Rw6G028520

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0013302
Physical Location & Seq
Forward (+)
52605955 .. 52607943
1989 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G028520.1

Sequence Viewer

Length: 1515 bp
ATGTTGCTAAGAAACCTGCGAAGCTCCATCGCCGCCGTCCGCCGTTTCTCGGCGGTGGCGAGCACCGGAGCGACGAAGGAATCGGGCGGTGGAAGAGACACGCTGGGAAGGAGACTTCTGGGCCTGGTGTATGCAAAACGCAGCGCGGCGGTTACTATAGGGAAATGGAAAGAGGAAGGAGGCACAGTGCGGAAGTATGAGCTTAATCGAATTGTTCGGGAGCTTCGTAAGCTCCGGCGTTATAAGCACGCTCTTGAGATATGCGAATGGATGACTTTGCAGAAAGATATCAAGCTACTGGCAGGTGATTATGCTGTTCAGTTGGATTTGATTGCAAAGGTTCGTGGTATGAATAACGCAGAGAAGTTTTTCGAGGATCTCCCTGAGCAGATGAGAGACGGCACGACCTGTTCAGCTCTTCTGCATACATATGTCCAGAATAAAGAGACTGCCAAAGCGGAGGCTCTGGTGGAGAAGATGAAAGAGTGTGGTTTCGTGAAGAATCCCCTTCCTTACAACCACATGCTGTCTTTGTATGTGTCCGATGGGCAATTAGACAAGATTCCTGAAGTAATTGGGGAGATGAAGGTTCATACTAAACCGGATGTTGTCACTTACAATCTATGGTTAACAGTTTGTGCTTCGCAAAATAATGTTGATAGTGCAGAAAGAGTGTTTCTTGAATTGAAGAAGGCAAAGGTAAATCCGGACTGGGTGACATTTAGCACGCTAACGAACTTGTACATCAAAAGTTCACTCATTGAAAAAGCAGCAGCTACCTTGAAGGAGATGGAGAATATGGCATCTCGGAAGCATCGAGTCGCATATTCATCTCTCCTCAGCCTGCATGCAAACATTGGGGACAAGGCTGGTGTTCAGCGAGTTTGGAAGAAACTAAAATCATGTTTCCCCAAAATGAATGATGCTGAGTATACATGTATGATAGCTTCATTTGTGAAACTCAAGGAGATTGAAGAAGCTGAGAAACTCTATACTGAGTGGGAGTCTGTTTCTGGGACTCATGATCCTAGGGTCTCAAATATAATTCTTGCAGCTTACATCAACAGAAACCAAATGGATGTGGCTGAAACCTTCTGTAGTCGTATGATGCAAAATAGCATCACCCCCTGTTACAGTACTTGGGAGCTTCTTACGTGGGGCTATTTGAAACAAAAGCATACGAAAAAAGTGCTAGAGTATTTTAAGAAAGCAGTTGGTAGTGTGAAAAAATGGGATCCCGACCAAAGATTGATTGCAGAAGTATTTTGCAGGCTCAATGAGGAAGGCAGTGTTGAAGAGGCAGAGGAACTAGTGGTTTTCCTTCGGAATGCTGGTCATGTGAGTACTGAGACATATAATTCACTTCTACGAACTTATGCTCAAGCTGGTACAATGCCACTTTTGGTTGAAGAACGGATGAAGAAGGACAATGTTGAATTGAATAAGGAGACTCGCTCGCTTATAAAAAGGATCAGCAAAATTTGTGCGAGTGAAGTTCCTAGCCTATGTTCTTAA

Protein Analysis

504

Amino Acids

57.36

Weight (kDa)

9.13

Isoelectric Point (pI)

35.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 171 - 213 7.2e-06 Pentatricopeptide repeat domain
PPR_3 PF13812 200 - 248 2.9e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 201 - 246 3.7e-10 PPR repeat family
PPR_long PF17177 210 - 301 3.6e-06 Pentacotripeptide-repeat region of PRORP
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: OG0013302)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G02820
fragaria_vesca FvH4_2g23640
malus_domestica MD03G1265900.v1.1
prunus_persica Prupe.8G241600_v2.0.a1 Prupe.8G241600_v2.0.a1 Prupe.8G241600_v2.0.a1
pyrus_communis pycom03g21240
rosa_chinensis RchiOBHm_Chr6g0291111
rosa_laevigata RLG00000012143
rosa_multiflora Rmu_sc0004642.1_g000017 Rmu_sc0033743.1_g000001
rosa_roxburghii Rroxscaffold_7G00176370
rosa_rugosa Rorug06G0217700
rosa_samantha Rh6AG327900 Rh6BG335400 Rh6CG341600 Rh6DG328800
rosa_wichuraiana Rw6G028520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 243, 1463
AarI CACCTGC 1 cut(s) 293
Acc36I ACCTGC 2 cut(s) 24, 293
AccI GTMKAC 1 cut(s) 932
AccII CGCG 1 cut(s) 146
AccIII TCCGGA 1 cut(s) 706
AciI CCGC 8 cut(s) 33, 40, 53, 87, 146, 149, 190, 458
AclWI GGATC 5 cut(s) 384, 1019, 1229, 1242, 1478
AcsI RAATTY 1 cut(s) 1479
AcuI CTGAAG 1 cut(s) 588
AfaI GTAC 4 cut(s) 743, 1138, 1345, 1390
AfiI CCNNNNNNNGG 1 cut(s) 49
AflIII ACRYGT 1 cut(s) 935
AhlI ACTAGT 1 cut(s) 1309
AjnI CCWGG 1 cut(s) 123
Alw21I GWGCWC 1 cut(s) 65
Alw26I GTCTC 7 cut(s) 90, 106, 390, 440, 1039, 1343, 1442
AlwI GGATC 5 cut(s) 384, 1019, 1229, 1242, 1478
Aor13HI TCCGGA 1 cut(s) 706
AoxI GGCC 1 cut(s) 121
ApeKI GCWGC 4 cut(s) 141, 770, 773, 1052
ApoI RAATTY 1 cut(s) 1479
Asp700I GAANNNNTTC 1 cut(s) 368
AspA2I CCTAGG 1 cut(s) 1028
AspLEI GCGC 1 cut(s) 146
AspS9I GGNCC 1 cut(s) 121
AsuHPI GGTGA 3 cut(s) 317, 727, 1114
AvrII CCTAGG 1 cut(s) 1028
BamHI GGATCC 1 cut(s) 1234
BarI GAAGNNNNNNTAC 2 cut(s) 931, 963
Bbv12I GWGCWC 1 cut(s) 65
BbvCI CCTCAGC 1 cut(s) 839
BbvI GCAGC 4 cut(s) 153, 782, 785, 1064
BccI CCATC 3 cut(s) 35, 539, 784
BceAI ACGGC 3 cut(s) 20, 27, 415
BcgI CGANNNNNNTGC 2 cut(s) 1171, 1205
BciT130I CCWGG 1 cut(s) 125
BcoDI GTCTC 7 cut(s) 90, 106, 390, 440, 1039, 1343, 1442
BcuI ACTAGT 1 cut(s) 1309
BfaI CTAG 4 cut(s) 1029, 1193, 1310, 1500
BfmI CTRYAG 2 cut(s) 156, 1096
BfuAI ACCTGC 2 cut(s) 24, 293
BisI GCNGC 6 cut(s) 33, 142, 147, 771, 774, 1053
BlnI CCTAGG 1 cut(s) 1028
BlsI GCNGC 6 cut(s) 34, 143, 148, 772, 775, 1054
BmcAI AGTACT 2 cut(s) 1138, 1345
Bme1390I CCNGG 1 cut(s) 125
BmgT120I GGNCC 1 cut(s) 121
BmiI GGNNCC 1 cut(s) 1236
BmrFI CCNGG 1 cut(s) 125
BmrI ACTGGG 1 cut(s) 721
BmsI GCATC 5 cut(s) 812, 823, 913, 1098, 1128
BmuI ACTGGG 1 cut(s) 721
BplI GAGNNNNNCTC 2 cut(s) 1439, 1471
Bpu10I CCTNAGC 2 cut(s) 384, 839
BpuEI CTTGAG 3 cut(s) 275, 947, 1365
BsaAI YACGTR 1 cut(s) 1155
BsaI GGTCTC 1 cut(s) 1039
BsaJI CCNNGG 1 cut(s) 1028
BsaWI WCCGGW 3 cut(s) 65, 601, 706
BsaXI ACNNNNNCTCC 2 cut(s) 171, 201
Bsc4I CCNNNNNNNGG 1 cut(s) 49
Bse1I ACTGG 2 cut(s) 303, 716
BseAI TCCGGA 1 cut(s) 706
BseBI CCWGG 1 cut(s) 125
BseDI CCNNGG 1 cut(s) 1028
BseGI GGATG 4 cut(s) 276, 610, 1084, 1422
BseLI CCNNNNNNNGG 1 cut(s) 49
BseMII CTCAG 6 cut(s) 375, 853, 918, 972, 987, 1338
BseNI ACTGG 2 cut(s) 303, 716
BseRI GAGGAG 1 cut(s) 827
BseXI GCAGC 4 cut(s) 153, 782, 785, 1064
BseYI CCCAGC 1 cut(s) 103
BsgI GTGCAG 1 cut(s) 684
Bsh1236I CGCG 1 cut(s) 146
BshFI GGCC 1 cut(s) 123
BsiHKAI GWGCWC 1 cut(s) 65
BsiSI CCGG 4 cut(s) 66, 235, 602, 707
BslFI GGGAC 2 cut(s) 875, 1030
BslI CCNNNNNNNGG 1 cut(s) 49
BsmAI GTCTC 7 cut(s) 90, 106, 390, 440, 1039, 1343, 1442
BsmBI CGTCTC 1 cut(s) 390
BsmFI GGGAC 2 cut(s) 875, 1030
BsmI GAATGC 1 cut(s) 1333
BsnI GGCC 1 cut(s) 123
Bso31I GGTCTC 1 cut(s) 1039
Bsp1286I GDGCHC 1 cut(s) 65
Bsp13I TCCGGA 1 cut(s) 706
Bsp1407I TGTACA 1 cut(s) 741
Bsp143I GATC 4 cut(s) 376, 1024, 1234, 1470
BspACI CCGC 8 cut(s) 33, 40, 53, 87, 146, 149, 190, 458
BspANI GGCC 1 cut(s) 123
BspCNI CTCAG 6 cut(s) 376, 852, 919, 973, 988, 1339
BspEI TCCGGA 1 cut(s) 706
BspFNI CGCG 1 cut(s) 146
BspHI TCATGA 1 cut(s) 1021
BspLI GGNNCC 1 cut(s) 1236
BspMI ACCTGC 2 cut(s) 24, 293
BspPI GGATC 5 cut(s) 384, 1019, 1229, 1242, 1478
BspQI GCTCTTC 1 cut(s) 423
BspTNI GGTCTC 1 cut(s) 1039
BsrGI TGTACA 1 cut(s) 741
BsrI ACTGG 2 cut(s) 303, 716
BssECI CCNNGG 1 cut(s) 1028
BssMI GATC 4 cut(s) 376, 1024, 1234, 1470
BssNAI GTATAC 1 cut(s) 933
BssT1I CCWWGG 1 cut(s) 1028
Bst1107I GTATAC 1 cut(s) 933
Bst2UI CCWGG 1 cut(s) 125
Bst4CI ACNGT 3 cut(s) 187, 634, 1136
Bst6I CTCTTC 3 cut(s) 88, 423, 1290
BstAUI TGTACA 1 cut(s) 741
BstBAI YACGTR 1 cut(s) 1155
BstC8I GCNNGC 7 cut(s) 61, 249, 728, 845, 849, 1271, 1457
BstDEI CTNAG 7 cut(s) 8, 384, 839, 927, 981, 996, 1347
BstF5I GGATG 4 cut(s) 276, 610, 1084, 1422
BstFNI CGCG 1 cut(s) 146
BstHHI GCGC 1 cut(s) 146
BstKTI GATC 4 cut(s) 379, 1027, 1237, 1473
BstMAI GTCTC 7 cut(s) 90, 106, 390, 440, 1039, 1343, 1442
BstMBI GATC 4 cut(s) 376, 1024, 1234, 1470
BstMWI GCNNNNNNNGC 2 cut(s) 229, 244
BstNI CCWGG 1 cut(s) 125
BstNSI RCATGY 3 cut(s) 526, 851, 939
BstSCI CCNGG 1 cut(s) 123
BstSFI CTRYAG 2 cut(s) 156, 1096
BstUI CGCG 1 cut(s) 146
BstV1I GCAGC 4 cut(s) 153, 782, 785, 1064
BstX2I RGATCY 2 cut(s) 376, 1234
BstYI RGATCY 2 cut(s) 376, 1234
BstZ17I GTATAC 1 cut(s) 933
BsuRI GGCC 1 cut(s) 123
BtgZI GCGATG 1 cut(s) 13
BtsCI GGATG 4 cut(s) 276, 610, 1084, 1422
BtsI GCAGTG 1 cut(s) 1294
BtsIMutI CAGTG 2 cut(s) 192, 1294
BveI ACCTGC 2 cut(s) 24, 293
Cac8I GCNNGC 7 cut(s) 61, 249, 728, 845, 849, 1271, 1457
CciI TCATGA 1 cut(s) 1021
CfoI GCGC 1 cut(s) 146
Cfr13I GGNCC 1 cut(s) 121
Csp6I GTAC 4 cut(s) 742, 1137, 1344, 1389
CviAII CATG 6 cut(s) 523, 848, 903, 936, 1022, 1337
CviQI GTAC 4 cut(s) 742, 1137, 1344, 1389
DdeI CTNAG 7 cut(s) 8, 384, 839, 927, 981, 996, 1347
DpnI GATC 4 cut(s) 378, 1026, 1236, 1472
DpnII GATC 4 cut(s) 376, 1024, 1234, 1470
Eam1104I CTCTTC 3 cut(s) 88, 423, 1290
EarI CTCTTC 3 cut(s) 88, 423, 1290
EciI GGCGGA 1 cut(s) 29
Eco130I CCWWGG 1 cut(s) 1028
Eco31I GGTCTC 1 cut(s) 1039
Eco32I GATATC 1 cut(s) 289
Eco57I CTGAAG 1 cut(s) 588
EcoRII CCWGG 1 cut(s) 123
EcoRV GATATC 1 cut(s) 289
EcoT14I CCWWGG 1 cut(s) 1028
ErhI CCWWGG 1 cut(s) 1028
Esp3I CGTCTC 1 cut(s) 390
FaeI CATG 6 cut(s) 526, 851, 906, 939, 1025, 1340
FaqI GGGAC 2 cut(s) 875, 1030
FatI CATG 6 cut(s) 522, 847, 902, 935, 1021, 1336
FauNDI CATATG 1 cut(s) 430
FblI GTMKAC 1 cut(s) 932
Fnu4HI GCNGC 6 cut(s) 33, 142, 147, 771, 774, 1053
FokI GGATG 4 cut(s) 283, 617, 1091, 1429
Fsp4HI GCNGC 6 cut(s) 33, 142, 147, 771, 774, 1053
FspBI CTAG 4 cut(s) 1029, 1193, 1310, 1500
GlaI GCGC 1 cut(s) 145
GluI GCNGC 6 cut(s) 33, 142, 147, 771, 774, 1053
GsaI CCCAGC 1 cut(s) 107
HaeIII GGCC 1 cut(s) 123
HapII CCGG 4 cut(s) 66, 235, 602, 707
HhaI GCGC 1 cut(s) 146
Hin1II CATG 6 cut(s) 526, 851, 906, 939, 1025, 1340
Hin6I GCGC 1 cut(s) 144
HinP1I GCGC 1 cut(s) 144
HincII GTYRAC 1 cut(s) 630
HindII GTYRAC 1 cut(s) 630
HinfI GANTC 7 cut(s) 80, 502, 562, 819, 1004, 1018, 1450
HpaI GTTAAC 1 cut(s) 630
HpaII CCGG 4 cut(s) 66, 235, 602, 707
HphI GGTGA 3 cut(s) 317, 727, 1114
Hpy166II GTNNAC 3 cut(s) 630, 755, 933
Hpy188I TCNGA 3 cut(s) 544, 810, 1326
Hpy188III TCNNGA 9 cut(s) 218, 254, 436, 496, 566, 680, 707, 1022, 1238
Hpy8I GTNNAC 3 cut(s) 630, 755, 933
Hpy99I CGWCG 1 cut(s) 76
HpyCH4III ACNGT 3 cut(s) 187, 634, 1136
HpyCH4IV ACGT 1 cut(s) 1154
HpyF10VI GCNNNNNNNGC 2 cut(s) 229, 244
HpyF3I CTNAG 7 cut(s) 8, 384, 839, 927, 981, 996, 1347
HpySE526I ACGT 1 cut(s) 1154
Hsp92II CATG 6 cut(s) 526, 851, 906, 939, 1025, 1340
HspAI GCGC 1 cut(s) 144
Kpn2I TCCGGA 1 cut(s) 706
KspAI GTTAAC 1 cut(s) 630
Kzo9I GATC 4 cut(s) 376, 1024, 1234, 1470
LguI GCTCTTC 1 cut(s) 423
LmnI GCTCC 5 cut(s) 29, 68, 220, 237, 1144
Lsp1109I GCAGC 4 cut(s) 153, 782, 785, 1064
LweI GCATC 5 cut(s) 812, 823, 913, 1098, 1128
MaeI CTAG 4 cut(s) 1029, 1193, 1310, 1500
MaeII ACGT 1 cut(s) 1154
MaeIII GTNAC 4 cut(s) 151, 610, 715, 1130
MalI GATC 4 cut(s) 378, 1026, 1236, 1472
MboI GATC 4 cut(s) 376, 1024, 1234, 1470
MflI RGATCY 2 cut(s) 376, 1234
MhlI GDGCHC 1 cut(s) 65
MluCI AATT 8 cut(s) 210, 551, 573, 683, 1044, 1357, 1436, 1479
MlyI GAGTC 4 cut(s) 828, 1012, 1013, 1444
MmeI TCCRAC 1 cut(s) 303
MnlI CCTC 8 cut(s) 166, 173, 367, 454, 848, 1273, 1291, 1297
MroI TCCGGA 1 cut(s) 706
MroXI GAANNNNTTC 1 cut(s) 368
MseI TTAA 4 cut(s) 204, 629, 1203, 1513
MslI CAYNNNNRTG 1 cut(s) 429
MspI CCGG 4 cut(s) 66, 235, 602, 707
MspR9I CCNGG 1 cut(s) 125
Mva1269I GAATGC 1 cut(s) 1333
MvaI CCWGG 1 cut(s) 125
MvnI CGCG 1 cut(s) 146
MwoI GCNNNNNNNGC 2 cut(s) 229, 244
NdeI CATATG 1 cut(s) 430
NdeII GATC 4 cut(s) 376, 1024, 1234, 1470
NlaIII CATG 6 cut(s) 526, 851, 906, 939, 1025, 1340
NlaIV GGNNCC 1 cut(s) 1236
NmeAIII GCCGAG 1 cut(s) 29
NmuCI GTSAC 2 cut(s) 610, 715
NspI RCATGY 3 cut(s) 526, 851, 939
PaeI GCATGC 1 cut(s) 851
PagI TCATGA 1 cut(s) 1021
PaqCI CACCTGC 1 cut(s) 293
PciI ACATGT 1 cut(s) 935
PciSI GCTCTTC 1 cut(s) 423
PcsI WCGNNNNNNNCGW 3 cut(s) 56, 223, 814
PctI GAATGC 1 cut(s) 1333
PdmI GAANNNNTTC 1 cut(s) 368
PfeI GAWTC 3 cut(s) 80, 502, 562
PkrI GCNGC 6 cut(s) 34, 143, 148, 772, 775, 1054
PleI GAGTC 4 cut(s) 827, 1012, 1012, 1444
PpsI GAGTC 4 cut(s) 827, 1012, 1012, 1444
Ppu21I YACGTR 1 cut(s) 1155
PscI ACATGT 1 cut(s) 935
PsiI TTATAA 2 cut(s) 243, 1463
Psp6I CCWGG 1 cut(s) 123
PspFI CCCAGC 1 cut(s) 103
PspGI CCWGG 1 cut(s) 123
PspN4I GGNNCC 1 cut(s) 1236
PspPI GGNCC 1 cut(s) 121
PsuI RGATCY 2 cut(s) 376, 1234
RsaI GTAC 4 cut(s) 743, 1138, 1345, 1390
RsaNI GTAC 4 cut(s) 742, 1137, 1344, 1389
RseI CAYNNNNRTG 1 cut(s) 429
SapI GCTCTTC 1 cut(s) 423
SaqAI TTAA 4 cut(s) 204, 629, 1203, 1513
SatI GCNGC 6 cut(s) 33, 142, 147, 771, 774, 1053
Sau3AI GATC 4 cut(s) 376, 1024, 1234, 1470
Sau96I GGNCC 1 cut(s) 121
ScaI AGTACT 2 cut(s) 1138, 1345
SchI GAGTC 4 cut(s) 828, 1012, 1013, 1444
ScrFI CCNGG 1 cut(s) 125
SduI GDGCHC 1 cut(s) 65
SfaNI GCATC 5 cut(s) 812, 823, 913, 1098, 1128
SfcI CTRYAG 2 cut(s) 156, 1096
SmiMI CAYNNNNRTG 1 cut(s) 429
SmlI CTYRAG 3 cut(s) 254, 962, 1380
SmoI CTYRAG 3 cut(s) 254, 962, 1380
SpeI ACTAGT 1 cut(s) 1309
SphI GCATGC 1 cut(s) 851
Sse9I AATT 8 cut(s) 210, 551, 573, 683, 1044, 1357, 1436, 1479
SsiI CCGC 8 cut(s) 33, 40, 53, 87, 146, 149, 190, 458
SspMI CTAG 4 cut(s) 1029, 1193, 1310, 1500
StyD4I CCNGG 1 cut(s) 123
StyI CCWWGG 1 cut(s) 1028
TaaI ACNGT 3 cut(s) 187, 634, 1136
TaiI ACGT 1 cut(s) 1157
TaqI TCGA 3 cut(s) 208, 372, 817
TasI AATT 8 cut(s) 210, 551, 573, 683, 1044, 1357, 1436, 1479
TatI WGTACW 3 cut(s) 741, 1136, 1343
TauI GCSGC 2 cut(s) 35, 149
TfiI GAWTC 3 cut(s) 80, 502, 562
Tru1I TTAA 4 cut(s) 204, 629, 1203, 1513
Tru9I TTAA 4 cut(s) 204, 629, 1203, 1513
TscAI CASTG 2 cut(s) 192, 1294
TseFI GTSAC 2 cut(s) 610, 715
TseI GCWGC 4 cut(s) 141, 770, 773, 1052
Tsp45I GTSAC 2 cut(s) 610, 715
TspDTI ATGAA 8 cut(s) 365, 494, 581, 599, 819, 932, 939, 1433
TspGWI ACGGA 1 cut(s) 1429
TspRI CASTG 2 cut(s) 192, 1294
XapI RAATTY 1 cut(s) 1479
XceI RCATGY 3 cut(s) 526, 851, 939
XmaJI CCTAGG 1 cut(s) 1028
XmiI GTMKAC 1 cut(s) 932
XmnI GAANNNNTTC 1 cut(s) 368
XspI CTAG 4 cut(s) 1029, 1193, 1310, 1500
ZrmI AGTACT 2 cut(s) 1138, 1345
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.