Rh4BG345300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0016702
Physical Location & Seq
Reverse (-)
50827038 .. 50828654
1617 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG345300.1

Sequence Viewer

Length: 1413 bp
ATGGGTTATGCCCACCAGGTGTTCGATCAAATTCCTGAACCAAATTTTGCTCTATGGAATGCATTGTTGAGAGGGTATGCAAAGAATGAGAGTCATAGGGAGGTTGTAGCTTTGTTTGGAAGGATGAAGAGCATGGACATAATGCCAAATTGCTATACATTCCCCGTTGTGATTAAATGTTGTGGGAGATTGAGTAGGTTGGTAGAAGGTGAAGAGGTGCATTGTGTTGTGATAAAATGTGGGTTTAGAGCAAACCCCTTTGTGGGAACGACGCTGATCGAAATGTATGCGGCTGGGGGAGTAATTGGAGCTGCTTATAAGGTGTTTGGTGAGATGTTTGAGAGAAATGTGGTTGCTTGGACTTCCATGATTAATGGCTACATTTTGGGTGGTGATATGGTTTCTGCACAGTGCCTTTTTGACTTGGCGCCAGAACGAGATGTTGTGTTGTGGAACACTATGGTTTCTGGTTATATTGAGCAGGGGGATATGGTAACGGCTAGAAAACTTTTTGATAAGATGCCGAGAAGAGATGTTATTTGCTGGAATACGGTATTGAATGGCTATGCAAGTAATCAAGACATTGAGGCTTGTGAGGATTTGTTTGAGAAGATGCCTGAGAGGAACGTTTTCTCGTGGAATGGATTGATTGGCGGGTATGCACGCAATGGACGTTTCATTGAAGTTCTGGAATCTTTCAAGCGGATGCTTACTGAGGGTAATGTGCTTCCTAACGATCCCACATTAACAACTGTGCTGTCAGCATGTGCGAGATTAGGAGCTCTTGATTTGGGTAAGTGGGTGCATATGAAGACTTCTGGATTGAAACCAGATGGGATCACCTTCATAGGCATTCTGTGCTCTTGTACACATCTAGGATTAGTCGAAGATGGCCTGTTGTATTTCCAATCAATGGTTAGTGACTATTCAATTGTGCCTCAAATTGAGCATTATGGTTGTATGGTTGATCTGTTTGGACGAGCCGGTCTTTTGGAACAGGCTGTGGAGTTTGTGAGGCAGATGCCAATAGAGGCAGATGTTGTCATTTGGGCTGCCTTACTTGGAGCATGTCGAACTCACAAGAACATTGAGTTGGCTGAGTTGGCTCTTGAACGGCTCATTGAACTTGAACCAAAAAACCCTGCCAATTATGTCATGCTTTCGAATATATATGGTGATCTTGGGAGATGGAAAGATGTGGCAAGATTAAAAGTTGCAATCAGGGATACCGGGTTCAAAAAATTCCCCGGTATTAGCTCTATTGAGGCCAATCATGGTGTGGTTGAATTTTGTTCCTTGGATAAGAGGCATCCTGAGACCGAGGAAATATATGAAGCCTTGAAGGGATTGACCAGTGCGCTAAGATCATCTGGATATGTACCAGACATTCTGGAGCTTGGGCATGGAGACTAG
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

470

Amino Acids

52.43

Weight (kDa)

5.37

Isoelectric Point (pI)

48.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 14 - 62 1.3e-09 PPR repeat family
PPR_2 PF13041 146 - 178 5.1e-07 PPR repeat family
PPR PF01535 149 - 178 6.5e-06 PPR repeat
PPR_2 PF13041 177 - 210 9.8e-07 PPR repeat family
PPR PF01535 181 - 210 6.9e-06 PPR repeat
PPR_2 PF13041 208 - 258 3.8e-07 PPR repeat family
PPR PF01535 211 - 240 2.3e-06 PPR repeat
E_motif PF20431 360 - 422 1e-22 E motif
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: OG0016702)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G13410
fragaria_vesca FvH4_4g27250 FvH4_4g27250 FvH4_4g27250
malus_domestica MD15G1390900.v1.1
prunus_persica Prupe.1G312300_v2.0.a1
pyrus_communis pycom15g35000
rosa_chinensis RchiOBHm_Chr4g0435031
rosa_laevigata RLG00000006626
rosa_multiflora Rmu_sc0000400.1_g000012
rosa_roxburghii Rroxscaffold_5G00376240
rosa_rugosa Rorug04G0281900
rosa_samantha Rh4BG345300
rosa_wichuraiana Rw4G029410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 318
AasI GACNNNNNNGTC 1 cut(s) 984
AccB1I GGYRCC 1 cut(s) 427
AccB7I CCANNNNNTGG 1 cut(s) 913
AciI CCGC 3 cut(s) 290, 654, 703
AclI AACGTT 1 cut(s) 627
AclWI GGATC 2 cut(s) 731, 845
AcsI RAATTY 4 cut(s) 30, 43, 1241, 1286
AcyI GRCGYC 1 cut(s) 428
AdeI CACNNNGTG 1 cut(s) 19
AfaI GTAC 2 cut(s) 868, 1380
AfiI CCNNNNNNNGG 3 cut(s) 262, 263, 913
AjnI CCWGG 1 cut(s) 15
AjuI GAANNNNNNNTTGG 2 cut(s) 1076, 1108
AloI GAACNNNNNNTCC 2 cut(s) 1217, 1249
AluBI AGCT 5 cut(s) 110, 311, 782, 1257, 1396
AluI AGCT 5 cut(s) 110, 311, 782, 1257, 1396
Alw21I GWGCWC 2 cut(s) 784, 863
Alw26I GTCTC 2 cut(s) 1310, 1401
AlwI GGATC 2 cut(s) 731, 845
AoxI GGCC 2 cut(s) 892, 1266
ApeKI GCWGC 2 cut(s) 311, 1052
ApoI RAATTY 4 cut(s) 30, 43, 1241, 1286
AseI ATTAAT 1 cut(s) 372
Asp700I GAANNNNTTC 1 cut(s) 629
AspLEI GCGC 2 cut(s) 430, 1360
AsuC2I CCSGG 2 cut(s) 1231, 1248
AsuHPI GGTGA 5 cut(s) 221, 341, 404, 832, 1187
AsuII TTCGAA 1 cut(s) 1163
BanI GGYRCC 1 cut(s) 427
BanII GRGCYC 1 cut(s) 784
BauI CACGAG 1 cut(s) 634
BbsI GAAGAC 1 cut(s) 818
Bbv12I GWGCWC 2 cut(s) 784, 863
BbvI GCAGC 2 cut(s) 298, 1039
BccI CCATC 3 cut(s) 827, 884, 1182
BceAI ACGGC 2 cut(s) 513, 1130
BcgI CGANNNNNNTGC 2 cut(s) 269, 303
BciT130I CCWGG 1 cut(s) 17
BciVI GTATCC 1 cut(s) 1219
BcnI CCSGG 2 cut(s) 1231, 1248
BcoDI GTCTC 2 cut(s) 1310, 1401
BfaI CTAG 3 cut(s) 501, 875, 1411
BfoI RGCGCY 1 cut(s) 431
BfuI GTATCC 1 cut(s) 1219
BisI GCNGC 3 cut(s) 291, 312, 1053
BlsI GCNGC 3 cut(s) 292, 313, 1054
Bme1390I CCNGG 3 cut(s) 17, 1231, 1248
BmiI GGNNCC 1 cut(s) 429
BmrFI CCNGG 3 cut(s) 17, 1231, 1248
BmsI GCATC 5 cut(s) 510, 603, 696, 1011, 1318
BpiI GAAGAC 1 cut(s) 818
BpmI CTGGAG 1 cut(s) 1412
Bpu14I TTCGAA 1 cut(s) 1163
BpuMI CCSGG 2 cut(s) 1231, 1248
BsaHI GRCGYC 1 cut(s) 428
BsaI GGTCTC 1 cut(s) 1310
BsaJI CCNNGG 3 cut(s) 1246, 1296, 1320
BsaXI ACNNNNNCTCC 2 cut(s) 178, 208
Bsc4I CCNNNNNNNGG 3 cut(s) 262, 263, 913
Bse118I RCCGGY 1 cut(s) 983
Bse1I ACTGG 1 cut(s) 1353
Bse3DI GCAATG 1 cut(s) 673
BseBI CCWGG 1 cut(s) 17
BseDI CCNNGG 3 cut(s) 1246, 1296, 1320
BseGI GGATG 3 cut(s) 129, 711, 1309
BseLI CCNNNNNNNGG 3 cut(s) 262, 263, 913
BseMI GCAATG 1 cut(s) 673
BseMII CTCAG 4 cut(s) 609, 705, 1089, 1305
BseNI ACTGG 1 cut(s) 1353
BseXI GCAGC 2 cut(s) 298, 1039
BseYI CCCAGC 1 cut(s) 293
BsgI GTGCAG 1 cut(s) 390
BshFI GGCC 2 cut(s) 894, 1268
BshNI GGYRCC 1 cut(s) 427
BsiHKAI GWGCWC 2 cut(s) 784, 863
BsiSI CCGG 3 cut(s) 984, 1230, 1248
BslI CCNNNNNNNGG 3 cut(s) 262, 263, 913
BsmAI GTCTC 2 cut(s) 1310, 1401
BsmI GAATGC 2 cut(s) 64, 852
BsnI GGCC 2 cut(s) 894, 1268
Bso31I GGTCTC 1 cut(s) 1310
Bsp119I TTCGAA 1 cut(s) 1163
Bsp1286I GDGCHC 2 cut(s) 784, 863
Bsp1407I TGTACA 1 cut(s) 866
Bsp143I GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
BspACI CCGC 3 cut(s) 290, 654, 703
BspANI GGCC 2 cut(s) 894, 1268
BspCNI CTCAG 4 cut(s) 610, 706, 1090, 1306
BspLI GGNNCC 1 cut(s) 429
BspPI GGATC 2 cut(s) 731, 845
BspQI GCTCTTC 1 cut(s) 122
BspT104I TTCGAA 1 cut(s) 1163
BspT107I GGYRCC 1 cut(s) 427
BspTNI GGTCTC 1 cut(s) 1310
BsrDI GCAATG 1 cut(s) 673
BsrFI RCCGGY 1 cut(s) 983
BsrGI TGTACA 1 cut(s) 866
BsrI ACTGG 1 cut(s) 1353
BssAI RCCGGY 1 cut(s) 983
BssECI CCNNGG 3 cut(s) 1246, 1296, 1320
BssMI GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
BssNI GRCGYC 1 cut(s) 428
BssSI CACGAG 1 cut(s) 634
BssT1I CCWWGG 1 cut(s) 1296
Bst2BI CACGAG 1 cut(s) 634
Bst2UI CCWGG 1 cut(s) 17
Bst4CI ACNGT 3 cut(s) 411, 553, 754
Bst6I CTCTTC 3 cut(s) 122, 207, 523
BstACI GRCGYC 1 cut(s) 428
BstAPI GCANNNNNTGC 1 cut(s) 858
BstAUI TGTACA 1 cut(s) 866
BstBI TTCGAA 1 cut(s) 1163
BstC8I GCNNGC 1 cut(s) 664
BstDEI CTNAG 5 cut(s) 618, 714, 1098, 1314, 1361
BstF5I GGATG 3 cut(s) 129, 711, 1309
BstH2I RGCGCY 1 cut(s) 431
BstHHI GCGC 2 cut(s) 430, 1360
BstKTI GATC 7 cut(s) 28, 279, 739, 840, 970, 1180, 1367
BstMAI GTCTC 2 cut(s) 1310, 1401
BstMBI GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
BstMWI GCNNNNNNNGC 2 cut(s) 858, 1103
BstNI CCWGG 1 cut(s) 17
BstNSI RCATGY 2 cut(s) 768, 1071
BstSCI CCNGG 3 cut(s) 15, 1229, 1246
BstV1I GCAGC 2 cut(s) 298, 1039
BstV2I GAAGAC 1 cut(s) 818
BsuI GTATCC 1 cut(s) 1219
BsuRI GGCC 2 cut(s) 894, 1268
BtsCI GGATG 3 cut(s) 129, 711, 1309
BtsIMutI CAGTG 2 cut(s) 416, 1360
Cac8I GCNNGC 1 cut(s) 664
CfoI GCGC 2 cut(s) 430, 1360
Cfr10I RCCGGY 1 cut(s) 983
CseI GACGC 1 cut(s) 280
CsiI ACCWGGT 1 cut(s) 15
Csp6I GTAC 2 cut(s) 867, 1379
CviAII CATG 7 cut(s) 133, 367, 765, 1068, 1156, 1274, 1403
CviQI GTAC 2 cut(s) 867, 1379
DdeI CTNAG 5 cut(s) 618, 714, 1098, 1314, 1361
DinI GGCGCC 1 cut(s) 429
DpnI GATC 7 cut(s) 27, 278, 738, 839, 969, 1179, 1366
DpnII GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
DraIII CACNNNGTG 1 cut(s) 19
DrdI GACNNNNNNGTC 1 cut(s) 984
DseDI GACNNNNNNGTC 1 cut(s) 984
Eam1104I CTCTTC 3 cut(s) 122, 207, 523
EarI CTCTTC 3 cut(s) 122, 207, 523
Ecl136II GAGCTC 1 cut(s) 782
Eco130I CCWWGG 1 cut(s) 1296
Eco24I GRGCYC 1 cut(s) 784
Eco31I GGTCTC 1 cut(s) 1310
Eco53kI GAGCTC 1 cut(s) 782
EcoICRI GAGCTC 1 cut(s) 782
EcoRII CCWGG 1 cut(s) 15
EcoT14I CCWWGG 1 cut(s) 1296
EcoT22I ATGCAT 1 cut(s) 64
EcoT38I GRGCYC 1 cut(s) 784
EgeI GGCGCC 1 cut(s) 429
EheI GGCGCC 1 cut(s) 429
ErhI CCWWGG 1 cut(s) 1296
FaeI CATG 7 cut(s) 136, 370, 768, 1071, 1159, 1277, 1406
FatI CATG 7 cut(s) 132, 366, 764, 1067, 1155, 1273, 1402
FauI CCCGC 1 cut(s) 647
FauNDI CATATG 1 cut(s) 807
Fnu4HI GCNGC 3 cut(s) 291, 312, 1053
FokI GGATG 3 cut(s) 136, 718, 1296
FriOI GRGCYC 1 cut(s) 784
Fsp4HI GCNGC 3 cut(s) 291, 312, 1053
FspBI CTAG 3 cut(s) 501, 875, 1411
GlaI GCGC 2 cut(s) 429, 1359
GluI GCNGC 3 cut(s) 291, 312, 1053
GsaI CCCAGC 1 cut(s) 297
GsuI CTGGAG 1 cut(s) 1412
HaeII RGCGCY 1 cut(s) 431
HaeIII GGCC 2 cut(s) 894, 1268
HapII CCGG 3 cut(s) 984, 1230, 1248
HgaI GACGC 1 cut(s) 280
HhaI GCGC 2 cut(s) 430, 1360
Hin1I GRCGYC 1 cut(s) 428
Hin1II CATG 7 cut(s) 136, 370, 768, 1071, 1159, 1277, 1406
Hin6I GCGC 2 cut(s) 428, 1358
HinP1I GCGC 2 cut(s) 428, 1358
HinfI GANTC 2 cut(s) 91, 692
HpaII CCGG 3 cut(s) 984, 1230, 1248
HphI GGTGA 5 cut(s) 221, 341, 404, 832, 1187
Hpy166II GTNNAC 1 cut(s) 869
Hpy188III TCNNGA 9 cut(s) 35, 578, 689, 785, 819, 1109, 1313, 1371, 1391
Hpy8I GTNNAC 1 cut(s) 869
Hpy99I CGWCG 1 cut(s) 274
HpyAV CCTTC 4 cut(s) 114, 200, 853, 1336
HpyCH4III ACNGT 3 cut(s) 411, 553, 754
HpyCH4IV ACGT 2 cut(s) 627, 673
HpyCH4V TGCA 8 cut(s) 62, 80, 220, 407, 569, 662, 805, 1217
HpyF10VI GCNNNNNNNGC 2 cut(s) 858, 1103
HpyF3I CTNAG 5 cut(s) 618, 714, 1098, 1314, 1361
HpySE526I ACGT 2 cut(s) 627, 673
Hsp92I GRCGYC 1 cut(s) 428
Hsp92II CATG 7 cut(s) 136, 370, 768, 1071, 1159, 1277, 1406
HspAI GCGC 2 cut(s) 428, 1358
KasI GGCGCC 1 cut(s) 427
Kzo9I GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
LguI GCTCTTC 1 cut(s) 122
LmnI GCTCC 4 cut(s) 308, 779, 1064, 1393
Lsp1109I GCAGC 2 cut(s) 298, 1039
LweI GCATC 5 cut(s) 510, 603, 696, 1011, 1318
MabI ACCWGGT 1 cut(s) 15
MaeI CTAG 3 cut(s) 501, 875, 1411
MaeII ACGT 2 cut(s) 627, 673
MaeIII GTNAC 2 cut(s) 493, 920
MalI GATC 7 cut(s) 27, 278, 738, 839, 969, 1179, 1366
MboI GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
MboII GAAGA 6 cut(s) 139, 224, 540, 622, 823, 899
MfeI CAATTG 1 cut(s) 930
MhlI GDGCHC 2 cut(s) 784, 863
MluCI AATT 9 cut(s) 30, 43, 148, 303, 930, 942, 1147, 1241, 1286
Mly113I GGCGCC 1 cut(s) 428
MlyI GAGTC 1 cut(s) 100
Mph1103I ATGCAT 1 cut(s) 64
MroXI GAANNNNTTC 1 cut(s) 629
MseI TTAA 4 cut(s) 174, 372, 746, 1208
MspI CCGG 3 cut(s) 984, 1230, 1248
MspR9I CCNGG 3 cut(s) 17, 1231, 1248
MunI CAATTG 1 cut(s) 930
Mva1269I GAATGC 2 cut(s) 64, 852
MvaI CCWGG 1 cut(s) 17
MwoI GCNNNNNNNGC 2 cut(s) 858, 1103
NarI GGCGCC 1 cut(s) 428
NciI CCSGG 2 cut(s) 1231, 1248
NdeI CATATG 1 cut(s) 807
NdeII GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
NlaIII CATG 7 cut(s) 136, 370, 768, 1071, 1159, 1277, 1406
NlaIV GGNNCC 1 cut(s) 429
NmeAIII GCCGAG 1 cut(s) 549
NmuCI GTSAC 1 cut(s) 920
NsiI ATGCAT 1 cut(s) 64
NspI RCATGY 2 cut(s) 768, 1071
NspV TTCGAA 1 cut(s) 1163
PciSI GCTCTTC 1 cut(s) 122
PcsI WCGNNNNNNNCGW 1 cut(s) 670
PctI GAATGC 2 cut(s) 64, 852
PdmI GAANNNNTTC 1 cut(s) 629
PfeI GAWTC 1 cut(s) 692
PflMI CCANNNNNTGG 1 cut(s) 913
PkrI GCNGC 3 cut(s) 292, 313, 1054
PleI GAGTC 1 cut(s) 99
PluTI GGCGCC 1 cut(s) 431
PpsI GAGTC 1 cut(s) 99
PshBI ATTAAT 1 cut(s) 372
PsiI TTATAA 1 cut(s) 318
Psp124BI GAGCTC 1 cut(s) 784
Psp1406I AACGTT 1 cut(s) 627
Psp6I CCWGG 1 cut(s) 15
PspFI CCCAGC 1 cut(s) 293
PspGI CCWGG 1 cut(s) 15
PspN4I GGNNCC 1 cut(s) 429
RsaI GTAC 2 cut(s) 868, 1380
RsaNI GTAC 2 cut(s) 867, 1379
SacI GAGCTC 1 cut(s) 784
SapI GCTCTTC 1 cut(s) 122
SaqAI TTAA 4 cut(s) 174, 372, 746, 1208
SatI GCNGC 3 cut(s) 291, 312, 1053
Sau3AI GATC 7 cut(s) 25, 276, 736, 837, 967, 1177, 1364
SchI GAGTC 1 cut(s) 100
ScrFI CCNGG 3 cut(s) 17, 1231, 1248
SduI GDGCHC 2 cut(s) 784, 863
SexAI ACCWGGT 1 cut(s) 15
SfaNI GCATC 5 cut(s) 510, 603, 696, 1011, 1318
SfoI GGCGCC 1 cut(s) 429
SfuI TTCGAA 1 cut(s) 1163
Sse9I AATT 9 cut(s) 30, 43, 148, 303, 930, 942, 1147, 1241, 1286
SsiI CCGC 3 cut(s) 290, 654, 703
SspDI GGCGCC 1 cut(s) 427
SspMI CTAG 3 cut(s) 501, 875, 1411
SstI GAGCTC 1 cut(s) 784
StyD4I CCNGG 3 cut(s) 15, 1229, 1246
StyI CCWWGG 1 cut(s) 1296
TaaI ACNGT 3 cut(s) 411, 553, 754
TaiI ACGT 2 cut(s) 630, 676
TaqI TCGA 5 cut(s) 24, 279, 885, 1072, 1163
TaqII GACCGA 1 cut(s) 1334
TasI AATT 9 cut(s) 30, 43, 148, 303, 930, 942, 1147, 1241, 1286
TatI WGTACW 1 cut(s) 866
TauI GCSGC 1 cut(s) 293
TfiI GAWTC 1 cut(s) 692
Tru1I TTAA 4 cut(s) 174, 372, 746, 1208
Tru9I TTAA 4 cut(s) 174, 372, 746, 1208
TscAI CASTG 2 cut(s) 416, 1360
TseFI GTSAC 1 cut(s) 920
TseI GCWGC 2 cut(s) 311, 1052
Tsp45I GTSAC 1 cut(s) 920
TspDTI ATGAA 5 cut(s) 140, 667, 824, 835, 1347
TspRI CASTG 2 cut(s) 416, 1360
Van91I CCANNNNNTGG 1 cut(s) 913
VspI ATTAAT 1 cut(s) 372
XapI RAATTY 4 cut(s) 30, 43, 1241, 1286
XceI RCATGY 2 cut(s) 768, 1071
XcmI CCANNNNNNNNNTGG 1 cut(s) 1276
XmnI GAANNNNTTC 1 cut(s) 629
XspI CTAG 3 cut(s) 501, 875, 1411
Zsp2I ATGCAT 1 cut(s) 64
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.