Rroxscaffold_4G00282190

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015307
Physical Location & Seq
Reverse (-)
4276992 .. 4279223
2232 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00282190.1

Sequence Viewer

Length: 1752 bp
ATGCATTCTCTGAAATGGGTTCTCTTGGATTTGATTGGTAAATGCAAAACCTTGAGTTGCTTCAAGCAAATCCATGCAAAGACTGTAACTTCAGGCCTGGCTTGCAATGACTTGGTTGCCACCAATGTTGTTAAGTTCTTGGGAAAATCTGTTACCCATTTCGATTACGCTTGTGATTTTCTGAAACAAGTTGATTGGCGTGTGAACTCTTTCCCGTTTAACATGTTGATCTCTGGCTATGCTAATGGTGAAAATGCAGGGGAGGCGGTTTTGGTTTATAGAAGGATAGTTAGAGATGGGTTTATGCCTGATATGTTTACTATTCCGGCGGTTTTGAAATCTTGTGTTAAGTTTTTGGGGATGGGAGAGGGTAGACAGGTCCATGGTGTGGTTGTGAAGATGGGTTTTCAGTGGGATGTGTATGTTCAGAACTCGCTTGTGCATTTCTATGGTGTTTGTGGTGATTGTGGTAGTGCTAGTAAGGTGTTTGATGAAATGCCTGTGAGAGATGTGGTGTCTTGGACTGGTTTGGTGTCCGGGCATGTGAAGGCAGGGTTGTTTGGTGAGGCTGTGTCTTTGTTTTTGAGGATGGATGTGAAGCCGAATGTGGCGACTTTTGTTAGTGTGGTTGTGGCTTGTGGGCGGATGGGGTATTTGAATGTGGGAAAGGGGGTTCATGGATTGATTTTGAAGCATTCGTTGGGGATGGACTTGGTGGTGGGCAATGCTGTTGTGGATATGTATGTTAAGTGTGAGAGTTTGTGTGAGGCGAAGCGGGTTTTTGATGAGCTTCCCGAAAGGGACATTGTGTCTTGGACTAGCCTGATAAGTGGATACGTTCAGTGTAAACGTCCGAGGGAGTCACTGGATTTGTTTTGCAGCATGCAGACTATGGGAATAGAGCCTGATAAGATTATACTCTCCAGTGTGCTTTCAGCTTGTGCCAGTCTTGGGGCTCTTGATTATGGGAGATGGGTCCATGAGTATATTGATCGTAAGGGTATCAAATGGGATGTACATATTGGAACAGCTATGATCGACATGTATGCCAAGTGTGGCTGTATAAACATGGCATTGCGTACTTTCAGTGAATTGCCTTGCGGGAATGTCTCTACTTGGAATGCATTGCTAGCTGGTTTAGCCATGCATGGACATGGGCACGAGGCACTCAAAAAGTTTGAAGAAATGACTAGGTCTGGCATCAGGCCAAATGCAGTTACTTTTCTAGCTGTCTTGACAGCTTGCTGTCATTCTGGTTTGATTGATGAAGGCCGTGGGTACTTTCATCAGATGATAAGTACACCTCATAATCTCTCTCCAAGATTAGAACACTATGGATGCATGGTTGATCTGGTCTGTCGGGCTGGACTCCTGGATGAAGCTCAGAAATTGATTAACACTATGCCAATGCAACCTGATGTGCTGATATTGGGAGCTCTTCTAAGTGCTTGCAAGGCCAAAAATGATGCTGAGCTCTCTCAAGAAATATTAGACCGTCTCCTGCAACTTGAGTGGCAAGATAGTGGGGTTTATGTGCTTCTATCAAACATTTTTGCTGCTAATAAAAGATGGGCTGATGCGACAAGGATAAGGAGGTTGATGAAGAAGAGAGGTATACAGAAGGCCCCTGGCTCAAGTGTCATAGAGGTGGATGGTAAGGCTCACGAATTTTTGGTTGGGGATACTAGCCACCCTCAGAATGAGGATATACATGTAGTGTTAGACATCCTTGCTAATACAAGCCAATCTTAA

Protein Analysis

583

Amino Acids

64.36

Weight (kDa)

7.25

Isoelectric Point (pI)

36.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 267 - 315 9e-09 PPR repeat family
PPR PF01535 270 - 300 2.9e-07 PPR repeat
PPR_2 PF13041 369 - 417 4.3e-13 PPR repeat family
PPR_3 PF13812 369 - 415 4.4e-06 Pentatricopeptide repeat domain
PPR PF01535 371 - 401 6.8e-06 PPR repeat
E_motif PF20431 488 - 549 3e-18 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: OG0015307)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G38010
fragaria_vesca FvH4_7g28780
malus_domestica MD01G1194200.v1.1
prunus_persica Prupe.2G288100_v2.0.a1
pyrus_communis pycom01g20450 pycom07g24000
rosa_chinensis RchiOBHm_Chr1g0376341
rosa_laevigata RLG00000026610
rosa_multiflora Rmu_sc0005594.1_g000021 Rmu_sc0016074.1_g000004 Rmu_sc0028960.1_g000001
rosa_roxburghii Rroxscaffold_4G00282190
rosa_rugosa Rorug01G0395700
rosa_samantha Rh1BG370800 Rh1CG383600
rosa_wichuraiana Rw1G036110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 388
AccI GTMKAC 2 cut(s) 373, 1615
AciI CCGC 5 cut(s) 266, 329, 643, 775, 1101
AcsI RAATTY 1 cut(s) 1667
AcuI CTGAAG 1 cut(s) 75
AfaI GTAC 4 cut(s) 1017, 1081, 1280, 1300
AfiI CCNNNNNNNGG 2 cut(s) 388, 951
AflIII ACRYGT 3 cut(s) 222, 1041, 1711
AgsI TTSAA 5 cut(s) 64, 337, 658, 691, 1181
AhdI GACNNNNNGTC 1 cut(s) 808
AjnI CCWGG 3 cut(s) 96, 1371, 1627
AjuI GAANNNNNNNTTGG 4 cut(s) 683, 715, 1659, 1691
AloI GAACNNNNNNTCC 2 cut(s) 657, 689
AluBI AGCT 9 cut(s) 790, 938, 1031, 1133, 1229, 1241, 1382, 1436, 1474
AluI AGCT 9 cut(s) 790, 938, 1031, 1133, 1229, 1241, 1382, 1436, 1474
Alw21I GWGCWC 2 cut(s) 1438, 1476
Alw26I GTCTC 2 cut(s) 1114, 1502
AoxI GGCC 5 cut(s) 94, 1205, 1270, 1455, 1623
ApeKI GCWGC 2 cut(s) 879, 1556
ApoI RAATTY 1 cut(s) 1667
Asp700I GAANNNNTTC 1 cut(s) 209
AspS9I GGNCC 3 cut(s) 379, 976, 1624
AsuC2I CCSGG 1 cut(s) 538
AsuHPI GGTGA 3 cut(s) 260, 473, 575
AsuNHI GCTAGC 1 cut(s) 1129
AvaII GGWCC 2 cut(s) 379, 976
BaeGI GKGCMC 1 cut(s) 1161
BanII GRGCYC 3 cut(s) 958, 1438, 1476
BauI CACGAG 1 cut(s) 1160
Bbv12I GWGCWC 2 cut(s) 1438, 1476
BbvI GCAGC 2 cut(s) 891, 1543
BccI CCATC 9 cut(s) 290, 355, 394, 583, 640, 700, 966, 1563, 1646
BceAI ACGGC 1 cut(s) 1257
BcgI CGANNNNNNTGC 2 cut(s) 1028, 1062
BciT130I CCWGG 3 cut(s) 98, 1373, 1629
BciVI GTATCC 2 cut(s) 827, 1675
BcnI CCSGG 1 cut(s) 538
BcoDI GTCTC 2 cut(s) 1114, 1502
BfaI CTAG 6 cut(s) 477, 819, 1130, 1191, 1226, 1686
BfuI GTATCC 2 cut(s) 827, 1675
BisI GCNGC 2 cut(s) 880, 1557
BlpI GCTNAGC 1 cut(s) 1470
BlsI GCNGC 2 cut(s) 881, 1558
Bme1390I CCNGG 4 cut(s) 98, 538, 1373, 1629
Bme18I GGWCC 2 cut(s) 379, 976
BmeRI GACNNNNNGTC 1 cut(s) 808
BmgT120I GGNCC 3 cut(s) 379, 976, 1624
BmiI GGNNCC 2 cut(s) 977, 1626
BmrFI CCNGG 4 cut(s) 98, 538, 1373, 1629
BmsI GCATC 4 cut(s) 1209, 1328, 1456, 1567
BmtI GCTAGC 1 cut(s) 1133
BpmI CTGGAG 1 cut(s) 907
Bpu1102I GCTNAGC 1 cut(s) 1470
BpuEI CTTGAG 4 cut(s) 73, 1464, 1529, 1618
BpuMI CCSGG 1 cut(s) 538
BsaJI CCNNGG 4 cut(s) 382, 854, 1273, 1627
Bsc4I CCNNNNNNNGG 2 cut(s) 388, 951
Bse1I ACTGG 4 cut(s) 529, 870, 924, 945
Bse3DI GCAATG 4 cut(s) 112, 730, 1073, 1124
BseBI CCWGG 3 cut(s) 98, 1373, 1629
BseDI CCNNGG 4 cut(s) 382, 854, 1273, 1627
BseLI CCNNNNNNNGG 2 cut(s) 388, 951
BseMI GCAATG 4 cut(s) 112, 730, 1073, 1124
BseMII CTCAG 3 cut(s) 1397, 1461, 1709
BseNI ACTGG 4 cut(s) 529, 870, 924, 945
BseSI GKGCMC 1 cut(s) 1161
BseXI GCAGC 2 cut(s) 891, 1543
BshFI GGCC 5 cut(s) 96, 1207, 1272, 1457, 1625
BsiHKAI GWGCWC 2 cut(s) 1438, 1476
BsiSI CCGG 2 cut(s) 326, 537
BslFI GGGAC 1 cut(s) 815
BslI CCNNNNNNNGG 2 cut(s) 388, 951
BsmAI GTCTC 2 cut(s) 1114, 1502
BsmBI CGTCTC 1 cut(s) 1502
BsmFI GGGAC 1 cut(s) 815
BsmI GAATGC 3 cut(s) 4, 694, 1126
BsnI GGCC 5 cut(s) 96, 1207, 1272, 1457, 1625
Bsp1286I GDGCHC 4 cut(s) 958, 1161, 1438, 1476
Bsp1407I TGTACA 1 cut(s) 1015
Bsp143I GATC 4 cut(s) 228, 991, 1035, 1348
Bsp1720I GCTNAGC 1 cut(s) 1470
Bsp19I CCATGG 1 cut(s) 382
BspACI CCGC 5 cut(s) 266, 329, 643, 775, 1101
BspANI GGCC 5 cut(s) 96, 1207, 1272, 1457, 1625
BspCNI CTCAG 3 cut(s) 1396, 1462, 1708
BspLI GGNNCC 2 cut(s) 977, 1626
BspOI GCTAGC 1 cut(s) 1133
BspQI GCTCTTC 1 cut(s) 1443
BsrDI GCAATG 4 cut(s) 112, 730, 1073, 1124
BsrGI TGTACA 1 cut(s) 1015
BsrI ACTGG 4 cut(s) 529, 870, 924, 945
BssECI CCNNGG 4 cut(s) 382, 854, 1273, 1627
BssMI GATC 4 cut(s) 228, 991, 1035, 1348
BssNAI GTATAC 1 cut(s) 1616
BssSI CACGAG 1 cut(s) 1160
BssT1I CCWWGG 1 cut(s) 382
Bst1107I GTATAC 1 cut(s) 1616
Bst2BI CACGAG 1 cut(s) 1160
Bst2UI CCWGG 3 cut(s) 98, 1373, 1629
Bst4CI ACNGT 2 cut(s) 85, 1496
Bst6I CTCTTC 2 cut(s) 1443, 1601
BstAUI TGTACA 1 cut(s) 1015
BstC8I GCNNGC 5 cut(s) 103, 884, 1131, 1243, 1450
BstDEI CTNAG 4 cut(s) 1383, 1442, 1470, 1695
BstDSI CCRYGG 2 cut(s) 382, 1273
BstKTI GATC 4 cut(s) 231, 994, 1038, 1351
BstMAI GTCTC 2 cut(s) 1114, 1502
BstMBI GATC 4 cut(s) 228, 991, 1035, 1348
BstMWI GCNNNNNNNGC 5 cut(s) 102, 263, 1130, 1139, 1454
BstNI CCWGG 3 cut(s) 98, 1373, 1629
BstNSI RCATGY 5 cut(s) 226, 545, 886, 1045, 1715
BstSCI CCNGG 4 cut(s) 96, 536, 1371, 1627
BstSLI GKGCMC 1 cut(s) 1161
BstV1I GCAGC 2 cut(s) 891, 1543
BstZ17I GTATAC 1 cut(s) 1616
BsuI GTATCC 2 cut(s) 827, 1675
BsuRI GGCC 5 cut(s) 96, 1207, 1272, 1457, 1625
BtgI CCRYGG 2 cut(s) 382, 1273
BtsIMutI CAGTG 5 cut(s) 416, 848, 863, 931, 1093
Cac8I GCNNGC 5 cut(s) 103, 884, 1131, 1243, 1450
Cfr13I GGNCC 3 cut(s) 379, 976, 1624
Csp6I GTAC 4 cut(s) 1016, 1080, 1279, 1299
CspCI CAANNNNNGTGG 4 cut(s) 109, 144, 1493, 1528
CviQI GTAC 4 cut(s) 1016, 1080, 1279, 1299
DdeI CTNAG 4 cut(s) 1383, 1442, 1470, 1695
DpnI GATC 4 cut(s) 230, 993, 1037, 1350
DpnII GATC 4 cut(s) 228, 991, 1035, 1348
DriI GACNNNNNGTC 1 cut(s) 808
Eam1104I CTCTTC 2 cut(s) 1443, 1601
Eam1105I GACNNNNNGTC 1 cut(s) 808
EarI CTCTTC 2 cut(s) 1443, 1601
EciI GGCGGA 1 cut(s) 658
Ecl136II GAGCTC 2 cut(s) 1436, 1474
Eco130I CCWWGG 1 cut(s) 382
Eco147I AGGCCT 1 cut(s) 96
Eco24I GRGCYC 3 cut(s) 958, 1438, 1476
Eco47I GGWCC 2 cut(s) 379, 976
Eco53kI GAGCTC 2 cut(s) 1436, 1474
Eco57I CTGAAG 1 cut(s) 75
EcoICRI GAGCTC 2 cut(s) 1436, 1474
EcoO109I RGGNCCY 1 cut(s) 1624
EcoRII CCWGG 3 cut(s) 96, 1371, 1627
EcoT14I CCWWGG 1 cut(s) 382
EcoT22I ATGCAT 4 cut(s) 6, 1126, 1149, 1343
EcoT38I GRGCYC 3 cut(s) 958, 1438, 1476
ErhI CCWWGG 1 cut(s) 382
Esp3I CGTCTC 1 cut(s) 1502
FalI AAGNNNNNCTT 1 cut(s) 1732
FaqI GGGAC 1 cut(s) 815
FauI CCCGC 2 cut(s) 768, 1094
FblI GTMKAC 2 cut(s) 373, 1615
Fnu4HI GCNGC 2 cut(s) 880, 1557
FriOI GRGCYC 3 cut(s) 958, 1438, 1476
Fsp4HI GCNGC 2 cut(s) 880, 1557
FspBI CTAG 6 cut(s) 477, 819, 1130, 1191, 1226, 1686
GluI GCNGC 2 cut(s) 880, 1557
GsuI CTGGAG 1 cut(s) 907
HaeIII GGCC 5 cut(s) 96, 1207, 1272, 1457, 1625
HapII CCGG 2 cut(s) 326, 537
HinfI GANTC 2 cut(s) 860, 1368
HpaII CCGG 2 cut(s) 326, 537
HphI GGTGA 3 cut(s) 260, 473, 575
Hpy166II GTNNAC 6 cut(s) 205, 318, 374, 848, 1301, 1616
Hpy188I TCNGA 7 cut(s) 12, 183, 429, 855, 1290, 1386, 1698
Hpy188III TCNNGA 5 cut(s) 794, 959, 1234, 1481, 1664
Hpy8I GTNNAC 6 cut(s) 205, 318, 374, 848, 1301, 1616
HpyAV CCTTC 4 cut(s) 276, 541, 1262, 1615
HpyCH4III ACNGT 2 cut(s) 85, 1496
HpyCH4IV ACGT 2 cut(s) 837, 850
HpyF10VI GCNNNNNNNGC 5 cut(s) 102, 263, 1130, 1139, 1454
HpyF3I CTNAG 4 cut(s) 1383, 1442, 1470, 1695
HpySE526I ACGT 2 cut(s) 837, 850
Kzo9I GATC 4 cut(s) 228, 991, 1035, 1348
LguI GCTCTTC 1 cut(s) 1443
LmnI GCTCC 1 cut(s) 1433
Lsp1109I GCAGC 2 cut(s) 891, 1543
LweI GCATC 4 cut(s) 1209, 1328, 1456, 1567
MaeI CTAG 6 cut(s) 477, 819, 1130, 1191, 1226, 1686
MaeII ACGT 2 cut(s) 837, 850
MaeIII GTNAC 4 cut(s) 85, 151, 861, 1216
MalI GATC 4 cut(s) 230, 993, 1037, 1350
MboI GATC 4 cut(s) 228, 991, 1035, 1348
MboII GAAGA 5 cut(s) 409, 1193, 1430, 1615, 1618
MhlI GDGCHC 4 cut(s) 958, 1161, 1438, 1476
MluCI AATT 3 cut(s) 1091, 1388, 1667
MlyI GAGTC 2 cut(s) 869, 1362
Mph1103I ATGCAT 4 cut(s) 6, 1126, 1149, 1343
MroXI GAANNNNTTC 1 cut(s) 209
MseI TTAA 6 cut(s) 132, 219, 348, 747, 1395, 1750
MslI CAYNNNNRTG 3 cut(s) 447, 1152, 1646
MspI CCGG 2 cut(s) 326, 537
MspR9I CCNGG 4 cut(s) 98, 538, 1373, 1629
Mva1269I GAATGC 3 cut(s) 4, 694, 1126
MvaI CCWGG 3 cut(s) 98, 1373, 1629
MwoI GCNNNNNNNGC 5 cut(s) 102, 263, 1130, 1139, 1454
NciI CCSGG 1 cut(s) 538
NcoI CCATGG 1 cut(s) 382
NdeII GATC 4 cut(s) 228, 991, 1035, 1348
NheI GCTAGC 1 cut(s) 1129
NlaIV GGNNCC 2 cut(s) 977, 1626
NmuCI GTSAC 1 cut(s) 861
NsiI ATGCAT 4 cut(s) 6, 1126, 1149, 1343
NspI RCATGY 5 cut(s) 226, 545, 886, 1045, 1715
PaeI GCATGC 1 cut(s) 886
PceI AGGCCT 1 cut(s) 96
PciI ACATGT 3 cut(s) 222, 1041, 1711
PciSI GCTCTTC 1 cut(s) 1443
PctI GAATGC 3 cut(s) 4, 694, 1126
PdmI GAANNNNTTC 1 cut(s) 209
PflFI GACNNNGTC 1 cut(s) 1192
PflMI CCANNNNNTGG 1 cut(s) 388
PfoI TCCNGGA 1 cut(s) 1371
PkrI GCNGC 2 cut(s) 881, 1558
PleI GAGTC 2 cut(s) 868, 1362
PpsI GAGTC 2 cut(s) 868, 1362
PscI ACATGT 3 cut(s) 222, 1041, 1711
Psp124BI GAGCTC 2 cut(s) 1438, 1476
Psp6I CCWGG 3 cut(s) 96, 1371, 1627
PspGI CCWGG 3 cut(s) 96, 1371, 1627
PspN4I GGNNCC 2 cut(s) 977, 1626
PspPI GGNCC 3 cut(s) 379, 976, 1624
PsyI GACNNNGTC 1 cut(s) 1192
RsaI GTAC 4 cut(s) 1017, 1081, 1280, 1300
RsaNI GTAC 4 cut(s) 1016, 1080, 1279, 1299
RseI CAYNNNNRTG 3 cut(s) 447, 1152, 1646
SacI GAGCTC 2 cut(s) 1438, 1476
SapI GCTCTTC 1 cut(s) 1443
SaqAI TTAA 6 cut(s) 132, 219, 348, 747, 1395, 1750
SatI GCNGC 2 cut(s) 880, 1557
Sau3AI GATC 4 cut(s) 228, 991, 1035, 1348
Sau96I GGNCC 3 cut(s) 379, 976, 1624
SchI GAGTC 2 cut(s) 869, 1362
ScrFI CCNGG 4 cut(s) 98, 538, 1373, 1629
SduI GDGCHC 4 cut(s) 958, 1161, 1438, 1476
SfaNI GCATC 4 cut(s) 1209, 1328, 1456, 1567
SinI GGWCC 2 cut(s) 379, 976
SmiMI CAYNNNNRTG 3 cut(s) 447, 1152, 1646
SmlI CTYRAG 4 cut(s) 52, 1479, 1508, 1633
SmoI CTYRAG 4 cut(s) 52, 1479, 1508, 1633
SphI GCATGC 1 cut(s) 886
Sse9I AATT 3 cut(s) 1091, 1388, 1667
SseBI AGGCCT 1 cut(s) 96
SsiI CCGC 5 cut(s) 266, 329, 643, 775, 1101
SspI AATATT 1 cut(s) 1488
SspMI CTAG 6 cut(s) 477, 819, 1130, 1191, 1226, 1686
SstI GAGCTC 2 cut(s) 1438, 1476
StuI AGGCCT 1 cut(s) 96
StyD4I CCNGG 4 cut(s) 96, 536, 1371, 1627
StyI CCWWGG 1 cut(s) 382
TaaI ACNGT 2 cut(s) 85, 1496
TaiI ACGT 2 cut(s) 840, 853
TaqI TCGA 2 cut(s) 162, 1038
TasI AATT 3 cut(s) 1091, 1388, 1667
TatI WGTACW 2 cut(s) 1015, 1298
Tru1I TTAA 6 cut(s) 132, 219, 348, 747, 1395, 1750
Tru9I TTAA 6 cut(s) 132, 219, 348, 747, 1395, 1750
TscAI CASTG 5 cut(s) 416, 848, 870, 931, 1093
TseFI GTSAC 1 cut(s) 861
TseI GCWGC 2 cut(s) 879, 1556
Tsp45I GTSAC 1 cut(s) 861
TspDTI ATGAA 6 cut(s) 507, 665, 1274, 1281, 1392, 1616
TspRI CASTG 5 cut(s) 416, 848, 870, 931, 1093
Tth111I GACNNNGTC 1 cut(s) 1192
Van91I CCANNNNNTGG 1 cut(s) 388
VpaK11BI GGWCC 2 cut(s) 379, 976
XapI RAATTY 1 cut(s) 1667
XceI RCATGY 5 cut(s) 226, 545, 886, 1045, 1715
XmiI GTMKAC 2 cut(s) 373, 1615
XmnI GAANNNNTTC 1 cut(s) 209
XspI CTAG 6 cut(s) 477, 819, 1130, 1191, 1226, 1686
Zsp2I ATGCAT 4 cut(s) 6, 1126, 1149, 1343
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.