Rw5G010250

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0013500
Physical Location & Seq
Forward (+)
11261249 .. 11263325
2077 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G010250.1

Sequence Viewer

Length: 1842 bp
ATGCTCCCAAAGCAGCCCTCACTCACCCACACAATCTCAACTACCTTAACTCATCACAACCCAGTTTCAAGCTTGTCTTCCCCAACCCGCCCACAAAATCCACTCCCCTTCATCCTCCAAAAATGCATTGCTCTCCTGCAAAGCTGTGCCTCCTCCATTTCCAAACTCAAACAAATCCACGCCTTCTCTTTACGACATGGCGTCCCTCTCTCCAACCCAGATATGGGCAAACACCTCATCTTCACCGCAGTGTCACTCTCATCCCCAATGTCCTATGCCCACCAAGTATTCTCCCAAATCCAATGGCCCAATGTGTTCACATGGAACACCATGATTAGAGGCTACGCCGAGAGCCAAAACCCAATGCCTGTGATTCAACTCTACCACCAAATGCGTGTGAATTCTGTCGAACCCGATACGCATACATACCCTTTTCTCTTGAAGGCTGTGGCTAAGTTGTTGAATGTGAGAGAGGGGGAGAAGATACATTCCATTGCTCTAAGAAATGGGCTGGAGTCGTTGGTCTTTGTTAAGAACGCTTTGCTACACATGTACGCCGTTTGTGGACAGGTGGAGAGTGCGTACGAGGTGTTTGAGTCAATGTCTGAGAGAGACCTTGTGGCTTGGAATTCTGTGATTAATGGGTTTTCCTTGAATGGAAGGCCTAATGAGGCTCTGACTATATTTAGGGAGATGAGTTTGGAGGGTGTTGAGCCGGATGGGTTCACCATGGTTAGCTTGTTGTGTGCTTGTGCCGAGCTTGGAGCTTTGGCTTTGGGTGGGAGGGTTCATGTGTATATGTTGAAGGCGGGTTTGACAAGGAATGCGCATGCTAGTAATGCGCTTCTGGATGTTTATGCAAAGTGTGGAAGCATAAGGGAGGCGCAGAAGGTGTTTGAAGAAATGGAGGAGAGGAGTGTGGTTTCGTGGACTGCTTTGGTTGTTGGGTTGGCTGTTAATGGGTTTGGTAAGGAAGCATTGGAGCTTTTTAAAGAGTTTAAAAGAGAGGGATTGGTGCTGACTGAGATAACTTTTGTTGGGGTTCTGTATGCCTGTAGTCATTGCGGGATGGTTGATGAAGGGTTTGAGTACTTTAGAGTGATGAAAGAGGAGTATCGGATTGTGCCCAGAATAGAACATTATGGTTGCATGGTTGATTTGTTAGCTAGAGCAGGCTTGGTGAAAGAAGCGTATGAATACATTAAGGACATGCCTGTTCACCCCAATGCTGTTATTTGGAGGACCTTATTAGGAGCATGCACCATACATGGGCAATCGGCTCTAGGGGAGATTGCAAGAGGCCACATCCTGCAGTTAGAACCTAGACATAGTGGGGATTATGTGCTGATCTCCAATCTCTACGCATCTGAGCGTCGATGGTCGGATGTGCAAAAGGTGAGGAGGACAATGCTTAGTGAAGGTGTGAAGAAAACTCCGGGCTATAGTATTGTTGAGTTAAGGAACAGAGTTTTCGAGTTTACTATGGGTGACAGATCTCATCCACAAAGTGATGAGATATATGCAAAGCTGGTAGAGATTACAAAATTACTGAAACAGAAAGGTTATGTGCCTCATACGGAGAATGTTCTTGCAGACATAGAGGAGGAAGAAAAAGAAAATGCTTTGTCCTATCACAGTGAAAAAATTGCAATTGCATTCATGCTCCTAGTTACCGCACCAGGCATACCAATTAGGATTTGGAAGAATTTGAGAGTTTGTGCAGATTGTCATCTTGCATTTAAGCTCATCTCAAAGGTTTATGATCGGGAGATTGTTGTGAGGGATCGTAGCCGATTTCACCATTTTAGAGATGGTTCTTGTTCTTGTAGTGATTACTGGTAA
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 X8

Protein Analysis

613

Amino Acids

69.18

Weight (kDa)

7.34

Isoelectric Point (pI)

47.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 103 - 152 5.3e-12 PPR repeat family
PPR_2 PF13041 205 - 252 8.7e-11 PPR repeat family
PPR PF01535 207 - 237 4.2e-07 PPR repeat
E_motif PF20431 426 - 485 3.2e-17 E motif
Eplus_motif PF20430 491 - 515 1.3e-08 E+ motif
DYW_deaminase PF14432 521 - 613 6.8e-40 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: OG0013500)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G21065 AT4G21065
fragaria_vesca FvH4_3g09500
malus_domestica MD05G1277300.v1.1 MD10G1256200.v1.1
prunus_persica Prupe.4G087400_v2.0.a1
pyrus_communis pycom05g25840 pycom10g21200
rosa_chinensis RchiOBHm_Chr5g0015081
rosa_laevigata RLG00000032168
rosa_multiflora Rmu_co8160296.1_g000001 Rmu_sc0002209.1_g000002 Rmu_sc0009777.1_g000014 Rmu_sc0036572.1_g000001
rosa_roxburghii Rroxscaffold_1G00061450
rosa_rugosa Rorug05G0024200
rosa_samantha Rh5CG127500
rosa_wichuraiana Rw5G010250

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 828
AciI CCGC 5 cut(s) 88, 246, 809, 1065, 1674
AclWI GGATC 1 cut(s) 1791
AcsI RAATTY 3 cut(s) 400, 628, 1705
AcyI GRCGYC 1 cut(s) 201
AdeI CACNNNGTG 1 cut(s) 1508
AfaI GTAC 3 cut(s) 554, 584, 1091
AfiI CCNNNNNNNGG 3 cut(s) 223, 224, 1269
AflIII ACRYGT 1 cut(s) 549
AgsI TTSAA 7 cut(s) 69, 377, 442, 463, 655, 805, 899
AhdI GACNNNNNGTC 1 cut(s) 200
AjnI CCWGG 1 cut(s) 1678
AleI CACNNNNGTG 1 cut(s) 248
AluBI AGCT 9 cut(s) 72, 144, 738, 760, 767, 985, 1166, 1528, 1744
AluI AGCT 9 cut(s) 72, 144, 738, 760, 767, 985, 1166, 1528, 1744
Alw26I GTCTC 1 cut(s) 606
AlwI GGATC 1 cut(s) 1791
AoxI GGCC 3 cut(s) 305, 662, 1300
ApeKI GCWGC 1 cut(s) 13
ApoI RAATTY 3 cut(s) 400, 628, 1705
AseI ATTAAT 1 cut(s) 639
AspLEI GCGC 3 cut(s) 829, 844, 886
AspS9I GGNCC 2 cut(s) 306, 1242
AsuC2I CCSGG 1 cut(s) 1437
AsuHPI GGTGA 8 cut(s) 16, 235, 718, 1192, 1211, 1408, 1499, 1790
AvaII GGWCC 1 cut(s) 1242
BaeGI GKGCMC 1 cut(s) 1128
BbsI GAAGAC 1 cut(s) 69
BbvI GCAGC 1 cut(s) 25
BccI CCATC 4 cut(s) 713, 1063, 1371, 1805
BceAI ACGGC 1 cut(s) 542
BciT130I CCWGG 1 cut(s) 1680
BcnI CCSGG 1 cut(s) 1437
BcoDI GTCTC 1 cut(s) 606
BfaI CTAG 5 cut(s) 834, 1167, 1283, 1323, 1667
BfmI CTRYAG 3 cut(s) 1054, 1310, 1441
BglII AGATCT 1 cut(s) 1493
BisI GCNGC 1 cut(s) 14
BlsI GCNGC 1 cut(s) 15
BmcAI AGTACT 1 cut(s) 1091
Bme1390I CCNGG 2 cut(s) 1437, 1680
Bme18I GGWCC 1 cut(s) 1242
BmeRI GACNNNNNGTC 1 cut(s) 200
BmgT120I GGNCC 2 cut(s) 306, 1242
BmrFI CCNGG 2 cut(s) 1437, 1680
BmrI ACTGGG 1 cut(s) 56
BmsI GCATC 1 cut(s) 1373
BmuI ACTGGG 1 cut(s) 56
BpiI GAAGAC 1 cut(s) 69
BpmI CTGGAG 1 cut(s) 533
BpuMI CCSGG 1 cut(s) 1437
BsaBI GATNNNNATC 1 cut(s) 1728
BsaHI GRCGYC 1 cut(s) 201
BsaI GGTCTC 1 cut(s) 606
BsaJI CCNNGG 1 cut(s) 729
BsaXI ACNNNNNCTCC 2 cut(s) 566, 596
Bsc4I CCNNNNNNNGG 3 cut(s) 223, 224, 1269
Bse1I ACTGG 2 cut(s) 62, 1841
Bse3DI GCAATG 3 cut(s) 126, 492, 1060
Bse8I GATNNNNATC 1 cut(s) 1728
BseBI CCWGG 1 cut(s) 1680
BseDI CCNNGG 1 cut(s) 729
BseGI GGATG 8 cut(s) 111, 260, 724, 856, 1074, 1305, 1390, 1498
BseJI GATNNNNATC 1 cut(s) 1728
BseLI CCNNNNNNNGG 3 cut(s) 223, 224, 1269
BseMI GCAATG 3 cut(s) 126, 492, 1060
BseMII CTCAG 3 cut(s) 597, 1014, 1359
BseNI ACTGG 2 cut(s) 62, 1841
BseRI GAGGAG 6 cut(s) 142, 923, 928, 1124, 1414, 1616
BseSI GKGCMC 1 cut(s) 1128
BseXI GCAGC 1 cut(s) 25
BsgI GTGCAG 1 cut(s) 1740
BshFI GGCC 3 cut(s) 307, 664, 1302
BsiSI CCGG 2 cut(s) 716, 1436
BsiWI CGTACG 1 cut(s) 582
BslFI GGGAC 1 cut(s) 188
BslI CCNNNNNNNGG 3 cut(s) 223, 224, 1269
BsmAI GTCTC 1 cut(s) 606
BsmFI GGGAC 1 cut(s) 188
BsmI GAATGC 2 cut(s) 829, 1655
BsnI GGCC 3 cut(s) 307, 664, 1302
Bso31I GGTCTC 1 cut(s) 606
Bsp1286I GDGCHC 1 cut(s) 1128
Bsp143I GATC 4 cut(s) 1347, 1493, 1762, 1783
Bsp19I CCATGG 1 cut(s) 729
BspACI CCGC 5 cut(s) 88, 246, 809, 1065, 1674
BspANI GGCC 3 cut(s) 307, 664, 1302
BspCNI CTCAG 3 cut(s) 598, 1015, 1360
BspMAI CTGCAG 1 cut(s) 1314
BspPI GGATC 1 cut(s) 1791
BspTNI GGTCTC 1 cut(s) 606
BsrDI GCAATG 3 cut(s) 126, 492, 1060
BsrI ACTGG 2 cut(s) 62, 1841
BssECI CCNNGG 1 cut(s) 729
BssMI GATC 4 cut(s) 1347, 1493, 1762, 1783
BssNI GRCGYC 1 cut(s) 201
BssT1I CCWWGG 1 cut(s) 729
Bst2UI CCWGG 1 cut(s) 1680
Bst4CI ACNGT 1 cut(s) 1637
BstACI GRCGYC 1 cut(s) 201
BstC8I GCNNGC 3 cut(s) 831, 1174, 1258
BstDEI CTNAG 6 cut(s) 453, 500, 606, 1023, 1368, 1412
BstDSI CCRYGG 1 cut(s) 729
BstF5I GGATG 8 cut(s) 111, 260, 724, 856, 1074, 1305, 1390, 1498
BstHHI GCGC 3 cut(s) 829, 844, 886
BstKTI GATC 4 cut(s) 1350, 1496, 1765, 1786
BstMAI GTCTC 1 cut(s) 606
BstMBI GATC 4 cut(s) 1347, 1493, 1762, 1783
BstMWI GCNNNNNNNGC 2 cut(s) 10, 839
BstNI CCWGG 1 cut(s) 1680
BstNSI RCATGY 4 cut(s) 553, 833, 1213, 1260
BstSCI CCNGG 2 cut(s) 1435, 1678
BstSFI CTRYAG 3 cut(s) 1054, 1310, 1441
BstSLI GKGCMC 1 cut(s) 1128
BstV1I GCAGC 1 cut(s) 25
BstV2I GAAGAC 1 cut(s) 69
BstX2I RGATCY 1 cut(s) 1493
BstYI RGATCY 1 cut(s) 1493
BsuRI GGCC 3 cut(s) 307, 664, 1302
BtgI CCRYGG 1 cut(s) 729
BtsCI GGATG 8 cut(s) 111, 260, 724, 856, 1074, 1305, 1390, 1498
BtsI GCAGTG 1 cut(s) 255
BtsIMutI CAGTG 2 cut(s) 255, 1642
Cac8I GCNNGC 3 cut(s) 831, 1174, 1258
CfoI GCGC 3 cut(s) 829, 844, 886
Cfr13I GGNCC 2 cut(s) 306, 1242
CseI GACGC 2 cut(s) 190, 1361
Csp6I GTAC 3 cut(s) 553, 583, 1090
CviQI GTAC 3 cut(s) 553, 583, 1090
DdeI CTNAG 6 cut(s) 453, 500, 606, 1023, 1368, 1412
DpnI GATC 4 cut(s) 1349, 1495, 1764, 1785
DpnII GATC 4 cut(s) 1347, 1493, 1762, 1783
DraI TTTAAA 2 cut(s) 991, 1000
DraIII CACNNNGTG 1 cut(s) 1508
DriI GACNNNNNGTC 1 cut(s) 200
Eam1105I GACNNNNNGTC 1 cut(s) 200
Eco130I CCWWGG 1 cut(s) 729
Eco147I AGGCCT 1 cut(s) 664
Eco31I GGTCTC 1 cut(s) 606
Eco47I GGWCC 1 cut(s) 1242
EcoO109I RGGNCCY 1 cut(s) 1242
EcoRI GAATTC 2 cut(s) 400, 628
EcoRII CCWGG 1 cut(s) 1678
EcoT14I CCWWGG 1 cut(s) 729
EcoT22I ATGCAT 1 cut(s) 128
ErhI CCWWGG 1 cut(s) 729
FalI AAGNNNNNCTT 2 cut(s) 61, 93
FaqI GGGAC 1 cut(s) 188
FauI CCCGC 3 cut(s) 95, 802, 1058
Fnu4HI GCNGC 1 cut(s) 14
FokI GGATG 8 cut(s) 98, 247, 731, 863, 1081, 1292, 1397, 1485
Fsp4HI GCNGC 1 cut(s) 14
FspAI RTGCGCAY 1 cut(s) 828
FspBI CTAG 5 cut(s) 834, 1167, 1283, 1323, 1667
FspI TGCGCA 1 cut(s) 828
GlaI GCGC 3 cut(s) 828, 843, 885
GluI GCNGC 1 cut(s) 14
GsuI CTGGAG 1 cut(s) 533
HaeIII GGCC 3 cut(s) 307, 664, 1302
HapII CCGG 2 cut(s) 716, 1436
HgaI GACGC 2 cut(s) 190, 1361
HhaI GCGC 3 cut(s) 829, 844, 886
Hin1I GRCGYC 1 cut(s) 201
Hin6I GCGC 3 cut(s) 827, 842, 884
HinP1I GCGC 3 cut(s) 827, 842, 884
HindIII AAGCTT 1 cut(s) 70
HinfI GANTC 3 cut(s) 373, 515, 596
HpaII CCGG 2 cut(s) 716, 1436
HphI GGTGA 8 cut(s) 16, 235, 718, 1192, 1211, 1408, 1499, 1790
Hpy166II GTNNAC 6 cut(s) 318, 566, 726, 930, 1219, 1479
Hpy188I TCNGA 5 cut(s) 607, 678, 1119, 1369, 1384
Hpy188III TCNNGA 3 cut(s) 439, 848, 1766
Hpy8I GTNNAC 6 cut(s) 318, 566, 726, 930, 1219, 1479
Hpy99I CGWCG 1 cut(s) 1377
HpyAV CCTTC 8 cut(s) 118, 193, 436, 654, 799, 883, 1073, 1412
HpyCH4III ACNGT 1 cut(s) 1637
HpyF10VI GCNNNNNNNGC 2 cut(s) 10, 839
HpyF3I CTNAG 6 cut(s) 453, 500, 606, 1023, 1368, 1412
Hsp92I GRCGYC 1 cut(s) 201
HspAI GCGC 3 cut(s) 827, 842, 884
Kzo9I GATC 4 cut(s) 1347, 1493, 1762, 1783
LmnI GCTCC 5 cut(s) 9, 764, 982, 1253, 1668
Lsp1109I GCAGC 1 cut(s) 25
LweI GCATC 1 cut(s) 1373
MaeI CTAG 5 cut(s) 834, 1167, 1283, 1323, 1667
MaeIII GTNAC 3 cut(s) 252, 1487, 1669
MalI GATC 4 cut(s) 1349, 1495, 1764, 1785
MboI GATC 4 cut(s) 1347, 1493, 1762, 1783
MboII GAAGA 7 cut(s) 69, 232, 493, 911, 1438, 1619, 1714
MfeI CAATTG 1 cut(s) 1650
MflI RGATCY 1 cut(s) 1493
MhlI GDGCHC 1 cut(s) 1128
MluCI AATT 7 cut(s) 400, 628, 1544, 1644, 1650, 1689, 1705
MlyI GAGTC 2 cut(s) 524, 605
MmeI TCCRAC 2 cut(s) 237, 1362
Mph1103I ATGCAT 1 cut(s) 128
MseI TTAA 9 cut(s) 47, 531, 639, 957, 990, 999, 1203, 1457, 1740
MslI CAYNNNNRTG 2 cut(s) 248, 1224
MspI CCGG 2 cut(s) 716, 1436
MspR9I CCNGG 2 cut(s) 1437, 1680
MunI CAATTG 1 cut(s) 1650
Mva1269I GAATGC 2 cut(s) 829, 1655
MvaI CCWGG 1 cut(s) 1680
MwoI GCNNNNNNNGC 2 cut(s) 10, 839
NciI CCSGG 1 cut(s) 1437
NcoI CCATGG 1 cut(s) 729
NdeII GATC 4 cut(s) 1347, 1493, 1762, 1783
NmeAIII GCCGAG 2 cut(s) 373, 781
NmuCI GTSAC 2 cut(s) 252, 1487
NsbI TGCGCA 1 cut(s) 828
NsiI ATGCAT 1 cut(s) 128
NspI RCATGY 4 cut(s) 553, 833, 1213, 1260
OliI CACNNNNGTG 1 cut(s) 248
PaeI GCATGC 2 cut(s) 833, 1260
PceI AGGCCT 1 cut(s) 664
PciI ACATGT 1 cut(s) 549
PctI GAATGC 2 cut(s) 829, 1655
PfeI GAWTC 1 cut(s) 373
Pfl23II CGTACG 1 cut(s) 582
PkrI GCNGC 1 cut(s) 15
PleI GAGTC 2 cut(s) 523, 604
PpsI GAGTC 2 cut(s) 523, 604
PpuMI RGGWCCY 1 cut(s) 1242
PscI ACATGT 1 cut(s) 549
PshBI ATTAAT 1 cut(s) 639
Psp5II RGGWCCY 1 cut(s) 1242
Psp6I CCWGG 1 cut(s) 1678
PspGI CCWGG 1 cut(s) 1678
PspLI CGTACG 1 cut(s) 582
PspPI GGNCC 2 cut(s) 306, 1242
PspPPI RGGWCCY 1 cut(s) 1242
PstI CTGCAG 1 cut(s) 1314
PsuI RGATCY 1 cut(s) 1493
RsaI GTAC 3 cut(s) 554, 584, 1091
RsaNI GTAC 3 cut(s) 553, 583, 1090
RseI CAYNNNNRTG 2 cut(s) 248, 1224
SaqAI TTAA 9 cut(s) 47, 531, 639, 957, 990, 999, 1203, 1457, 1740
SatI GCNGC 1 cut(s) 14
Sau3AI GATC 4 cut(s) 1347, 1493, 1762, 1783
Sau96I GGNCC 2 cut(s) 306, 1242
ScaI AGTACT 1 cut(s) 1091
SchI GAGTC 2 cut(s) 524, 605
ScrFI CCNGG 2 cut(s) 1437, 1680
SduI GDGCHC 1 cut(s) 1128
SfaNI GCATC 1 cut(s) 1373
SfcI CTRYAG 3 cut(s) 1054, 1310, 1441
SinI GGWCC 1 cut(s) 1242
SmiMI CAYNNNNRTG 2 cut(s) 248, 1224
SphI GCATGC 2 cut(s) 833, 1260
Sse9I AATT 7 cut(s) 400, 628, 1544, 1644, 1650, 1689, 1705
SseBI AGGCCT 1 cut(s) 664
SsiI CCGC 5 cut(s) 88, 246, 809, 1065, 1674
SspMI CTAG 5 cut(s) 834, 1167, 1283, 1323, 1667
StuI AGGCCT 1 cut(s) 664
StyD4I CCNGG 2 cut(s) 1435, 1678
StyI CCWWGG 1 cut(s) 729
TaaI ACNGT 1 cut(s) 1637
TaqI TCGA 3 cut(s) 408, 1375, 1473
TasI AATT 7 cut(s) 400, 628, 1544, 1644, 1650, 1689, 1705
TatI WGTACW 1 cut(s) 1089
TfiI GAWTC 1 cut(s) 373
Tru1I TTAA 9 cut(s) 47, 531, 639, 957, 990, 999, 1203, 1457, 1740
Tru9I TTAA 9 cut(s) 47, 531, 639, 957, 990, 999, 1203, 1457, 1740
TscAI CASTG 2 cut(s) 255, 1642
TseFI GTSAC 2 cut(s) 252, 1487
TseI GCWGC 1 cut(s) 13
Tsp45I GTSAC 2 cut(s) 252, 1487
TspDTI ATGAA 6 cut(s) 100, 779, 1092, 1118, 1209, 1648
TspGWI ACGGA 1 cut(s) 1592
TspRI CASTG 2 cut(s) 255, 1642
VpaK11BI GGWCC 1 cut(s) 1242
VspI ATTAAT 1 cut(s) 639
XapI RAATTY 3 cut(s) 400, 628, 1705
XceI RCATGY 4 cut(s) 553, 833, 1213, 1260
XcmI CCANNNNNNNNNTGG 3 cut(s) 220, 1695, 1808
XspI CTAG 5 cut(s) 834, 1167, 1283, 1323, 1667
ZrmI AGTACT 1 cut(s) 1091
Zsp2I ATGCAT 1 cut(s) 128
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.