Rh4DG381200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0017199
Physical Location & Seq
Reverse (-)
59883081 .. 59884787
1707 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG381200.1

Sequence Viewer

Length: 1707 bp
ATGACTCAAACTCTGGCCGTACGCCTGGGGCAAAGACTCAACCTTTGGCCTTGGGAAATGAGCTCTCTACTGGAATGCTGCAAACAAGTCTCAGAAATCTCTCAAATCCATGGGTCTATGGTCAAGACCGGTCTTGACCACAACCCTTTCGCCATGAGCAAGCTCCTCGCCTCTTCCATTCACCACATCCAATATGCAGCCTCCATTTTCGGCCACATTCGAAACCCGAATCGCTTCATGTTCAATACATTGCTCAGAGCCTATTCCATTAGCGACGAACCAAAACAAGCTTTTCTTGTTTTCAATAACTTGAGGGCTCGTAATATTGTTCTAGACCAGTTCTCTTTCATCACCGCGCTCAAAGCATGTGCTCGTGAATTGGCCATTGGGACTGGCCAGGGGATTCATGGGGTTGTTGTGAGGTCTGGGCATGGCGGGTTTATCACTGTAAAGAATACCCTTCTGCATTTTTACTGTGTTTGTGGGAAGATTGAGGATGCCCACCACTTGTTCGATGAATTTCCTCACAGAAATGATTTGATTTCATGGAATACTTTGATGGGCGGTTACCTTCATGTTTCGCAGCCTCGTGTGATTGTGGACTTGTTTAAGGAAATGTGCATTGGTGGTTTTGAAGCTAGTGTAACCACTGTTCTGTATCTTTTATCGGCCATTGGTGAGTTGGGAAGTTACCTTGGAGGAGAGAGTGTTCATGGCTACTGCATTAAGATGGGATTTTCCTATAATTTACATGTGGTTACTGCTTTGATTGATGTGTATGCAAAGAATGGGGAAATTGACTTGGCGCGTCGGATTTTCGATGGAGTTGCTGTGAAGGATGTTGTTTTGTGGAATTGTTTGGTAGACAAGTATGCAAAATGTGGCATGGTAGAAGAAGCAGTAGCTTTGTTACGGCTGATGAAACTTGAAAGAACGAAACCCAATTCGTCCACATTGGCAGGACTGCTTTCAGCTTGTGCTGCTTCTGGGTCTGTGAGTGTAGGGAGGTTCATTAAGGATTATGTGGAGGAGGAGAGATTGGTTTTGGATGCGGTTCTTGGAACAGCTCTGGTTGATATGTACGCTAAATGTGGGTTTCTAGACAAGGCTCTTGACATTTTCGAAAGCATGGAAAACAGGGATGTGAAATCATGGACAGCCATGATTTCAGGTTATGGTGTTCATGGGGAGGCAGGTAATGCCTTGAGGCTTTTCTACAGAATGGAAGCGGAGGGCTGCCAACCTAATGAAGTCACTTTCTTGGCAGTTTTAAGTGCTTGTGGCCATGCAGGGCTAGTCAGAGAGGGAGTTAGTTGCTTTGAGATGATGGTTTGCAAGTATGGTTTTGTTCCAAAGGTTGAACACTACGGTTGTATGATCGATCTTTTAGGTCGTGCAGGGTTGTTGGAGGAAGCACACAACCTAATCGAAAGCTTGCCCATCAAGAGTGATGTTACTGCATGGCGTGCATTGCTTTCGGCCTGCAGGGTCTATGGGTATGTTGCTCTTGGGGAAGTTGTACAGAGAGTGCTGGCTGAACTAAACGATGACCATCCCACCAATGCAATGCTACTATCAGGGACTTATGCCATTGCTGGAAGGTTGCACGATAATACAAATATGCAGAAAACGGTGGAGGGAGAGATGGTGAGGGAAGAAAACCCAGTAAAGGAAGCTGGGCTCAGCACAATTGAGTTGGATAGTTGA

Protein Analysis

568

Amino Acids

62.66

Weight (kDa)

6.0

Isoelectric Point (pI)

33.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 76 - 125 3.4e-06 PPR repeat family
PPR_2 PF13041 279 - 327 2.1e-09 PPR repeat family
PPR_2 PF13041 381 - 428 2.4e-09 PPR repeat family
PPR_3 PF13812 381 - 429 3.4e-06 Pentatricopeptide repeat domain
PPR PF01535 384 - 413 2.8e-06 PPR repeat
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: OG0017199)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G26900
malus_domestica MD13G1073800.v1.1
prunus_persica Prupe.1G272200_v2.0.a1
pyrus_communis pycom16g06510
rosa_chinensis RchiOBHm_Chr4g0440061
rosa_laevigata RLG00000006209
rosa_multiflora Rmu_sc0001685.1_g000003
rosa_rugosa Rorug04G0324000
rosa_samantha Rh4AG374600 Rh4BG387000 Rh4CG401500 Rh4DG381200
rosa_wichuraiana Rw4G032050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1184
AccI GTMKAC 1 cut(s) 864
AccII CGCG 2 cut(s) 356, 808
AciI CCGC 5 cut(s) 354, 435, 564, 1052, 1229
AcoI YGGCCR 6 cut(s) 15, 211, 381, 394, 669, 1282
AcsI RAATTY 1 cut(s) 518
AfaI GTAC 3 cut(s) 21, 1082, 1521
AfiI CCNNNNNNNGG 1 cut(s) 1669
AflIII ACRYGT 1 cut(s) 751
AgeI ACCGGT 1 cut(s) 128
AgsI TTSAA 5 cut(s) 244, 304, 635, 929, 1361
AjnI CCWGG 2 cut(s) 24, 396
AjuI GAANNNNNNNTTGG 4 cut(s) 369, 401, 606, 638
AloI GAACNNNNNNTCC 2 cut(s) 693, 725
AluBI AGCT 9 cut(s) 63, 163, 290, 638, 905, 974, 1067, 1434, 1676
AluI AGCT 9 cut(s) 63, 163, 290, 638, 905, 974, 1067, 1434, 1676
Alw21I GWGCWC 2 cut(s) 65, 373
Alw26I GTCTC 1 cut(s) 94
AoxI GGCC 8 cut(s) 15, 47, 211, 381, 394, 669, 1282, 1479
ApeKI GCWGC 5 cut(s) 78, 197, 583, 980, 1236
ApoI RAATTY 1 cut(s) 518
ArsI GACNNNNNNTTYG 2 cut(s) 27, 59
AsiGI ACCGGT 1 cut(s) 128
Asp700I GAANNNNTTC 1 cut(s) 233
AspLEI GCGC 2 cut(s) 358, 808
AsuHPI GGTGA 4 cut(s) 173, 343, 689, 1660
AsuII TTCGAA 2 cut(s) 220, 1122
BalI TGGCCA 3 cut(s) 383, 396, 1284
BanII GRGCYC 3 cut(s) 65, 319, 1683
BauI CACGAG 2 cut(s) 372, 588
Bbv12I GWGCWC 2 cut(s) 65, 373
BbvI GCAGC 5 cut(s) 65, 209, 595, 967, 1223
BccI CCATC 7 cut(s) 553, 724, 815, 1321, 1448, 1560, 1639
BceAI ACGGC 2 cut(s) 2, 929
BcgI CGANNNNNNTGC 6 cut(s) 148, 182, 809, 843, 1458, 1492
BciT130I CCWGG 2 cut(s) 26, 398
BcoDI GTCTC 1 cut(s) 94
BfaI CTAG 4 cut(s) 332, 639, 1100, 1295
BfmI CTRYAG 2 cut(s) 1216, 1483
BfuAI ACCTGC 1 cut(s) 1184
BisI GCNGC 5 cut(s) 79, 198, 584, 981, 1237
BlpI GCTNAGC 1 cut(s) 1682
BlsI GCNGC 5 cut(s) 80, 199, 585, 982, 1238
Bme1390I CCNGG 2 cut(s) 26, 398
BmrFI CCNGG 2 cut(s) 26, 398
BmrI ACTGGG 1 cut(s) 1658
BmsI GCATC 2 cut(s) 487, 1039
BmuI ACTGGG 1 cut(s) 1658
Bpu1102I GCTNAGC 1 cut(s) 1682
Bpu14I TTCGAA 2 cut(s) 220, 1122
BpuEI CTTGAG 2 cut(s) 331, 1225
Bsa29I ATCGAT 1 cut(s) 1380
BsaBI GATNNNNATC 1 cut(s) 1551
BsaJI CCNNGG 5 cut(s) 25, 50, 109, 397, 694
BsaWI WCCGGW 1 cut(s) 128
BsaXI ACNNNNNCTCC 6 cut(s) 693, 723, 816, 846, 1632, 1662
Bsc4I CCNNNNNNNGG 1 cut(s) 1669
Bse118I RCCGGY 1 cut(s) 128
Bse1I ACTGG 4 cut(s) 75, 337, 397, 1664
Bse3DI GCAATG 4 cut(s) 248, 1469, 1572, 1590
Bse8I GATNNNNATC 1 cut(s) 1551
BseBI CCWGG 2 cut(s) 26, 398
BseCI ATCGAT 1 cut(s) 1380
BseDI CCNNGG 5 cut(s) 25, 50, 109, 397, 694
BseGI GGATG 6 cut(s) 186, 502, 844, 1054, 1147, 1552
BseJI GATNNNNATC 1 cut(s) 1551
BseLI CCNNNNNNNGG 1 cut(s) 1669
BseMI GCAATG 4 cut(s) 248, 1469, 1572, 1590
BseMII CTCAG 3 cut(s) 105, 268, 1696
BseNI ACTGG 4 cut(s) 75, 337, 397, 1664
BseRI GAGGAG 4 cut(s) 155, 714, 1043, 1046
BseXI GCAGC 5 cut(s) 65, 209, 595, 967, 1223
BseYI CCCAGC 1 cut(s) 1676
BsgI GTGCAG 1 cut(s) 1416
Bsh1236I CGCG 2 cut(s) 356, 808
BshFI GGCC 8 cut(s) 17, 49, 213, 383, 396, 671, 1284, 1481
BshTI ACCGGT 1 cut(s) 128
BshVI ATCGAT 1 cut(s) 1380
BsiHKAI GWGCWC 2 cut(s) 65, 373
BsiSI CCGG 1 cut(s) 129
BsiWI CGTACG 1 cut(s) 19
BslFI GGGAC 2 cut(s) 403, 1594
BslI CCNNNNNNNGG 1 cut(s) 1669
BsmAI GTCTC 1 cut(s) 94
BsmFI GGGAC 2 cut(s) 403, 1594
BsmI GAATGC 1 cut(s) 80
BsnI GGCC 8 cut(s) 17, 49, 213, 383, 396, 671, 1284, 1481
Bsp119I TTCGAA 2 cut(s) 220, 1122
Bsp1286I GDGCHC 4 cut(s) 65, 319, 373, 1683
Bsp1407I TGTACA 1 cut(s) 1519
Bsp143I GATC 2 cut(s) 1377, 1381
Bsp1720I GCTNAGC 1 cut(s) 1682
Bsp19I CCATGG 1 cut(s) 109
BspACI CCGC 5 cut(s) 354, 435, 564, 1052, 1229
BspANI GGCC 8 cut(s) 17, 49, 213, 383, 396, 671, 1284, 1481
BspCNI CTCAG 3 cut(s) 104, 267, 1695
BspDI ATCGAT 1 cut(s) 1380
BspFNI CGCG 2 cut(s) 356, 808
BspMAI CTGCAG 1 cut(s) 1487
BspMI ACCTGC 1 cut(s) 1184
BspT104I TTCGAA 2 cut(s) 220, 1122
BsrDI GCAATG 4 cut(s) 248, 1469, 1572, 1590
BsrFI RCCGGY 1 cut(s) 128
BsrGI TGTACA 1 cut(s) 1519
BsrI ACTGG 4 cut(s) 75, 337, 397, 1664
BssAI RCCGGY 1 cut(s) 128
BssECI CCNNGG 5 cut(s) 25, 50, 109, 397, 694
BssMI GATC 2 cut(s) 1377, 1381
BssSI CACGAG 2 cut(s) 372, 588
BssT1I CCWWGG 3 cut(s) 50, 109, 694
Bst2BI CACGAG 2 cut(s) 372, 588
Bst2UI CCWGG 2 cut(s) 26, 398
Bst4CI ACNGT 5 cut(s) 448, 476, 652, 1370, 1633
Bst6I CTCTTC 1 cut(s) 178
BstAPI GCANNNNNTGC 2 cut(s) 1199, 1466
BstAUI TGTACA 1 cut(s) 1519
BstBI TTCGAA 2 cut(s) 220, 1122
BstC8I GCNNGC 5 cut(s) 161, 1436, 1467, 1483, 1533
BstDEI CTNAG 3 cut(s) 91, 254, 1682
BstDSI CCRYGG 1 cut(s) 109
BstEII GGTNACC 1 cut(s) 566
BstF5I GGATG 6 cut(s) 186, 502, 844, 1054, 1147, 1552
BstFNI CGCG 2 cut(s) 356, 808
BstHHI GCGC 2 cut(s) 358, 808
BstKTI GATC 2 cut(s) 1380, 1384
BstMAI GTCTC 1 cut(s) 94
BstMBI GATC 2 cut(s) 1377, 1381
BstMWI GCNNNNNNNGC 5 cut(s) 362, 980, 1199, 1466, 1471
BstNI CCWGG 2 cut(s) 26, 398
BstNSI RCATGY 2 cut(s) 369, 755
BstPI GGTNACC 1 cut(s) 566
BstSCI CCNGG 2 cut(s) 24, 396
BstSFI CTRYAG 2 cut(s) 1216, 1483
BstUI CGCG 2 cut(s) 356, 808
BstV1I GCAGC 5 cut(s) 65, 209, 595, 967, 1223
Bsu15I ATCGAT 1 cut(s) 1380
BsuRI GGCC 8 cut(s) 17, 49, 213, 383, 396, 671, 1284, 1481
BsuTUI ATCGAT 1 cut(s) 1380
BtgI CCRYGG 1 cut(s) 109
BtsCI GGATG 6 cut(s) 186, 502, 844, 1054, 1147, 1552
BtsIMutI CAGTG 2 cut(s) 444, 648
BveI ACCTGC 1 cut(s) 1184
Cac8I GCNNGC 5 cut(s) 161, 1436, 1467, 1483, 1533
CfoI GCGC 2 cut(s) 358, 808
Cfr10I RCCGGY 1 cut(s) 128
ClaI ATCGAT 1 cut(s) 1380
CseI GACGC 1 cut(s) 797
Csp6I GTAC 3 cut(s) 20, 1081, 1520
CspAI ACCGGT 1 cut(s) 128
CviQI GTAC 3 cut(s) 20, 1081, 1520
DdeI CTNAG 3 cut(s) 91, 254, 1682
DpnI GATC 2 cut(s) 1379, 1383
DpnII GATC 2 cut(s) 1377, 1381
EaeI YGGCCR 6 cut(s) 15, 211, 381, 394, 669, 1282
Eam1104I CTCTTC 1 cut(s) 178
EarI CTCTTC 1 cut(s) 178
Ecl136II GAGCTC 1 cut(s) 63
Eco130I CCWWGG 3 cut(s) 50, 109, 694
Eco24I GRGCYC 3 cut(s) 65, 319, 1683
Eco53kI GAGCTC 1 cut(s) 63
Eco91I GGTNACC 1 cut(s) 566
EcoICRI GAGCTC 1 cut(s) 63
EcoO65I GGTNACC 1 cut(s) 566
EcoRII CCWGG 2 cut(s) 24, 396
EcoT14I CCWWGG 3 cut(s) 50, 109, 694
EcoT38I GRGCYC 3 cut(s) 65, 319, 1683
ErhI CCWWGG 3 cut(s) 50, 109, 694
FalI AAGNNNNNCTT 2 cut(s) 279, 311
FaqI GGGAC 2 cut(s) 403, 1594
FauI CCCGC 1 cut(s) 428
FblI GTMKAC 1 cut(s) 864
Fnu4HI GCNGC 5 cut(s) 79, 198, 584, 981, 1237
FokI GGATG 6 cut(s) 173, 509, 851, 1061, 1154, 1539
FriOI GRGCYC 3 cut(s) 65, 319, 1683
Fsp4HI GCNGC 5 cut(s) 79, 198, 584, 981, 1237
FspBI CTAG 4 cut(s) 332, 639, 1100, 1295
GlaI GCGC 2 cut(s) 357, 807
GluI GCNGC 5 cut(s) 79, 198, 584, 981, 1237
GsaI CCCAGC 1 cut(s) 1680
HaeIII GGCC 8 cut(s) 17, 49, 213, 383, 396, 671, 1284, 1481
HapII CCGG 1 cut(s) 129
HgaI GACGC 1 cut(s) 797
HhaI GCGC 2 cut(s) 358, 808
Hin6I GCGC 2 cut(s) 356, 806
HinP1I GCGC 2 cut(s) 356, 806
HindIII AAGCTT 2 cut(s) 288, 1432
HinfI GANTC 4 cut(s) 4, 36, 229, 403
HpaII CCGG 1 cut(s) 129
HphI GGTGA 4 cut(s) 173, 343, 689, 1660
Hpy166II GTNNAC 3 cut(s) 601, 865, 951
Hpy188I TCNGA 4 cut(s) 94, 257, 813, 1301
Hpy188III TCNNGA 7 cut(s) 124, 134, 332, 374, 1100, 1112, 1444
Hpy8I GTNNAC 3 cut(s) 601, 865, 951
Hpy99I CGWCG 2 cut(s) 278, 813
HpyAV CCTTC 4 cut(s) 470, 581, 829, 1593
HpyCH4III ACNGT 5 cut(s) 448, 476, 652, 1370, 1633
HpyF10VI GCNNNNNNNGC 5 cut(s) 362, 980, 1199, 1466, 1471
HpyF3I CTNAG 3 cut(s) 91, 254, 1682
HspAI GCGC 2 cut(s) 356, 806
Kzo9I GATC 2 cut(s) 1377, 1381
LmnI GCTCC 1 cut(s) 168
Lsp1109I GCAGC 5 cut(s) 65, 209, 595, 967, 1223
LweI GCATC 2 cut(s) 487, 1039
MaeI CTAG 4 cut(s) 332, 639, 1100, 1295
MaeIII GTNAC 7 cut(s) 566, 643, 689, 757, 909, 1252, 1453
MalI GATC 2 cut(s) 1379, 1383
MboI GATC 2 cut(s) 1377, 1381
MboII GAAGA 4 cut(s) 165, 499, 905, 1667
MfeI CAATTG 1 cut(s) 1689
MhlI GDGCHC 4 cut(s) 65, 319, 373, 1683
MlsI TGGCCA 3 cut(s) 383, 396, 1284
MluCI AATT 7 cut(s) 377, 518, 745, 795, 853, 943, 1689
MluNI TGGCCA 3 cut(s) 383, 396, 1284
MlyI GAGTC 1 cut(s) 30
MmeI TCCRAC 3 cut(s) 791, 1386, 1677
Mox20I TGGCCA 3 cut(s) 383, 396, 1284
MroXI GAANNNNTTC 1 cut(s) 233
MscI TGGCCA 3 cut(s) 383, 396, 1284
MseI TTAA 4 cut(s) 609, 726, 1014, 1271
MslI CAYNNNNRTG 2 cut(s) 531, 728
Msp20I TGGCCA 3 cut(s) 383, 396, 1284
MspI CCGG 1 cut(s) 129
MspR9I CCNGG 2 cut(s) 26, 398
MunI CAATTG 1 cut(s) 1689
Mva1269I GAATGC 1 cut(s) 80
MvaI CCWGG 2 cut(s) 26, 398
MvnI CGCG 2 cut(s) 356, 808
MwoI GCNNNNNNNGC 5 cut(s) 362, 980, 1199, 1466, 1471
NcoI CCATGG 1 cut(s) 109
NdeII GATC 2 cut(s) 1377, 1381
NmuCI GTSAC 1 cut(s) 1252
NspI RCATGY 2 cut(s) 369, 755
NspV TTCGAA 2 cut(s) 220, 1122
PciI ACATGT 1 cut(s) 751
PctI GAATGC 1 cut(s) 80
PdmI GAANNNNTTC 1 cut(s) 233
PfeI GAWTC 2 cut(s) 229, 403
Pfl23II CGTACG 1 cut(s) 19
PinAI ACCGGT 1 cut(s) 128
PkrI GCNGC 5 cut(s) 80, 199, 585, 982, 1238
PleI GAGTC 1 cut(s) 30
PpsI GAGTC 1 cut(s) 30
PscI ACATGT 1 cut(s) 751
Psp124BI GAGCTC 1 cut(s) 65
Psp6I CCWGG 2 cut(s) 24, 396
PspEI GGTNACC 1 cut(s) 566
PspFI CCCAGC 1 cut(s) 1676
PspGI CCWGG 2 cut(s) 24, 396
PspLI CGTACG 1 cut(s) 19
PsrI GAACNNNNNNTAC 2 cut(s) 636, 668
PstI CTGCAG 1 cut(s) 1487
RsaI GTAC 3 cut(s) 21, 1082, 1521
RsaNI GTAC 3 cut(s) 20, 1081, 1520
RseI CAYNNNNRTG 2 cut(s) 531, 728
SacI GAGCTC 1 cut(s) 65
SaqAI TTAA 4 cut(s) 609, 726, 1014, 1271
SatI GCNGC 5 cut(s) 79, 198, 584, 981, 1237
Sau3AI GATC 2 cut(s) 1377, 1381
SbfI CCTGCAGG 1 cut(s) 1487
SchI GAGTC 1 cut(s) 30
ScrFI CCNGG 2 cut(s) 26, 398
SdaI CCTGCAGG 1 cut(s) 1487
SduI GDGCHC 4 cut(s) 65, 319, 373, 1683
SfaNI GCATC 2 cut(s) 487, 1039
SfcI CTRYAG 2 cut(s) 1216, 1483
SfuI TTCGAA 2 cut(s) 220, 1122
SmiMI CAYNNNNRTG 2 cut(s) 531, 728
SmlI CTYRAG 2 cut(s) 310, 1204
SmoI CTYRAG 2 cut(s) 310, 1204
Sse8387I CCTGCAGG 1 cut(s) 1487
Sse9I AATT 7 cut(s) 377, 518, 745, 795, 853, 943, 1689
SsiI CCGC 5 cut(s) 354, 435, 564, 1052, 1229
SspI AATATT 1 cut(s) 325
SspMI CTAG 4 cut(s) 332, 639, 1100, 1295
SstI GAGCTC 1 cut(s) 65
StyD4I CCNGG 2 cut(s) 24, 396
StyI CCWWGG 3 cut(s) 50, 109, 694
TaaI ACNGT 5 cut(s) 448, 476, 652, 1370, 1633
TaqI TCGA 6 cut(s) 220, 513, 819, 1122, 1380, 1428
TasI AATT 7 cut(s) 377, 518, 745, 795, 853, 943, 1689
TatI WGTACW 1 cut(s) 1519
TfiI GAWTC 2 cut(s) 229, 403
Tru1I TTAA 4 cut(s) 609, 726, 1014, 1271
Tru9I TTAA 4 cut(s) 609, 726, 1014, 1271
TscAI CASTG 2 cut(s) 451, 655
TseFI GTSAC 1 cut(s) 1252
TseI GCWGC 5 cut(s) 78, 197, 583, 980, 1236
Tsp45I GTSAC 1 cut(s) 1252
TspRI CASTG 2 cut(s) 451, 655
XapI RAATTY 1 cut(s) 518
XbaI TCTAGA 2 cut(s) 331, 1099
XceI RCATGY 2 cut(s) 369, 755
XcmI CCANNNNNNNNNTGG 2 cut(s) 404, 679
XmiI GTMKAC 1 cut(s) 864
XmnI GAANNNNTTC 1 cut(s) 233
XspI CTAG 4 cut(s) 332, 639, 1100, 1295
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.