RchiOBHm_Chr3g0467611

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0016022
Physical Location & Seq
Forward (+)
13727361 .. 13729398
2038 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1515 bp
ATGAAACCCATATTGTGCAGATTGAGAGAGATACAAAGGACAGTTAACACTTCAGCTTGTGCCCTTCTTACTGAAACCCAGAAAGCTAATGCCTATCTTCCTAGACGTTTAAAGACCTCAGAGACATTCTTGACTGCCCACCAAGTGTTCGACGAAACGCCTGACTTAAACGTGGTCTCGGCCACTACAATAATAGGCAGCTTTGCTCGGCAGCACCATCATGAAACAGCTGTGTATCTCTTTTCAAGAATGCTTGTTTTGAATATTCGACCCAATGAGTACACATTTGGCACTGTCATTCACTCCTCGACCGCGCTTGGAGATTTGAATATAGGCAAGCAACTTCATGCATGTGCAACAAAGATGGGTCTGCATTCAAATGTCTTTGTGGGGAGTGCAGTTTTGGATCTTTATGCTAAGTTGAGCATAATCCAGGATGCTCGAAGAGCTTTCGAAGAAACCCAGAAGCCGAATGTGGTTTCCTACACTACATTGATATGTGCTTACCTGAAAAAGGAGATGCTTGAAGATGCTCTCGAGCTTTTCCGAGTGATGCCAGAGAGGAATGTAGTTTCATGGAATGCAATGATTGGAGGGTATAGCCAAACAGGCCACAATGAAGAGGCTGTGAATCTTTTCATTGAGATGCTTCGAAATGGGTTGGTGCCGAGTCAGTCTACTTTTCCTTGTGCTATAATTGCAGCTGCCAATATAGCAGCACTAGGAATTGGGAGAAGCTTTCATGCCTGTGCTGTCAAGGCTTTGGGTAAGTTTGATGTGTTTATTAGCAATTCTCTAATAAGCTTTTATGCAAAATGTGGGAGCATGGAAGATAGTCTCTTGGTTTTCGATAAGCTCAGGGGAAGAAACATTGTTTCTTGGAATGCTTTGATTTGTGGGTATGCTCAAAATGGTAAAGGAGAGGAAGCGATAAGTTTTTTCGAAAAGATGAGGGTCTCAGATTGTAAACCCAACAGTGTTACAGTTCTGGGGTTATTGTGGGCTTGTAATCATGCTGGTCTTGTTGACAAGGGTTACTCCTATTTTAACCAGGCAAGAATGGAGGACGCAGGCATTCTAAAGCCCGAGCATTATGCTTGTATGGTTGATTTGCTCTCGCGCTCAGGGTGTTTCAGACAAGCTGAGGAGTTTATTAGTGATTTGCCTTTTGAACCAGGTATTGGGTTTTGGAAGGCATTGCTTGGTGGCTGCCAAATCCACTCAAATATGGAATTGGGGGAGTTTGCTGCAAGAAGAATCTTGGCTTTGGATCCTGGAGATGTGTCATCTTATGTTATGGTGTCTAATGCACATTCTGCAGCTGGAAGGTGGCAGAGTGTGTCAACAGTAAGGAGAGAAATGAAAGACAAAGGGATGAAGAGGATTCCAGGTTGCAGTTGGATAGAAATCAGAAGCAAAGTTCATGTATTTACCACCGGCGACAAGAACCATGACCAAATGAATGAAATTTATACTGTGTTAGAAATTCTGTATAGAGCATTTGAGGGAGAATAA

Protein Analysis

504

Amino Acids

56.12

Weight (kDa)

7.56

Isoelectric Point (pI)

47.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 57 - 101 2.4e-08 PPR repeat family
PPR_1 PF12854 156 - 185 6.5e-07 PPR repeat
PPR_2 PF13041 157 - 190 3.3e-08 PPR repeat family
PPR PF01535 160 - 190 6.9e-07 PPR repeat
PPR_2 PF13041 188 - 229 3.4e-11 PPR repeat family
PPR PF01535 191 - 221 1.4e-08 PPR repeat
PPR_2 PF13041 289 - 333 1.2e-12 PPR repeat family
PPR PF01535 292 - 322 3.2e-09 PPR repeat
E_motif PF20431 407 - 469 2.9e-22 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016022)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42450 AT5G42450
fragaria_vesca FvH4_6g14440 FvH4_6g14560
malus_domestica MD12G1136500.v1.1
prunus_persica Prupe.6G248900_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0467611
rosa_laevigata RLG00000024485
rosa_multiflora Rmu_sc0011632.1_g000010
rosa_roxburghii Rroxscaffold_6G00413550
rosa_rugosa Rorug03G0088500
rosa_samantha Rh3AG136800 Rh3BG158600 Rh3DG159100
rosa_wichuraiana Rw3G012960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 664
AccB7I CCANNNNNTGG 1 cut(s) 1181
AccI GTMKAC 1 cut(s) 677
AccII CGCG 2 cut(s) 314, 1120
AciI CCGC 1 cut(s) 312
AclWI GGATC 3 cut(s) 414, 1265, 1278
AcoI YGGCCR 1 cut(s) 180
AcsI RAATTY 2 cut(s) 1467, 1485
AcuI CTGAAG 1 cut(s) 36
AdeI CACNNNGTG 1 cut(s) 145
AfaI GTAC 1 cut(s) 281
AfiI CCNNNNNNNGG 2 cut(s) 514, 1181
AgsI TTSAA 6 cut(s) 246, 262, 328, 378, 527, 1172
AjnI CCWGG 5 cut(s) 432, 1050, 1174, 1273, 1387
AjuI GAANNNNNNNTTGG 2 cut(s) 1164, 1196
Alw26I GTCTC 4 cut(s) 116, 181, 842, 961
AlwI GGATC 3 cut(s) 414, 1265, 1278
Ama87I CYCGRG 2 cut(s) 536, 1085
AoxI GGCC 2 cut(s) 180, 610
ApeKI GCWGC 8 cut(s) 198, 211, 701, 704, 716, 1209, 1247, 1319
ApoI RAATTY 2 cut(s) 1467, 1485
Asp700I GAANNNNTTC 1 cut(s) 635
AspLEI GCGC 2 cut(s) 316, 1122
AsuII TTCGAA 3 cut(s) 453, 652, 942
AvaI CYCGRG 2 cut(s) 536, 1085
BaeGI GKGCMC 1 cut(s) 64
BamHI GGATCC 1 cut(s) 1270
BanI GGYRCC 1 cut(s) 664
BbvCI CCTCAGC 1 cut(s) 1143
BbvI GCAGC 8 cut(s) 210, 223, 691, 713, 728, 1196, 1234, 1331
BccI CCATC 2 cut(s) 225, 358
BcgI CGANNNNNNTGC 2 cut(s) 1076, 1110
BciT130I CCWGG 5 cut(s) 434, 1052, 1176, 1275, 1389
BcoDI GTCTC 4 cut(s) 116, 181, 842, 961
BfaI CTAG 2 cut(s) 102, 722
BfmI CTRYAG 1 cut(s) 1317
BglI GCCNNNNNGGC 1 cut(s) 609
BisI GCNGC 8 cut(s) 199, 212, 702, 705, 717, 1210, 1248, 1320
BlsI GCNGC 8 cut(s) 200, 213, 703, 706, 718, 1211, 1249, 1321
Bme1390I CCNGG 5 cut(s) 434, 1052, 1176, 1275, 1389
BmeT110I CYCGRG 2 cut(s) 536, 1085
BmiI GGNNCC 2 cut(s) 666, 1272
BmrFI CCNGG 5 cut(s) 434, 1052, 1176, 1275, 1389
BmsI GCATC 5 cut(s) 427, 510, 520, 543, 636
BpmI CTGGAG 1 cut(s) 1296
Bpu10I CCTNAGC 3 cut(s) 857, 1123, 1143
Bpu14I TTCGAA 3 cut(s) 453, 652, 942
BsaBI GATNNNNATC 1 cut(s) 1406
BsaI GGTCTC 2 cut(s) 181, 961
Bsc4I CCNNNNNNNGG 2 cut(s) 514, 1181
Bse118I RCCGGY 1 cut(s) 1436
Bse3DI GCAATG 2 cut(s) 591, 1196
Bse8I GATNNNNATC 1 cut(s) 1406
BseBI CCWGG 5 cut(s) 434, 1052, 1176, 1275, 1389
BseGI GGATG 2 cut(s) 442, 1380
BseJI GATNNNNATC 1 cut(s) 1406
BseLI CCNNNNNNNGG 2 cut(s) 514, 1181
BseMI GCAATG 2 cut(s) 591, 1196
BseMII CTCAG 5 cut(s) 132, 871, 972, 1134, 1137
BseRI GAGGAG 2 cut(s) 295, 1160
BseSI GKGCMC 1 cut(s) 64
BseXI GCAGC 8 cut(s) 210, 223, 691, 713, 728, 1196, 1234, 1331
BsgI GTGCAG 2 cut(s) 37, 417
Bsh1236I CGCG 2 cut(s) 314, 1120
Bsh1285I CGRYCG 1 cut(s) 312
BshFI GGCC 2 cut(s) 182, 612
BshNI GGYRCC 1 cut(s) 664
BsiEI CGRYCG 1 cut(s) 312
BsiHKCI CYCGRG 2 cut(s) 536, 1085
BsiSI CCGG 1 cut(s) 1437
BslI CCNNNNNNNGG 2 cut(s) 514, 1181
BsmAI GTCTC 4 cut(s) 116, 181, 842, 961
BsmI GAATGC 5 cut(s) 255, 373, 586, 889, 1074
BsnI GGCC 2 cut(s) 182, 612
Bso31I GGTCTC 2 cut(s) 181, 961
BsoBI CYCGRG 2 cut(s) 536, 1085
Bsp119I TTCGAA 3 cut(s) 453, 652, 942
Bsp1286I GDGCHC 1 cut(s) 64
Bsp143I GATC 2 cut(s) 406, 1270
BspACI CCGC 1 cut(s) 312
BspANI GGCC 2 cut(s) 182, 612
BspCNI CTCAG 5 cut(s) 131, 870, 971, 1135, 1136
BspFNI CGCG 2 cut(s) 314, 1120
BspHI TCATGA 1 cut(s) 220
BspLI GGNNCC 2 cut(s) 666, 1272
BspMAI CTGCAG 1 cut(s) 1321
BspPI GGATC 3 cut(s) 414, 1265, 1278
BspQI GCTCTTC 1 cut(s) 439
BspT104I TTCGAA 3 cut(s) 453, 652, 942
BspT107I GGYRCC 1 cut(s) 664
BspTNI GGTCTC 2 cut(s) 181, 961
BsrDI GCAATG 2 cut(s) 591, 1196
BsrFI RCCGGY 1 cut(s) 1436
BssAI RCCGGY 1 cut(s) 1436
BssMI GATC 2 cut(s) 406, 1270
Bst2UI CCWGG 5 cut(s) 434, 1052, 1176, 1275, 1389
Bst4CI ACNGT 6 cut(s) 43, 295, 977, 985, 1348, 1477
Bst6I CTCTTC 3 cut(s) 439, 615, 1373
BstAPI GCANNNNNTGC 1 cut(s) 1316
BstBI TTCGAA 3 cut(s) 453, 652, 942
BstC8I GCNNGC 2 cut(s) 338, 1072
BstDEI CTNAG 6 cut(s) 118, 417, 857, 958, 1123, 1143
BstENI CCTNNNNNAGG 1 cut(s) 512
BstF5I GGATG 2 cut(s) 442, 1380
BstFNI CGCG 2 cut(s) 314, 1120
BstHHI GCGC 2 cut(s) 316, 1122
BstKTI GATC 2 cut(s) 409, 1273
BstMAI GTCTC 4 cut(s) 116, 181, 842, 961
BstMBI GATC 2 cut(s) 406, 1270
BstMCI CGRYCG 1 cut(s) 312
BstMWI GCNNNNNNNGC 6 cut(s) 446, 609, 698, 713, 758, 1316
BstNI CCWGG 5 cut(s) 434, 1052, 1176, 1275, 1389
BstNSI RCATGY 1 cut(s) 354
BstSCI CCNGG 5 cut(s) 432, 1050, 1174, 1273, 1387
BstSFI CTRYAG 1 cut(s) 1317
BstSLI GKGCMC 1 cut(s) 64
BstUI CGCG 2 cut(s) 314, 1120
BstV1I GCAGC 8 cut(s) 210, 223, 691, 713, 728, 1196, 1234, 1331
BstX2I RGATCY 2 cut(s) 406, 1270
BstYI RGATCY 2 cut(s) 406, 1270
BsuRI GGCC 2 cut(s) 182, 612
BtsCI GGATG 2 cut(s) 442, 1380
BtsIMutI CAGTG 2 cut(s) 291, 982
Cac8I GCNNGC 2 cut(s) 338, 1072
CciI TCATGA 1 cut(s) 220
CfoI GCGC 2 cut(s) 316, 1122
Cfr10I RCCGGY 1 cut(s) 1436
CseI GACGC 1 cut(s) 1076
CsiI ACCWGGT 1 cut(s) 1174
Csp6I GTAC 1 cut(s) 280
CviAII CATG 9 cut(s) 221, 347, 351, 576, 743, 826, 1013, 1424, 1451
CviQI GTAC 1 cut(s) 280
DdeI CTNAG 6 cut(s) 118, 417, 857, 958, 1123, 1143
DpnI GATC 2 cut(s) 408, 1272
DpnII GATC 2 cut(s) 406, 1270
DraI TTTAAA 1 cut(s) 111
DraIII CACNNNGTG 1 cut(s) 145
EaeI YGGCCR 1 cut(s) 180
Eam1104I CTCTTC 3 cut(s) 439, 615, 1373
EarI CTCTTC 3 cut(s) 439, 615, 1373
Eco31I GGTCTC 2 cut(s) 181, 961
Eco57I CTGAAG 1 cut(s) 36
Eco88I CYCGRG 2 cut(s) 536, 1085
EcoNI CCTNNNNNAGG 1 cut(s) 512
EcoRII CCWGG 5 cut(s) 432, 1050, 1174, 1273, 1387
EcoT22I ATGCAT 1 cut(s) 352
FaeI CATG 9 cut(s) 224, 350, 354, 579, 746, 829, 1016, 1427, 1454
FatI CATG 9 cut(s) 220, 346, 350, 575, 742, 825, 1012, 1423, 1450
FblI GTMKAC 1 cut(s) 677
Fnu4HI GCNGC 8 cut(s) 199, 212, 702, 705, 717, 1210, 1248, 1320
FokI GGATG 2 cut(s) 449, 1387
Fsp4HI GCNGC 8 cut(s) 199, 212, 702, 705, 717, 1210, 1248, 1320
FspBI CTAG 2 cut(s) 102, 722
GlaI GCGC 2 cut(s) 315, 1121
GluI GCNGC 8 cut(s) 199, 212, 702, 705, 717, 1210, 1248, 1320
GsuI CTGGAG 1 cut(s) 1296
HaeIII GGCC 2 cut(s) 182, 612
HapII CCGG 1 cut(s) 1437
HgaI GACGC 1 cut(s) 1076
HhaI GCGC 2 cut(s) 316, 1122
Hin1II CATG 9 cut(s) 224, 350, 354, 579, 746, 829, 1016, 1427, 1454
Hin6I GCGC 2 cut(s) 314, 1120
HinP1I GCGC 2 cut(s) 314, 1120
HincII GTYRAC 3 cut(s) 46, 1027, 1344
HindII GTYRAC 3 cut(s) 46, 1027, 1344
HindIII AAGCTT 2 cut(s) 736, 802
HinfI GANTC 4 cut(s) 631, 670, 1257, 1384
HpaI GTTAAC 1 cut(s) 46
HpaII CCGG 1 cut(s) 1437
Hpy166II GTNNAC 6 cut(s) 46, 282, 678, 968, 1027, 1344
Hpy188I TCNGA 5 cut(s) 121, 548, 961, 1136, 1412
Hpy188III TCNNGA 4 cut(s) 130, 221, 246, 536
Hpy8I GTNNAC 6 cut(s) 46, 282, 678, 968, 1027, 1344
Hpy99I CGWCG 1 cut(s) 155
HpyAV CCTTC 3 cut(s) 74, 1186, 1320
HpyCH4III ACNGT 6 cut(s) 43, 295, 977, 985, 1348, 1477
HpyCH4IV ACGT 2 cut(s) 106, 171
HpyF10VI GCNNNNNNNGC 6 cut(s) 446, 609, 698, 713, 758, 1316
HpyF3I CTNAG 6 cut(s) 118, 417, 857, 958, 1123, 1143
HpySE526I ACGT 2 cut(s) 106, 171
Hsp92II CATG 9 cut(s) 224, 350, 354, 579, 746, 829, 1016, 1427, 1454
HspAI GCGC 2 cut(s) 314, 1120
KspAI GTTAAC 1 cut(s) 46
Kzo9I GATC 2 cut(s) 406, 1270
LguI GCTCTTC 1 cut(s) 439
LmnI GCTCC 1 cut(s) 822
Lsp1109I GCAGC 8 cut(s) 210, 223, 691, 713, 728, 1196, 1234, 1331
LweI GCATC 5 cut(s) 427, 510, 520, 543, 636
MabI ACCWGGT 1 cut(s) 1174
MaeI CTAG 2 cut(s) 102, 722
MaeII ACGT 2 cut(s) 106, 171
MaeIII GTNAC 2 cut(s) 979, 1034
MalI GATC 2 cut(s) 408, 1272
MboI GATC 2 cut(s) 406, 1270
MboII GAAGA 9 cut(s) 89, 456, 467, 539, 632, 842, 876, 1266, 1390
MflI RGATCY 2 cut(s) 406, 1270
MhlI GDGCHC 1 cut(s) 64
MluCI AATT 6 cut(s) 696, 726, 790, 1232, 1467, 1485
MlyI GAGTC 1 cut(s) 679
MmeI TCCRAC 1 cut(s) 1379
Mph1103I ATGCAT 1 cut(s) 352
MroXI GAANNNNTTC 1 cut(s) 635
MseI TTAA 4 cut(s) 45, 110, 167, 1047
MslI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
MspA1I CMGCKG 3 cut(s) 230, 704, 1322
MspI CCGG 1 cut(s) 1437
MspR9I CCNGG 5 cut(s) 434, 1052, 1176, 1275, 1389
Mva1269I GAATGC 5 cut(s) 255, 373, 586, 889, 1074
MvaI CCWGG 5 cut(s) 434, 1052, 1176, 1275, 1389
MvnI CGCG 2 cut(s) 314, 1120
MwoI GCNNNNNNNGC 6 cut(s) 446, 609, 698, 713, 758, 1316
NdeII GATC 2 cut(s) 406, 1270
NlaIII CATG 9 cut(s) 224, 350, 354, 579, 746, 829, 1016, 1427, 1454
NlaIV GGNNCC 2 cut(s) 666, 1272
NmeAIII GCCGAG 3 cut(s) 158, 187, 693
NsiI ATGCAT 1 cut(s) 352
NspI RCATGY 1 cut(s) 354
NspV TTCGAA 3 cut(s) 453, 652, 942
PaeR7I CTCGAG 1 cut(s) 536
PagI TCATGA 1 cut(s) 220
PciSI GCTCTTC 1 cut(s) 439
PctI GAATGC 5 cut(s) 255, 373, 586, 889, 1074
PdmI GAANNNNTTC 1 cut(s) 635
PfeI GAWTC 3 cut(s) 631, 1257, 1384
PflMI CCANNNNNTGG 1 cut(s) 1181
PfoI TCCNGGA 2 cut(s) 432, 1273
PkrI GCNGC 8 cut(s) 200, 213, 703, 706, 718, 1211, 1249, 1321
PleI GAGTC 1 cut(s) 678
PpsI GAGTC 1 cut(s) 678
Psp6I CCWGG 5 cut(s) 432, 1050, 1174, 1273, 1387
PspGI CCWGG 5 cut(s) 432, 1050, 1174, 1273, 1387
PspN4I GGNNCC 2 cut(s) 666, 1272
PstI CTGCAG 1 cut(s) 1321
PsuI RGATCY 2 cut(s) 406, 1270
PvuII CAGCTG 3 cut(s) 230, 704, 1322
RsaI GTAC 1 cut(s) 281
RsaNI GTAC 1 cut(s) 280
RseI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
SapI GCTCTTC 1 cut(s) 439
SaqAI TTAA 4 cut(s) 45, 110, 167, 1047
SatI GCNGC 8 cut(s) 199, 212, 702, 705, 717, 1210, 1248, 1320
Sau3AI GATC 2 cut(s) 406, 1270
SchI GAGTC 1 cut(s) 679
ScrFI CCNGG 5 cut(s) 434, 1052, 1176, 1275, 1389
SduI GDGCHC 1 cut(s) 64
SexAI ACCWGGT 1 cut(s) 1174
SfaNI GCATC 5 cut(s) 427, 510, 520, 543, 636
SfcI CTRYAG 1 cut(s) 1317
Sfr274I CTCGAG 1 cut(s) 536
SfuI TTCGAA 3 cut(s) 453, 652, 942
SgrAI CRCCGGYG 1 cut(s) 1436
SlaI CTCGAG 1 cut(s) 536
SmiMI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
SmlI CTYRAG 1 cut(s) 536
SmoI CTYRAG 1 cut(s) 536
Sse9I AATT 6 cut(s) 696, 726, 790, 1232, 1467, 1485
SsiI CCGC 1 cut(s) 312
SspI AATATT 1 cut(s) 265
SspMI CTAG 2 cut(s) 102, 722
StyD4I CCNGG 5 cut(s) 432, 1050, 1174, 1273, 1387
TaaI ACNGT 6 cut(s) 43, 295, 977, 985, 1348, 1477
TaiI ACGT 2 cut(s) 109, 174
TaqI TCGA 9 cut(s) 150, 268, 308, 442, 453, 537, 652, 849, 942
TasI AATT 6 cut(s) 696, 726, 790, 1232, 1467, 1485
TatI WGTACW 1 cut(s) 279
TfiI GAWTC 3 cut(s) 631, 1257, 1384
Tru1I TTAA 4 cut(s) 45, 110, 167, 1047
Tru9I TTAA 4 cut(s) 45, 110, 167, 1047
TscAI CASTG 2 cut(s) 298, 982
TseI GCWGC 8 cut(s) 198, 211, 701, 704, 716, 1209, 1247, 1319
TspRI CASTG 2 cut(s) 298, 982
Van91I CCANNNNNTGG 1 cut(s) 1181
XagI CCTNNNNNAGG 1 cut(s) 512
XapI RAATTY 2 cut(s) 1467, 1485
XceI RCATGY 1 cut(s) 354
XcmI CCANNNNNNNNNTGG 1 cut(s) 1395
XhoI CTCGAG 1 cut(s) 536
XmiI GTMKAC 1 cut(s) 677
XmnI GAANNNNTTC 1 cut(s) 635
XspI CTAG 2 cut(s) 102, 722
Zsp2I ATGCAT 1 cut(s) 352
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.