Rh5AG471900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0018014
Physical Location & Seq
Reverse (-)
80919257 .. 80920891
1635 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG471900.1

Sequence Viewer

Length: 1635 bp
ATGCTCCATAGAAGTTTATCGTGGGCTAAGACGATCAGTAATCTAGTAAACCAAGGGCAAAATTGTCAAGCAATAGCTCTGTTTCGCCGAGTGCGGGAAAATGGGTTTGAAGTAACCGGGTTTCTTCTCTCAGCAACTTTGCGAGCTTGTGGAAGAGTTGCTGCAATAAAAGAAGGCAAGCAACTTCATGGCATGGCGATCAAACATGGGTTCAATCGGGACACGATTCTAATGACGTCTCTTCTTGACTTGTACTGTAAATGCAATGAGATCAAAGACGCCCGCGATATGTTTGATGAAATGCCTGAGAGAGATGTGATTGCTACTAATTGCATGATTTCTGGGTTGTGTTGGTCTCACTCAACAATGGAAGCGATTGAATTGTTTAACAACATGTTGGAAAGAGACGTTGGGTCTTGGAATTCGCTGATTTCGGGTCTTGGGCATAACTCGGAAGGAAGGACCGGGTTGGCTTTCTTTGAGAAAATGAGATTGGAGGGAGCTGATGTTGATGTTATGACCGTGGTAAGTGTTCTTTCAATTTGTTCTGATCTTGCAGCATTGCGTAACGGTAAACAAGTACATTGTTTAGTGATGAAGTATGGATTCGAGTTGTATTTGTCGGTTGGGAATGCTGTTATTGACATGTATGCTAAATGTGGGTCCATGGAAGATGCTTTTGTATGTTTCAGGAACATGCCTTTGAAGAATGTAGTTTCATGGACTGCTTTGATTGTGGGTTTTGGGAAACAAGGCCAGGGAATAGAAGCTTTGAAGGCGTTTGATGCAATGGAAATAGAAGGTGTTCGACCAAACAGAATCACATTCTTGGGTGCCTTGTATGCGTGTAGTCATGCAGGTTTAGTACAAGAAGCATGGAGGATTTTCAACATGATGGTGAATAAGTATTCAATAACACCAATGATGGCGCACTATACATGCATGGTCGATCTCCTAGCACGATCAGGGTGTTTCAACGAGGCCTATAGCTTCATCGAGAGAATGCCTATAAAGCCAGACCCAAAGCTTCTCACAGCATTTCTGAGCTCATGTTGCTCTCACAAGAATTTAGAGCTAGGAAAGACTGTTGGGCAGAAATTGCTTGAATCACAACCTGAAGAAGCAGGAGCCTATATGTTGCTATCCAACTTCTATGGGCTTGTCGGAGACTTGCAAGGTGTGGCAAAAGTGAGAAGATTGATGCTAGATAGAGGAATAAGGAAAGAAAAGGCAAGCACTTGGATTGAGATTAACAAAACAGTTCACAGTTTTCAATCAGGAGACAGATCCCATCCCCTAAGTAAAGACATCTACAACTACTTGCAACATCTTTTTCGGACGTTGAAAATTAACGGGTACGTTCCAAACACAAGCATGGTAATGCAAAATGTGGATGAACAGACAAAGGAGGAGATAGTTCTCAGTCATAGCGAGAAACTGGCAATTGGACTAGGCCTAATCAGCACACCTCCAGGTACCCGTATCGTTATAGTTAAGAACCTGAGAGTGTGCGCAGACTGTCATGTGGTAACTGGCTTAATTTCAAAGACTGAAGGGAGGGAGATTGTTGCAAGGGATTCGAGTCGATTCCATCATTTCAAAGATGGACTATGTTCTTGTGGAAATCATTGGTGA
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
DYW_deaminase PPR PPR_2

Protein Analysis

544

Amino Acids

60.76

Weight (kDa)

8.32

Isoelectric Point (pI)

34.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 236 - 280 3.7e-08 PPR repeat family
PPR_long PF17177 252 - 381 2.6e-06 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 354 - 416 2.4e-11 E motif
Eplus_motif PF20430 421 - 444 1.5e-06 E+ motif
DYW_deaminase PF14432 452 - 544 5.1e-38 DYW family of nucleic acid deaminases
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: OG0018014)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g39961
prunus_persica Prupe.6G045500_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0071981
rosa_laevigata RLG00000036268
rosa_multiflora Rmu_co8282069.1_g000001
rosa_roxburghii Rroxscaffold_1G00009160
rosa_rugosa Rorug05G0415900
rosa_samantha Rh5AG471900 Rh5BG491900 Rh5CG515700
rosa_wichuraiana Rw5G043870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 239
Acc16I TGCGCA 1 cut(s) 1513
Acc36I ACCTGC 1 cut(s) 848
Acc65I GGTACC 1 cut(s) 1475
AccB1I GGYRCC 2 cut(s) 833, 1475
AccII CGCG 1 cut(s) 285
AciI CCGC 2 cut(s) 94, 283
AclWI GGATC 1 cut(s) 1281
AcsI RAATTY 2 cut(s) 421, 1066
AcuI CTGAAG 2 cut(s) 1137, 1572
AcyI GRCGYC 2 cut(s) 236, 279
AfaI GTAC 5 cut(s) 254, 582, 867, 1358, 1477
AfiI CCNNNNNNNGG 1 cut(s) 94
AflIII ACRYGT 2 cut(s) 393, 645
AhdI GACNNNNNGTC 1 cut(s) 412
AjnI CCWGG 2 cut(s) 756, 1471
AjuI GAANNNNNNNTTGG 4 cut(s) 393, 425, 476, 508
AluBI AGCT 8 cut(s) 77, 146, 503, 770, 990, 1027, 1047, 1075
AluI AGCT 8 cut(s) 77, 146, 503, 770, 990, 1027, 1047, 1075
Alw21I GWGCWC 1 cut(s) 1049
Alw26I GTCTC 5 cut(s) 243, 360, 399, 1161, 1275
AlwI GGATC 1 cut(s) 1281
AoxI GGCC 3 cut(s) 754, 981, 1453
ApeKI GCWGC 2 cut(s) 161, 557
ApoI RAATTY 2 cut(s) 421, 1066
Asp700I GAANNNNTTC 1 cut(s) 804
Asp718I GGTACC 1 cut(s) 1475
AspLEI GCGC 2 cut(s) 931, 1514
AspS9I GGNCC 2 cut(s) 462, 663
AsuC2I CCSGG 2 cut(s) 118, 466
AsuHPI GGTGA 1 cut(s) 910
AvaII GGWCC 2 cut(s) 462, 663
BanI GGYRCC 2 cut(s) 833, 1475
BanII GRGCYC 1 cut(s) 1049
Bbv12I GWGCWC 1 cut(s) 1049
BbvI GCAGC 2 cut(s) 148, 569
BccI CCATC 5 cut(s) 889, 919, 1299, 1598, 1599
BcgI CGANNNNNNTGC 2 cut(s) 1560, 1594
BciT130I CCWGG 2 cut(s) 758, 1473
BcnI CCSGG 2 cut(s) 118, 466
BcoDI GTCTC 5 cut(s) 243, 360, 399, 1161, 1275
BfaI CTAG 5 cut(s) 44, 956, 1076, 1205, 1451
BfmI CTRYAG 1 cut(s) 985
BfuAI ACCTGC 1 cut(s) 848
BisI GCNGC 2 cut(s) 162, 558
BlsI GCNGC 2 cut(s) 163, 559
Bme1390I CCNGG 4 cut(s) 118, 466, 758, 1473
Bme18I GGWCC 2 cut(s) 462, 663
BmeRI GACNNNNNGTC 1 cut(s) 412
BmgT120I GGNCC 2 cut(s) 462, 663
BmiI GGNNCC 4 cut(s) 664, 835, 1129, 1477
BmrFI CCNGG 4 cut(s) 118, 466, 758, 1473
BmsI GCATC 3 cut(s) 664, 775, 1191
BpmI CTGGAG 1 cut(s) 1455
BpuMI CCSGG 2 cut(s) 118, 466
BsaHI GRCGYC 2 cut(s) 236, 279
BsaI GGTCTC 1 cut(s) 360
BsaJI CCNNGG 4 cut(s) 52, 522, 666, 757
BsaXI ACNNNNNCTCC 2 cut(s) 492, 522
Bsc4I CCNNNNNNNGG 1 cut(s) 94
Bse1I ACTGG 2 cut(s) 1443, 1537
Bse3DI GCAATG 3 cut(s) 271, 560, 795
BseBI CCWGG 2 cut(s) 758, 1473
BseDI CCNNGG 4 cut(s) 52, 522, 666, 757
BseGI GGATG 2 cut(s) 1291, 1399
BseLI CCNNNNNNNGG 1 cut(s) 94
BseMI GCAATG 3 cut(s) 271, 560, 795
BseMII CTCAG 5 cut(s) 144, 297, 1034, 1435, 1493
BseNI ACTGG 2 cut(s) 1443, 1537
BseRI GAGGAG 1 cut(s) 1424
BseXI GCAGC 2 cut(s) 148, 569
Bsh1236I CGCG 1 cut(s) 285
BshFI GGCC 3 cut(s) 756, 983, 1455
BshNI GGYRCC 2 cut(s) 833, 1475
BsiHKAI GWGCWC 1 cut(s) 1049
BsiSI CCGG 2 cut(s) 117, 465
BslFI GGGAC 1 cut(s) 233
BslI CCNNNNNNNGG 1 cut(s) 94
BsmAI GTCTC 5 cut(s) 243, 360, 399, 1161, 1275
BsmBI CGTCTC 2 cut(s) 243, 399
BsmFI GGGAC 1 cut(s) 233
BsmI GAATGC 2 cut(s) 637, 1008
BsnI GGCC 3 cut(s) 756, 983, 1455
Bso31I GGTCTC 1 cut(s) 360
Bsp1286I GDGCHC 1 cut(s) 1049
Bsp143I GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
Bsp19I CCATGG 1 cut(s) 666
BspACI CCGC 2 cut(s) 94, 283
BspANI GGCC 3 cut(s) 756, 983, 1455
BspCNI CTCAG 5 cut(s) 143, 298, 1035, 1434, 1494
BspFNI CGCG 1 cut(s) 285
BspLI GGNNCC 4 cut(s) 664, 835, 1129, 1477
BspMI ACCTGC 1 cut(s) 848
BspPI GGATC 1 cut(s) 1281
BspT107I GGYRCC 2 cut(s) 833, 1475
BspTNI GGTCTC 1 cut(s) 360
BsrDI GCAATG 3 cut(s) 271, 560, 795
BsrI ACTGG 2 cut(s) 1443, 1537
BssECI CCNNGG 4 cut(s) 52, 522, 666, 757
BssMI GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
BssNI GRCGYC 2 cut(s) 236, 279
BssT1I CCWWGG 2 cut(s) 52, 666
Bst2UI CCWGG 2 cut(s) 758, 1473
Bst4CI ACNGT 7 cut(s) 257, 523, 572, 1087, 1261, 1268, 1520
Bst6I CTCTTC 2 cut(s) 148, 246
BstACI GRCGYC 2 cut(s) 236, 279
BstAPI GCANNNNNTGC 1 cut(s) 1099
BstC8I GCNNGC 4 cut(s) 144, 179, 283, 1234
BstDEI CTNAG 7 cut(s) 27, 130, 306, 1043, 1298, 1421, 1502
BstDSI CCRYGG 2 cut(s) 522, 666
BstF5I GGATG 2 cut(s) 1291, 1399
BstFNI CGCG 1 cut(s) 285
BstHHI GCGC 2 cut(s) 931, 1514
BstKTI GATC 7 cut(s) 36, 201, 273, 553, 952, 965, 1289
BstMAI GTCTC 5 cut(s) 243, 360, 399, 1161, 1275
BstMBI GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
BstMWI GCNNNNNNNGC 7 cut(s) 776, 785, 842, 1012, 1053, 1099, 1461
BstNI CCWGG 2 cut(s) 758, 1473
BstNSI RCATGY 4 cut(s) 397, 649, 700, 942
BstSCI CCNGG 4 cut(s) 116, 464, 756, 1471
BstSFI CTRYAG 1 cut(s) 985
BstUI CGCG 1 cut(s) 285
BstV1I GCAGC 2 cut(s) 148, 569
BstX2I RGATCY 1 cut(s) 1286
BstYI RGATCY 1 cut(s) 1286
BsuRI GGCC 3 cut(s) 756, 983, 1455
BtgI CCRYGG 2 cut(s) 522, 666
BtsCI GGATG 2 cut(s) 1291, 1399
BveI ACCTGC 1 cut(s) 848
Cac8I GCNNGC 4 cut(s) 144, 179, 283, 1234
CfoI GCGC 2 cut(s) 931, 1514
Cfr13I GGNCC 2 cut(s) 462, 663
CseI GACGC 1 cut(s) 287
Csp6I GTAC 5 cut(s) 253, 581, 866, 1357, 1476
CviQI GTAC 5 cut(s) 253, 581, 866, 1357, 1476
DdeI CTNAG 7 cut(s) 27, 130, 306, 1043, 1298, 1421, 1502
DpnI GATC 7 cut(s) 35, 200, 272, 552, 951, 964, 1288
DpnII GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
DriI GACNNNNNGTC 1 cut(s) 412
Eam1104I CTCTTC 2 cut(s) 148, 246
Eam1105I GACNNNNNGTC 1 cut(s) 412
EarI CTCTTC 2 cut(s) 148, 246
Ecl136II GAGCTC 1 cut(s) 1047
Eco130I CCWWGG 2 cut(s) 52, 666
Eco147I AGGCCT 2 cut(s) 983, 1455
Eco24I GRGCYC 1 cut(s) 1049
Eco31I GGTCTC 1 cut(s) 360
Eco47I GGWCC 2 cut(s) 462, 663
Eco53kI GAGCTC 1 cut(s) 1047
Eco57I CTGAAG 2 cut(s) 1137, 1572
EcoICRI GAGCTC 1 cut(s) 1047
EcoRI GAATTC 1 cut(s) 421
EcoRII CCWGG 2 cut(s) 756, 1471
EcoT14I CCWWGG 2 cut(s) 52, 666
EcoT22I ATGCAT 1 cut(s) 944
EcoT38I GRGCYC 1 cut(s) 1049
ErhI CCWWGG 2 cut(s) 52, 666
Esp3I CGTCTC 2 cut(s) 243, 399
FaqI GGGAC 1 cut(s) 233
FauI CCCGC 2 cut(s) 87, 290
Fnu4HI GCNGC 2 cut(s) 162, 558
FokI GGATG 2 cut(s) 1278, 1406
FriOI GRGCYC 1 cut(s) 1049
Fsp4HI GCNGC 2 cut(s) 162, 558
FspBI CTAG 5 cut(s) 44, 956, 1076, 1205, 1451
FspI TGCGCA 1 cut(s) 1513
GlaI GCGC 2 cut(s) 930, 1513
GluI GCNGC 2 cut(s) 162, 558
GsuI CTGGAG 1 cut(s) 1455
HaeIII GGCC 3 cut(s) 756, 983, 1455
HapII CCGG 2 cut(s) 117, 465
HgaI GACGC 1 cut(s) 287
HhaI GCGC 2 cut(s) 931, 1514
Hin1I GRCGYC 2 cut(s) 236, 279
Hin6I GCGC 2 cut(s) 929, 1512
HinP1I GCGC 2 cut(s) 929, 1512
HindIII AAGCTT 2 cut(s) 768, 1025
HinfI GANTC 7 cut(s) 226, 606, 819, 1106, 1577, 1582, 1587
HpaII CCGG 2 cut(s) 117, 465
HphI GGTGA 1 cut(s) 910
Hpy166II GTNNAC 3 cut(s) 49, 575, 1264
Hpy188I TCNGA 5 cut(s) 454, 550, 1044, 1166, 1338
Hpy188III TCNNGA 5 cut(s) 218, 245, 691, 997, 1278
Hpy8I GTNNAC 3 cut(s) 49, 575, 1264
HpyAV CCTTC 6 cut(s) 167, 449, 453, 769, 794, 1547
HpyCH4III ACNGT 7 cut(s) 257, 523, 572, 1087, 1261, 1268, 1520
HpyCH4IV ACGT 4 cut(s) 236, 408, 1340, 1359
HpyF10VI GCNNNNNNNGC 7 cut(s) 776, 785, 842, 1012, 1053, 1099, 1461
HpyF3I CTNAG 7 cut(s) 27, 130, 306, 1043, 1298, 1421, 1502
HpySE526I ACGT 4 cut(s) 236, 408, 1340, 1359
Hsp92I GRCGYC 2 cut(s) 236, 279
HspAI GCGC 2 cut(s) 929, 1512
KpnI GGTACC 1 cut(s) 1479
Kzo9I GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
LmnI GCTCC 3 cut(s) 9, 500, 1127
Lsp1109I GCAGC 2 cut(s) 148, 569
LweI GCATC 3 cut(s) 664, 775, 1191
MaeI CTAG 5 cut(s) 44, 956, 1076, 1205, 1451
MaeII ACGT 4 cut(s) 236, 408, 1340, 1359
MaeIII GTNAC 3 cut(s) 112, 566, 1528
MalI GATC 7 cut(s) 35, 200, 272, 552, 951, 964, 1288
MboI GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
MboII GAAGA 7 cut(s) 116, 165, 233, 683, 718, 1130, 1206
MfeI CAATTG 1 cut(s) 1443
MflI RGATCY 1 cut(s) 1286
MhlI GDGCHC 1 cut(s) 1049
MlyI GAGTC 1 cut(s) 1591
MmeI TCCRAC 3 cut(s) 378, 1144, 1170
MnlI CCTC 7 cut(s) 490, 873, 973, 1205, 1402, 1479, 1551
Mph1103I ATGCAT 1 cut(s) 944
MroXI GAANNNNTTC 1 cut(s) 804
MseI TTAA 5 cut(s) 387, 1251, 1350, 1494, 1538
MslI CAYNNNNRTG 3 cut(s) 896, 1373, 1379
MspI CCGG 2 cut(s) 117, 465
MspR9I CCNGG 4 cut(s) 118, 466, 758, 1473
MunI CAATTG 1 cut(s) 1443
Mva1269I GAATGC 2 cut(s) 637, 1008
MvaI CCWGG 2 cut(s) 758, 1473
MvnI CGCG 1 cut(s) 285
MwoI GCNNNNNNNGC 7 cut(s) 776, 785, 842, 1012, 1053, 1099, 1461
NciI CCSGG 2 cut(s) 118, 466
NcoI CCATGG 1 cut(s) 666
NdeII GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
NlaIV GGNNCC 4 cut(s) 664, 835, 1129, 1477
NmeAIII GCCGAG 1 cut(s) 113
NsbI TGCGCA 1 cut(s) 1513
NsiI ATGCAT 1 cut(s) 944
NspI RCATGY 4 cut(s) 397, 649, 700, 942
PceI AGGCCT 2 cut(s) 983, 1455
PciI ACATGT 2 cut(s) 393, 645
PctI GAATGC 2 cut(s) 637, 1008
PdmI GAANNNNTTC 1 cut(s) 804
PfeI GAWTC 6 cut(s) 226, 606, 819, 1106, 1577, 1587
PkrI GCNGC 2 cut(s) 163, 559
PleI GAGTC 1 cut(s) 1590
PpsI GAGTC 1 cut(s) 1590
PscI ACATGT 2 cut(s) 393, 645
Psp124BI GAGCTC 1 cut(s) 1049
Psp6I CCWGG 2 cut(s) 756, 1471
PspGI CCWGG 2 cut(s) 756, 1471
PspN4I GGNNCC 4 cut(s) 664, 835, 1129, 1477
PspPI GGNCC 2 cut(s) 462, 663
PsuI RGATCY 1 cut(s) 1286
RsaI GTAC 5 cut(s) 254, 582, 867, 1358, 1477
RsaNI GTAC 5 cut(s) 253, 581, 866, 1357, 1476
RseI CAYNNNNRTG 3 cut(s) 896, 1373, 1379
SacI GAGCTC 1 cut(s) 1049
SaqAI TTAA 5 cut(s) 387, 1251, 1350, 1494, 1538
SatI GCNGC 2 cut(s) 162, 558
Sau3AI GATC 7 cut(s) 33, 198, 270, 550, 949, 962, 1286
Sau96I GGNCC 2 cut(s) 462, 663
SchI GAGTC 1 cut(s) 1591
ScrFI CCNGG 4 cut(s) 118, 466, 758, 1473
SduI GDGCHC 1 cut(s) 1049
SfaNI GCATC 3 cut(s) 664, 775, 1191
SfcI CTRYAG 1 cut(s) 985
SinI GGWCC 2 cut(s) 462, 663
SmiMI CAYNNNNRTG 3 cut(s) 896, 1373, 1379
SseBI AGGCCT 2 cut(s) 983, 1455
SsiI CCGC 2 cut(s) 94, 283
SspMI CTAG 5 cut(s) 44, 956, 1076, 1205, 1451
SstI GAGCTC 1 cut(s) 1049
StuI AGGCCT 2 cut(s) 983, 1455
StyD4I CCNGG 4 cut(s) 116, 464, 756, 1471
StyI CCWWGG 2 cut(s) 52, 666
TaaI ACNGT 7 cut(s) 257, 523, 572, 1087, 1261, 1268, 1520
TaiI ACGT 4 cut(s) 239, 411, 1343, 1362
TaqI TCGA 6 cut(s) 609, 808, 948, 996, 1580, 1585
TatI WGTACW 3 cut(s) 252, 580, 865
TfiI GAWTC 6 cut(s) 226, 606, 819, 1106, 1577, 1587
Tru1I TTAA 5 cut(s) 387, 1251, 1350, 1494, 1538
Tru9I TTAA 5 cut(s) 387, 1251, 1350, 1494, 1538
TseI GCWGC 2 cut(s) 161, 557
TspDTI ATGAA 6 cut(s) 176, 312, 611, 708, 982, 1410
VpaK11BI GGWCC 2 cut(s) 462, 663
XapI RAATTY 2 cut(s) 421, 1066
XceI RCATGY 4 cut(s) 397, 649, 700, 942
XmnI GAANNNNTTC 1 cut(s) 804
XspI CTAG 5 cut(s) 44, 956, 1076, 1205, 1451
ZraI GACGTC 1 cut(s) 237
Zsp2I ATGCAT 1 cut(s) 944
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.