Rroxscaffold_1G00004300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014707
Physical Location & Seq
Reverse (-)
6007391 .. 6008983
1593 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00004300.1

Sequence Viewer

Length: 1593 bp
ATGAAAACACCATCTTTCTCATTGTTCAAGTTCTCCCCAGACCATTTCGCTTATTGCTTGCAAAACTGCCTGAAAGCAAAGACTTTGAGACAAGGGAAGCAAGTCCATGCAGTGTTGTTATCATCTGGGGTTGACATGAACTTGTTATCTTTGAGTTCAAAGCTTGTGGGTATGTATGCAAGTTGTGGGGACGTGAGTTCTGCACGGAAGGTGTTCGATAAAATTCCCAAACCAAATGTGTTTTCATTGAATTGGATGGTGTTTGCTTCGGCGTTTAATGGGTGGTTTGAGCAAGCAATTGGGTACTTTTGTTTGATGCGAGAGTTGGGAATAGTTGCCAATAAGTTCAGTTTTCCGGTCATGCTTAAAGTTTGTGTTGGTTTGATGGATTTGAATAAGGGAAAGGAGGTTCATGCTGTGGTGTATAAGATGGGGTTTGAAAAGGATGTTGCTTTGGGAAATGCATTGGTTGATATGTATTGCAAATGTGGAAGCTTGTGTTATGGTCATCGTGTTTTTGATCGAATGTTTGAAAGAGATGTGGCTTCTTGGACATCTATGATATGTGGGTATTGTAATGTAGGAAGGACTGATCAAGCGGCAATGTTGTTTGAGAGGATGAAGTTGGATGGATTGGAACCAAATGATTTCACATGGAATGCATTGATAGCTGGGTATGCTCGGAGTGGAGATAGCAATCGAGCATATGTGCTACTATCTAGGATGACAAAAGAAGGATTGGTTCCTGATTTGGTTACATGGAATGCAATAATTTCAGGTTTTGCCCAAAGCCAGGGGGCAGGTGAAGCTTTTAAGTTGTTCAGTGCTATGTTAGTGTCTGGAATTAAGCCCAACCTTGTCACTATCACAGGATTGCTCCCAGCTTGTGGAGTGCTTGGTTCAGTTGAAAGAGGGAGAGAAATTCATGGATTGATATGTAGGATGGGATTTGACATAAATGTCTTTGTTGCTAGTGCTCTTATTGACATGTACTCGAAATGTGGCAGTGTGAAAAATGCTCGAAGTGTATTTGACTGGACTCCTGTTTACAATGTTGCGTCGTGGAATGCAATGATTGGATGTTATGGTAAGCATGGTATGGTTGATTCTGCTGTAGAGCTTTTCGAAAGAATGCAAGAGGGAGGAGTTCAGGCTAATGAAGTGACTTTGAGTTGTGTACTTTCTGCATGCAGCCATGGTGGTTCTGTAGAAAAGGGTTTAGAGATATTCAGGTCCATGAAAGATAGCCATGGAGTTGAGGCAAGTAAAGAACATTATGGTTGTGTCATCGATCTCTTGTGCCGTTCAGGGAAGATGGTAGAAGCTTATGAGTTTGTGAAGTCCATTCCTATAGAAGTCACTGAATCCATTATTGGAGCTTTGCTCAACGGGTGTAAAGTCCATGGAAGAAGAGATCTTGCTAAATTGATGGCTCAGGATATTCTGAAAATGGAGTTAAAGAGACCTGGAGGTTTTGTAACACTTTCAAATATATATGCTGCTGATGGAGAATGGGAAGAAGTTGAGTATGTAAGGAAGGTGATGAAGCAGAGGAAGGTCCTTAAGAAACCTGGATTTAGTTCACTCGATTAA
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 PPR_3

Protein Analysis

530

Amino Acids

58.46

Weight (kDa)

8.57

Isoelectric Point (pI)

29.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 177 - 208 4e-07 PPR repeat
PPR_3 PF13812 177 - 224 2.3e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 179 - 220 4.5e-11 PPR repeat family
PPR PF01535 183 - 212 4e-07 PPR repeat
PPR_long PF17177 198 - 304 9.7e-09 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 210 - 243 2e-07 PPR repeat
PPR_3 PF13812 210 - 261 1.5e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 214 - 262 2e-12 PPR repeat family
PPR PF01535 217 - 247 3.8e-06 PPR repeat
PPR_3 PF13812 238 - 297 2.8e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 249 - 296 9.6e-11 PPR repeat family
PPR_long PF17177 349 - 472 3.8e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 350 - 379 3e-06 PPR repeat
PPR_2 PF13041 351 - 398 1.3e-12 PPR repeat family
PPR PF01535 354 - 383 8.5e-10 PPR repeat
E_motif PF20431 472 - 528 9e-13 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014707)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g43470
malus_domestica MD11G1024300.v1.1
prunus_persica Prupe.6G020300_v2.0.a1
pyrus_communis pycom11g01920
rosa_chinensis RchiOBHm_Chr5g0077881
rosa_laevigata RLG00000036722
rosa_multiflora Rmu_co8015760.1_g000001 Rmu_sc0031428.1_g000002 Rmu_ssc0000186.1_g000002
rosa_roxburghii Rroxscaffold_1G00004300
rosa_rugosa Rorug05G0456900 Rorug05G0456900
rosa_samantha Rh5AG511300 Rh5BG534000 Rh5CG557500 Rh5DG545500
rosa_wichuraiana Rw5G047450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 791
AasI GACNNNNNNGTC 1 cut(s) 959
Acc36I ACCTGC 1 cut(s) 791
AccB7I CCANNNNNTGG 1 cut(s) 887
AciI CCGC 1 cut(s) 599
AcsI RAATTY 2 cut(s) 222, 921
AfaI GTAC 3 cut(s) 305, 992, 1179
AfiI CCNNNNNNNGG 2 cut(s) 793, 887
AflII CTTAAG 1 cut(s) 1562
AflIII ACRYGT 1 cut(s) 987
AgsI TTSAA 8 cut(s) 28, 159, 250, 394, 440, 533, 908, 1488
AjiI CACGTC 1 cut(s) 193
AjnI CCWGG 3 cut(s) 792, 1465, 1570
AjuI GAANNNNNNNTTGG 4 cut(s) 226, 258, 1356, 1388
AloI GAACNNNNNNTCC 2 cut(s) 393, 425
AluBI AGCT 8 cut(s) 163, 495, 671, 809, 884, 1120, 1325, 1379
AluI AGCT 8 cut(s) 163, 495, 671, 809, 884, 1120, 1325, 1379
Alw21I GWGCWC 1 cut(s) 979
Alw26I GTCTC 2 cut(s) 82, 1456
ApeKI GCWGC 2 cut(s) 1191, 1499
ApoI RAATTY 2 cut(s) 222, 921
Asp700I GAANNNNTTC 1 cut(s) 212
AspS9I GGNCC 2 cut(s) 1233, 1558
AsuHPI GGTGA 2 cut(s) 815, 1552
AsuII TTCGAA 1 cut(s) 1125
AvaII GGWCC 2 cut(s) 1233, 1558
BaeI ACNNNNGTAYC 2 cut(s) 295, 328
Bbv12I GWGCWC 1 cut(s) 979
BbvI GCAGC 2 cut(s) 1203, 1486
BccI CCATC 9 cut(s) 19, 250, 379, 424, 623, 937, 1309, 1423, 1499
BceAI ACGGC 1 cut(s) 1287
BciT130I CCWGG 3 cut(s) 794, 1467, 1572
BclI TGATCA 1 cut(s) 592
BcoDI GTCTC 2 cut(s) 82, 1456
BfaI CTAG 2 cut(s) 720, 972
BfmI CTRYAG 3 cut(s) 1113, 1206, 1350
BfrI CTTAAG 1 cut(s) 1562
BfuAI ACCTGC 1 cut(s) 791
BglII AGATCT 1 cut(s) 1414
BisI GCNGC 3 cut(s) 600, 1192, 1500
BlsI GCNGC 3 cut(s) 601, 1193, 1501
Bme1390I CCNGG 3 cut(s) 794, 1467, 1572
Bme18I GGWCC 2 cut(s) 1233, 1558
BmgBI CACGTC 1 cut(s) 193
BmgT120I GGNCC 2 cut(s) 1233, 1558
BmiI GGNNCC 2 cut(s) 639, 744
BmrFI CCNGG 3 cut(s) 794, 1467, 1572
BmsI GCATC 1 cut(s) 306
BplI GAGNNNNNCTC 2 cut(s) 1368, 1400
BpmI CTGGAG 1 cut(s) 1488
Bpu10I CCTNAGC 1 cut(s) 1434
Bpu14I TTCGAA 1 cut(s) 1125
Bsa29I ATCGAT 1 cut(s) 1290
BsaBI GATNNNNATC 1 cut(s) 696
BsaI GGTCTC 1 cut(s) 1456
BsaJI CCNNGG 4 cut(s) 793, 1195, 1249, 1402
BsaWI WCCGGW 1 cut(s) 355
BsaXI ACNNNNNCTCC 2 cut(s) 1461, 1491
Bsc4I CCNNNNNNNGG 2 cut(s) 793, 887
Bse1I ACTGG 1 cut(s) 1040
Bse3DI GCAATG 2 cut(s) 609, 1077
Bse8I GATNNNNATC 1 cut(s) 696
BseBI CCWGG 3 cut(s) 794, 1467, 1572
BseCI ATCGAT 1 cut(s) 1290
BseDI CCNNGG 4 cut(s) 793, 1195, 1249, 1402
BseGI GGATG 7 cut(s) 261, 451, 624, 634, 729, 948, 1085
BseJI GATNNNNATC 1 cut(s) 696
BseLI CCNNNNNNNGG 2 cut(s) 793, 887
BseMI GCAATG 2 cut(s) 609, 1077
BseMII CTCAG 1 cut(s) 1448
BseNI ACTGG 1 cut(s) 1040
BseRI GAGGAG 1 cut(s) 1158
BseXI GCAGC 2 cut(s) 1203, 1486
BseYI CCCAGC 2 cut(s) 671, 880
BsgI GTGCAG 1 cut(s) 186
BshVI ATCGAT 1 cut(s) 1290
BsiHKAI GWGCWC 1 cut(s) 979
BsiSI CCGG 1 cut(s) 356
BslFI GGGAC 1 cut(s) 203
BslI CCNNNNNNNGG 2 cut(s) 793, 887
BsmAI GTCTC 2 cut(s) 82, 1456
BsmFI GGGAC 1 cut(s) 203
BsmI GAATGC 4 cut(s) 664, 769, 1072, 1137
Bso31I GGTCTC 1 cut(s) 1456
Bsp119I TTCGAA 1 cut(s) 1125
Bsp1286I GDGCHC 1 cut(s) 979
Bsp143I GATC 4 cut(s) 520, 592, 1291, 1414
Bsp19I CCATGG 3 cut(s) 1195, 1249, 1402
BspACI CCGC 1 cut(s) 599
BspCNI CTCAG 1 cut(s) 1447
BspDI ATCGAT 1 cut(s) 1290
BspLI GGNNCC 2 cut(s) 639, 744
BspMI ACCTGC 1 cut(s) 791
BspT104I TTCGAA 1 cut(s) 1125
BspTI CTTAAG 1 cut(s) 1562
BspTNI GGTCTC 1 cut(s) 1456
BsrDI GCAATG 2 cut(s) 609, 1077
BsrI ACTGG 1 cut(s) 1040
BssECI CCNNGG 4 cut(s) 793, 1195, 1249, 1402
BssMI GATC 4 cut(s) 520, 592, 1291, 1414
BssT1I CCWWGG 3 cut(s) 1195, 1249, 1402
Bst2UI CCWGG 3 cut(s) 794, 1467, 1572
Bst6I CTCTTC 1 cut(s) 1405
BstAFI CTTAAG 1 cut(s) 1562
BstBI TTCGAA 1 cut(s) 1125
BstC8I GCNNGC 3 cut(s) 59, 294, 1189
BstDEI CTNAG 1 cut(s) 1434
BstDSI CCRYGG 3 cut(s) 1195, 1249, 1402
BstF5I GGATG 7 cut(s) 261, 451, 624, 634, 729, 948, 1085
BstKTI GATC 4 cut(s) 523, 595, 1294, 1417
BstMAI GTCTC 2 cut(s) 82, 1456
BstMBI GATC 4 cut(s) 520, 592, 1291, 1414
BstMWI GCNNNNNNNGC 3 cut(s) 668, 677, 806
BstNI CCWGG 3 cut(s) 794, 1467, 1572
BstNSI RCATGY 2 cut(s) 991, 1191
BstSCI CCNGG 3 cut(s) 792, 1465, 1570
BstSFI CTRYAG 3 cut(s) 1113, 1206, 1350
BstV1I GCAGC 2 cut(s) 1203, 1486
BstX2I RGATCY 1 cut(s) 1414
BstYI RGATCY 1 cut(s) 1414
Bsu15I ATCGAT 1 cut(s) 1290
BsuTUI ATCGAT 1 cut(s) 1290
BtgI CCRYGG 3 cut(s) 1195, 1249, 1402
BtrI CACGTC 1 cut(s) 193
BtsCI GGATG 7 cut(s) 261, 451, 624, 634, 729, 948, 1085
BtsI GCAGTG 2 cut(s) 117, 1012
BtsIMutI CAGTG 4 cut(s) 117, 829, 1012, 1359
BveI ACCTGC 1 cut(s) 791
Cac8I GCNNGC 3 cut(s) 59, 294, 1189
Cfr13I GGNCC 2 cut(s) 1233, 1558
ClaI ATCGAT 1 cut(s) 1290
CseI GACGC 1 cut(s) 1047
Csp6I GTAC 3 cut(s) 304, 991, 1178
CspCI CAANNNNNGTGG 2 cut(s) 147, 182
CviQI GTAC 3 cut(s) 304, 991, 1178
DdeI CTNAG 1 cut(s) 1434
DpnI GATC 4 cut(s) 522, 594, 1293, 1416
DpnII GATC 4 cut(s) 520, 592, 1291, 1414
DrdI GACNNNNNNGTC 1 cut(s) 959
DseDI GACNNNNNNGTC 1 cut(s) 959
Eam1104I CTCTTC 1 cut(s) 1405
EarI CTCTTC 1 cut(s) 1405
Eco130I CCWWGG 3 cut(s) 1195, 1249, 1402
Eco31I GGTCTC 1 cut(s) 1456
Eco47I GGWCC 2 cut(s) 1233, 1558
EcoO109I RGGNCCY 1 cut(s) 1558
EcoRII CCWGG 3 cut(s) 792, 1465, 1570
EcoT14I CCWWGG 3 cut(s) 1195, 1249, 1402
EcoT22I ATGCAT 2 cut(s) 466, 664
ErhI CCWWGG 3 cut(s) 1195, 1249, 1402
FaqI GGGAC 1 cut(s) 203
FauNDI CATATG 1 cut(s) 706
FbaI TGATCA 1 cut(s) 592
Fnu4HI GCNGC 3 cut(s) 600, 1192, 1500
FokI GGATG 7 cut(s) 268, 458, 631, 641, 736, 955, 1092
Fsp4HI GCNGC 3 cut(s) 600, 1192, 1500
FspBI CTAG 2 cut(s) 720, 972
GluI GCNGC 3 cut(s) 600, 1192, 1500
GsaI CCCAGC 2 cut(s) 675, 884
GsuI CTGGAG 1 cut(s) 1488
HapII CCGG 1 cut(s) 356
HgaI GACGC 1 cut(s) 1047
HincII GTYRAC 1 cut(s) 133
HindII GTYRAC 1 cut(s) 133
HindIII AAGCTT 4 cut(s) 161, 493, 807, 1323
HinfI GANTC 3 cut(s) 1039, 1106, 1364
HpaII CCGG 1 cut(s) 356
HphI GGTGA 2 cut(s) 815, 1552
Hpy166II GTNNAC 4 cut(s) 133, 1048, 1178, 1583
Hpy188I TCNGA 2 cut(s) 684, 1446
Hpy188III TCNNGA 3 cut(s) 746, 840, 1436
Hpy8I GTNNAC 4 cut(s) 133, 1048, 1178, 1583
Hpy99I CGWCG 1 cut(s) 1063
HpyAV CCTTC 5 cut(s) 202, 579, 728, 1531, 1549
HpyCH4IV ACGT 1 cut(s) 192
HpyF10VI GCNNNNNNNGC 3 cut(s) 668, 677, 806
HpyF3I CTNAG 1 cut(s) 1434
HpySE526I ACGT 1 cut(s) 192
Ksp22I TGATCA 1 cut(s) 592
Kzo9I GATC 4 cut(s) 520, 592, 1291, 1414
LmnI GCTCC 2 cut(s) 882, 1376
Lsp1109I GCAGC 2 cut(s) 1203, 1486
LweI GCATC 1 cut(s) 306
MaeI CTAG 2 cut(s) 720, 972
MaeII ACGT 1 cut(s) 192
MaeIII GTNAC 5 cut(s) 754, 859, 1162, 1357, 1477
MalI GATC 4 cut(s) 522, 594, 1293, 1416
MboI GATC 4 cut(s) 520, 592, 1291, 1414
MboII GAAGA 4 cut(s) 1324, 1419, 1422, 1529
MfeI CAATTG 1 cut(s) 297
MflI RGATCY 1 cut(s) 1414
MhlI GDGCHC 1 cut(s) 979
MluCI AATT 7 cut(s) 222, 250, 297, 771, 843, 921, 1424
MlyI GAGTC 1 cut(s) 1033
MmeI TCCRAC 1 cut(s) 606
MnlI CCTC 8 cut(s) 400, 609, 905, 1132, 1136, 1252, 1463, 1545
Mph1103I ATGCAT 2 cut(s) 466, 664
MroXI GAANNNNTTC 1 cut(s) 212
MseI TTAA 7 cut(s) 276, 366, 813, 846, 1457, 1563, 1591
MspCI CTTAAG 1 cut(s) 1562
MspI CCGG 1 cut(s) 356
MspR9I CCNGG 3 cut(s) 794, 1467, 1572
MunI CAATTG 1 cut(s) 297
Mva1269I GAATGC 4 cut(s) 664, 769, 1072, 1137
MvaI CCWGG 3 cut(s) 794, 1467, 1572
MwoI GCNNNNNNNGC 3 cut(s) 668, 677, 806
NcoI CCATGG 3 cut(s) 1195, 1249, 1402
NdeI CATATG 1 cut(s) 706
NdeII GATC 4 cut(s) 520, 592, 1291, 1414
NlaIV GGNNCC 2 cut(s) 639, 744
NmuCI GTSAC 3 cut(s) 859, 1162, 1357
NsiI ATGCAT 2 cut(s) 466, 664
NspI RCATGY 2 cut(s) 991, 1191
NspV TTCGAA 1 cut(s) 1125
PaeI GCATGC 1 cut(s) 1191
PaqCI CACCTGC 1 cut(s) 791
PciI ACATGT 1 cut(s) 987
PctI GAATGC 4 cut(s) 664, 769, 1072, 1137
PdmI GAANNNNTTC 1 cut(s) 212
PfeI GAWTC 2 cut(s) 1106, 1364
PflMI CCANNNNNTGG 1 cut(s) 887
PkrI GCNGC 3 cut(s) 601, 1193, 1501
PleI GAGTC 1 cut(s) 1033
PpsI GAGTC 1 cut(s) 1033
PpuMI RGGWCCY 1 cut(s) 1558
PscI ACATGT 1 cut(s) 987
Psp5II RGGWCCY 1 cut(s) 1558
Psp6I CCWGG 3 cut(s) 792, 1465, 1570
PspFI CCCAGC 2 cut(s) 671, 880
PspGI CCWGG 3 cut(s) 792, 1465, 1570
PspN4I GGNNCC 2 cut(s) 639, 744
PspPI GGNCC 2 cut(s) 1233, 1558
PspPPI RGGWCCY 1 cut(s) 1558
PsuI RGATCY 1 cut(s) 1414
RsaI GTAC 3 cut(s) 305, 992, 1179
RsaNI GTAC 3 cut(s) 304, 991, 1178
SaqAI TTAA 7 cut(s) 276, 366, 813, 846, 1457, 1563, 1591
SatI GCNGC 3 cut(s) 600, 1192, 1500
Sau3AI GATC 4 cut(s) 520, 592, 1291, 1414
Sau96I GGNCC 2 cut(s) 1233, 1558
SchI GAGTC 1 cut(s) 1033
ScrFI CCNGG 3 cut(s) 794, 1467, 1572
SduI GDGCHC 1 cut(s) 979
SfaNI GCATC 1 cut(s) 306
SfcI CTRYAG 3 cut(s) 1113, 1206, 1350
SfuI TTCGAA 1 cut(s) 1125
SinI GGWCC 2 cut(s) 1233, 1558
SmlI CTYRAG 1 cut(s) 1562
SmoI CTYRAG 1 cut(s) 1562
SphI GCATGC 1 cut(s) 1191
Sse9I AATT 7 cut(s) 222, 250, 297, 771, 843, 921, 1424
SsiI CCGC 1 cut(s) 599
SspMI CTAG 2 cut(s) 720, 972
StyD4I CCNGG 3 cut(s) 792, 1465, 1570
StyI CCWWGG 3 cut(s) 1195, 1249, 1402
TaiI ACGT 1 cut(s) 195
TaqI TCGA 8 cut(s) 216, 523, 700, 995, 1021, 1125, 1290, 1587
TasI AATT 7 cut(s) 222, 250, 297, 771, 843, 921, 1424
TatI WGTACW 2 cut(s) 990, 1177
TauI GCSGC 1 cut(s) 602
TfiI GAWTC 2 cut(s) 1106, 1364
Tru1I TTAA 7 cut(s) 276, 366, 813, 846, 1457, 1563, 1591
Tru9I TTAA 7 cut(s) 276, 366, 813, 846, 1457, 1563, 1591
TscAI CASTG 4 cut(s) 117, 829, 1012, 1366
TseFI GTSAC 3 cut(s) 859, 1162, 1357
TseI GCWGC 2 cut(s) 1191, 1499
Tsp45I GTSAC 3 cut(s) 859, 1162, 1357
TspDTI ATGAA 9 cut(s) 17, 152, 234, 401, 635, 914, 1173, 1253, 1559
TspGWI ACGGA 1 cut(s) 220
TspRI CASTG 4 cut(s) 117, 829, 1012, 1366
Van91I CCANNNNNTGG 1 cut(s) 887
Vha464I CTTAAG 1 cut(s) 1562
VpaK11BI GGWCC 2 cut(s) 1233, 1558
XapI RAATTY 2 cut(s) 222, 921
XceI RCATGY 2 cut(s) 991, 1191
XmnI GAANNNNTTC 1 cut(s) 212
XspI CTAG 2 cut(s) 720, 972
Zsp2I ATGCAT 2 cut(s) 466, 664
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.