, 1226, 1331
HinfI GANTC 8 cut(s) 115, 268, 285, 399, 629, 1056, 1160, 1175
HpaII CCGG 2 cut(s) 61, 255
HphI GGTGA 2 cut(s) 124, 1124
Hpy166II GTNNAC 5 cut(s) 323, 486, 744, 969, 1314
Hpy188I TCNGA 3 cut(s) 354, 724, 1089
Hpy188III TCNNGA 5 cut(s) 119, 224, 282, 329, 982
Hpy8I GTNNAC 5 cut(s) 323, 486, 744, 969, 1314
HpyAV CCTTC 5 cut(s) 311, 792, 800, 893, 1200
HpyCH4III ACNGT 4 cut(s) 362, 667, 772, 1085
HpyCH4IV ACGT 5 cut(s) 33, 523, 551, 586, 1366
HpyCH4V TGCA 9 cut(s) 39, 152, 358, 440, 579, 768, 1127, 1197, 1220
HpyF3I CTNAG 3 cut(s) 419, 690, 1224
HpySE526I ACGT 5 cut(s) 33, 523, 551, 586, 1366
Hsp92II CATG 5 cut(s) 152, 440, 530, 826, 985
Kzo9I GATC 2 cut(s) 292, 1120
LmnI GCTCC 1 cut(s) 809
Lsp1109I GCAGC 4 cut(s) 452, 665, 766, 901
LweI GCATC 3 cut(s) 166, 345, 1229
MaeI CTAG 1 cut(s) 1155
MaeII ACGT 5 cut(s) 33, 523, 551, 586, 1366
MaeIII GTNAC 7 cut(s) 127, 232, 309, 341, 547, 652, 1362
MalI GATC 2 cut(s) 294, 1122
MbiI CCGCTC 1 cut(s) 77
MboI GATC 2 cut(s) 292, 1120
MboII GAAGA 4 cut(s) 36, 394, 742, 1296
MflI RGATCY 1 cut(s) 292
MhlI GDGCHC 3 cut(s) 1024, 1188, 1285
MluCI AATT 8 cut(s) 90, 241, 514, 609, 1116, 1133, 1141, 1344
MlyI GAGTC 3 cut(s) 294, 408, 1169
MmeI TCCRAC 1 cut(s) 909
MnlI CCTC 6 cut(s) 73, 295, 437, 444, 597, 1243
Mph1103I ATGCAT 2 cut(s) 41, 154
MseI TTAA 8 cut(s) 369, 450, 462, 789, 882, 1080, 1244, 1369
MslI CAYNNNNRTG 2 cut(s) 330, 851
MspCI CTTAAG 1 cut(s) 788
MspI CCGG 2 cut(s) 61, 255
MspR9I CCNGG 6 cut(s) 256, 265, 290, 407, 1061, 1276
MvaI CCWGG 5 cut(s) 265, 290, 407, 1061, 1276
NciI CCSGG 1 cut(s) 256
NdeII GATC 2 cut(s) 292, 1120
NlaIII CATG 5 cut(s) 152, 440, 530, 826, 985
NlaIV GGNNCC 3 cut(s) 259, 950, 1211
NmeAIII GCCGAG 1 cut(s) 1336
NmuCI GTSAC 2 cut(s) 127, 547
NsiI ATGCAT 2 cut(s) 41, 154
PaeR7I CTCGAG 1 cut(s) 282
PagI TCATGA 1 cut(s) 981
PcsI WCGNNNNNNNCGW 1 cut(s) 1363
PfeI GAWTC 5 cut(s) 115, 268, 629, 1056, 1160
PfoI TCCNGGA 3 cut(s) 288, 405, 1059
PkrI GCNGC 5 cut(s) 181, 442, 680, 781, 916
PleI GAGTC 3 cut(s) 293, 407, 1169
PpsI GAGTC 3 cut(s) 293, 407, 1169
Ppu21I YACGTR 1 cut(s) 587
PpuMI RGGWCCY 2 cut(s) 619, 1210
PshBI ATTAAT 1 cut(s) 462
PsiI TTATAA 2 cut(s) 89, 870
Psp5II RGGWCCY 2 cut(s) 619, 1210
Psp6I CCWGG 5 cut(s) 263, 288, 405, 1059, 1274
PspFI CCCAGC 1 cut(s) 212
PspGI CCWGG 5 cut(s) 263, 288, 405, 1059, 1274
PspN4I GGNNCC 3 cut(s) 259, 950, 1211
PspPI GGNCC 4 cut(s) 258, 619, 949, 1210
PspPPI RGGWCCY 2 cut(s) 619, 1210
PsuI RGATCY 1 cut(s) 292
RsaI GTAC 4 cut(s) 485, 554, 764, 1139
RsaNI GTAC 4 cut(s) 484, 553, 763, 1138
RseI CAYNNNNRTG 2 cut(s) 330, 851
SaqAI TTAA 8 cut(s) 369, 450, 462, 789, 882, 1080, 1244, 1369
SatI GCNGC 5 cut(s) 180, 441, 679, 780, 915
Sau3AI GATC 2 cut(s) 292, 1120
Sau96I GGNCC 4 cut(s) 258, 619, 949, 1210
SchI GAGTC 3 cut(s) 294, 408, 1169
ScrFI CCNGG 6 cut(s) 256, 265, 290, 407, 1061, 1276
SduI GDGCHC 3 cut(s) 1024, 1188, 1285
SfaNI GCATC 3 cut(s) 166, 345, 1229
SfcI CTRYAG 2 cut(s) 7, 663
Sfr274I CTCGAG 1 cut(s) 282
SinI GGWCC 2 cut(s) 619, 1210
SlaI CTCGAG 1 cut(s) 282
SmiMI CAYNNNNRTG 2 cut(s) 330, 851
SmlI CTYRAG 3 cut(s) 282, 710, 788
SmoI CTYRAG 3 cut(s) 282, 710, 788
Sse9I AATT 8 cut(s) 90, 241, 514, 609, 1116, 1133, 1141, 1344
SsiI CCGC 3 cut(s) 77, 179, 1004
SspI AATATT 4 cut(s) 349, 454, 559, 1012
SspMI CTAG 1 cut(s) 1155
StyD4I CCNGG 6 cut(s) 254, 263, 288, 405, 1059, 1274
StyI CCWWGG 3 cut(s) 622, 703, 1179
TaaI ACNGT 4 cut(s) 362, 667, 772, 1085
TaiI ACGT 5 cut(s) 36, 526, 554, 589, 1369
TaqI TCGA 2 cut(s) 17, 283
TasI AATT 8 cut(s) 90, 241, 514, 609, 1116, 1133, 1141, 1344
TatI WGTACW 1 cut(s) 1137
TauI GCSGC 1 cut(s) 182
TfiI GAWTC 5 cut(s) 115, 268, 629, 1056, 1160
Tru1I TTAA 8 cut(s) 369, 450, 462, 789, 882, 1080, 1244, 1369
Tru9I TTAA 8 cut(s) 369, 450, 462, 789, 882, 1080, 1244, 1369
TscAI CASTG 2 cut(s) 365, 574
TseFI GTSAC 2 cut(s) 127, 547
TseI GCWGC 4 cut(s) 440, 678, 779, 914
Tsp45I GTSAC 2 cut(s) 127, 547
TspGWI ACGGA 2 cut(s) 178, 503
TspRI CASTG 2 cut(s) 365, 574
Vha464I CTTAAG 1 cut(s) 788
VpaK11BI GGWCC 2 cut(s) 619, 1210
VspI ATTAAT 1 cut(s) 462
XapI RAATTY 3 cut(s) 514, 609, 1344
XhoI CTCGAG 1 cut(s) 282
XmiI GTMKAC 3 cut(s) 322, 743, 968
XspI CTAG 1 cut(s) 1155
Zsp2I ATGCAT 2 cut(s) 41, 154
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.