RchiOBHm_Chr2g0124721

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0014768
Physical Location & Seq
Reverse (-)
38051394 .. 38057859
6466 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1410 bp
ATGATATCCATGTACTCGAGAAATGGCAGTTTTGACAATGCTCGCCATTTGCTTGCTAAAATGACAGAACCAAATCTTGTGAGCTATAATACTTTGGTTTCTGGTTTAGCACGTCATGGGTATCATAAAGAATCCATATCTCTCTTCCAAAGGATGCAACAGGATTGTGAATGTTTATTCTTGGACCAGTTCACGTTTGTAAGCATAGTGGGGACTTGTGCTTGCTTAGGTGCATTGGCAATGTTGCGTCAAGTTCATGGGGTGGCGATTGCAATTGGCTTGGAAATGAATATCATTGCTTGCAATTCTTTGGTCAATGCTTATGGAAAATGTGGTGAACCAGACACCTCATATTCTGTCTTCAGTCGAATGCTAGAGAGGGACATTGTGTCTTGGACCTCAATGATTGCTTCTTATGCACGGGCATCAAGAATGGATGACGCTTGTTGGGTATTTCATGGTATGCCTCTTAAGAACACAGTTTCTTGGACTGCTTTGATTTCGGGTTTTGTACAAAGTGGGCATGGTAATTATGCTTTGGATCTTTTCCAGAAAATGCTGGGAGAGAGGATCCGGCCTAGCACAGTTACATATGTTAGCATTTTGAGTGCTTGTGCAGATCTAGCACTTAATGAAAGAGTTGACATGTACAGCAAATGTGGGGACATGAAATCGGGAAAAACATTGTTTGAGATGATTCCTGAGAAGGATGTAATCTCTTGGAACTCTTTAATTACTGGATTTGCTCAGAATGGGCTGGGGAAGGAGTCACTTCTTGTTTTTAAGAGGATGGTAGAAACAAATGTGAAGCCTACTCATGTGACTTTTCTTTTGGTCTTATCTGCTTGTAGCCACACGGGTTTAGTTTCTGAAGGACTTCAAATTCTGCACTTAATGGAAAAGGGTTATGGTATTAAACCTAGATCAAGTCACTATGCAATTGTGATTGATTTGCTTGGGAGGAAAAATAAACTGAAGGAAGCGATGGAGTTGATTGAGAGAGCTCCTCATGCATCAGATCATATTGGGATGTGGGGTGCACTTTTGGCTGCTTGTCGAGTCCATGGGAACTTGGCCCTAGCTAGGAGGGCTGCAGAAGCTCTTTTTGAGTTGGAGCCCCACAATGGTGCAAGGTATGTTATGTTATCAAACATTTATGCCGCAGCTGGTAGATGGGCTGATGCCCATAAGGTGAGAAGGCTCATGGAAGAAAGAGGTTTGACAAAAGAGTCAGCTTATAGTTTGATAGAGCTGAGAAATGCAAGGCATGAGTTTGTAGCAAAAGACAAGGTCCACTGTCAGACAGGAGAGATGAATGATACGATTGGTAAATTAGCAGACCATATGAAGGATGTAGGCAACCTTCCTTACATTTACAGCCTTTTGTCCGAGGATAATGGTTATTCCTGA
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

Protein Analysis

469

Amino Acids

52.17

Weight (kDa)

7.94

Isoelectric Point (pI)

36.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 23 - 52 9.3e-06 PPR repeat
PPR PF01535 27 - 54 8e-07 PPR repeat
PPR_2 PF13041 158 - 206 5e-11 PPR repeat family
PPR_3 PF13812 159 - 206 2.6e-06 Pentatricopeptide repeat domain
PPR PF01535 161 - 190 8.6e-06 PPR repeat
PPR_2 PF13041 236 - 284 4.9e-09 PPR repeat family
PPR_3 PF13812 237 - 283 9.2e-06 Pentatricopeptide repeat domain
PPR PF01535 239 - 266 2.4e-06 PPR repeat
E_motif PF20431 355 - 416 5.3e-15 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1228
AciI CCGC 1 cut(s) 1161
AclWI GGATC 3 cut(s) 549, 565, 578
AcsI RAATTY 1 cut(s) 882
AcuI CTGAAG 3 cut(s) 346, 891, 995
AfaI GTAC 3 cut(s) 14, 513, 650
AfiI CCNNNNNNNGG 3 cut(s) 1083, 1124, 1348
AflII CTTAAG 1 cut(s) 470
AflIII ACRYGT 1 cut(s) 645
AgsI TTSAA 1 cut(s) 881
AhdI GACNNNNNGTC 1 cut(s) 388
AjiI CACGTC 1 cut(s) 113
AleI CACNNNNGTG 1 cut(s) 1125
AluBI AGCT 7 cut(s) 84, 1004, 1082, 1100, 1166, 1235, 1252
AluI AGCT 7 cut(s) 84, 1004, 1082, 1100, 1166, 1235, 1252
Alw21I GWGCWC 2 cut(s) 1006, 1042
Alw44I GTGCAC 1 cut(s) 1038
AlwI GGATC 3 cut(s) 549, 565, 578
Ama87I CYCGRG 1 cut(s) 16
AoxI GGCC 2 cut(s) 575, 1074
ApaLI GTGCAC 1 cut(s) 1038
ApeKI GCWGC 3 cut(s) 1049, 1091, 1163
ApoI RAATTY 1 cut(s) 882
ArsI GACNNNNNNTTYG 2 cut(s) 814, 846
Asp700I GAANNNNTTC 1 cut(s) 876
AspS9I GGNCC 4 cut(s) 184, 396, 1075, 1291
AsuHPI GGTGA 2 cut(s) 347, 1204
AvaI CYCGRG 1 cut(s) 16
AvaII GGWCC 3 cut(s) 184, 396, 1291
BaeGI GKGCMC 1 cut(s) 1042
BamHI GGATCC 1 cut(s) 570
BanII GRGCYC 2 cut(s) 1006, 1119
BarI GAAGNNNNNNTAC 2 cut(s) 1347, 1379
BbsI GAAGAC 1 cut(s) 352
Bbv12I GWGCWC 2 cut(s) 1006, 1042
BbvI GCAGC 3 cut(s) 1036, 1078, 1175
BccI CCATC 3 cut(s) 784, 979, 1167
BfaI CTAG 6 cut(s) 374, 579, 623, 921, 1079, 1083
BfmI CTRYAG 1 cut(s) 1092
BfrI CTTAAG 1 cut(s) 470
BglII AGATCT 1 cut(s) 619
BisI GCNGC 4 cut(s) 1050, 1092, 1161, 1164
BlsI GCNGC 4 cut(s) 1051, 1093, 1162, 1165
Bme18I GGWCC 3 cut(s) 184, 396, 1291
BmeRI GACNNNNNGTC 1 cut(s) 388
BmeT110I CYCGRG 1 cut(s) 16
BmgBI CACGTC 1 cut(s) 113
BmgT120I GGNCC 4 cut(s) 184, 396, 1075, 1291
BmiI GGNNCC 2 cut(s) 572, 1116
BmsI GCATC 4 cut(s) 144, 434, 1022, 1171
BpiI GAAGAC 1 cut(s) 352
BplI GAGNNNNNCTC 2 cut(s) 991, 1023
Bpu10I CCTNAGC 1 cut(s) 226
BsaJI CCNNGG 2 cut(s) 1063, 1389
Bsc4I CCNNNNNNNGG 3 cut(s) 1083, 1124, 1348
Bse1I ACTGG 2 cut(s) 187, 742
Bse3DI GCAATG 2 cut(s) 246, 294
BseDI CCNNGG 2 cut(s) 1063, 1389
BseGI GGATG 6 cut(s) 159, 442, 715, 795, 1035, 1357
BseLI CCNNNNNNNGG 3 cut(s) 1083, 1124, 1348
BseMI GCAATG 2 cut(s) 246, 294
BseMII CTCAG 3 cut(s) 693, 761, 1244
BseNI ACTGG 2 cut(s) 187, 742
BseRI GAGGAG 1 cut(s) 996
BseSI GKGCMC 1 cut(s) 1042
BseXI GCAGC 3 cut(s) 1036, 1078, 1175
BseYI CCCAGC 2 cut(s) 559, 757
BsgI GTGCAG 2 cut(s) 636, 872
BshFI GGCC 2 cut(s) 577, 1076
BsiHKAI GWGCWC 2 cut(s) 1006, 1042
BsiHKCI CYCGRG 1 cut(s) 16
BsiSI CCGG 1 cut(s) 574
BslFI GGGAC 3 cut(s) 226, 395, 677
BslI CCNNNNNNNGG 3 cut(s) 1083, 1124, 1348
BsmFI GGGAC 3 cut(s) 226, 395, 677
BsmI GAATGC 1 cut(s) 375
BsnI GGCC 2 cut(s) 577, 1076
BsoBI CYCGRG 1 cut(s) 16
Bsp1286I GDGCHC 3 cut(s) 1006, 1042, 1119
Bsp1407I TGTACA 2 cut(s) 511, 648
Bsp143I GATC 5 cut(s) 541, 570, 619, 923, 1018
Bsp19I CCATGG 1 cut(s) 1063
BspACI CCGC 1 cut(s) 1161
BspANI GGCC 2 cut(s) 577, 1076
BspCNI CTCAG 3 cut(s) 694, 760, 1245
BspLI GGNNCC 2 cut(s) 572, 1116
BspMAI CTGCAG 1 cut(s) 1096
BspPI GGATC 3 cut(s) 549, 565, 578
BspTI CTTAAG 1 cut(s) 470
BsrDI GCAATG 2 cut(s) 246, 294
BsrGI TGTACA 2 cut(s) 511, 648
BsrI ACTGG 2 cut(s) 187, 742
BssECI CCNNGG 2 cut(s) 1063, 1389
BssMI GATC 5 cut(s) 541, 570, 619, 923, 1018
BssT1I CCWWGG 1 cut(s) 1063
Bst4CI ACNGT 3 cut(s) 481, 586, 1298
Bst6I CTCTTC 1 cut(s) 149
BstAFI CTTAAG 1 cut(s) 470
BstAUI TGTACA 2 cut(s) 511, 648
BstC8I GCNNGC 4 cut(s) 43, 54, 223, 301
BstDEI CTNAG 4 cut(s) 226, 702, 747, 1253
BstDSI CCRYGG 1 cut(s) 1063
BstF5I GGATG 6 cut(s) 159, 442, 715, 795, 1035, 1357
BstKTI GATC 5 cut(s) 544, 573, 622, 926, 1021
BstMBI GATC 5 cut(s) 541, 570, 619, 923, 1018
BstMWI GCNNNNNNNGC 6 cut(s) 416, 623, 1010, 1046, 1088, 1097
BstNSI RCATGY 1 cut(s) 649
BstSFI CTRYAG 1 cut(s) 1092
BstSLI GKGCMC 1 cut(s) 1042
BstV1I GCAGC 3 cut(s) 1036, 1078, 1175
BstV2I GAAGAC 1 cut(s) 352
BstX2I RGATCY 3 cut(s) 541, 570, 619
BstYI RGATCY 3 cut(s) 541, 570, 619
BsuRI GGCC 2 cut(s) 577, 1076
BtgI CCRYGG 1 cut(s) 1063
BtgZI GCGATG 1 cut(s) 998
BtrI CACGTC 1 cut(s) 113
BtsCI GGATG 6 cut(s) 159, 442, 715, 795, 1035, 1357
BtsIMutI CAGTG 1 cut(s) 1294
Cac8I GCNNGC 4 cut(s) 43, 54, 223, 301
Cfr13I GGNCC 4 cut(s) 184, 396, 1075, 1291
CseI GACGC 2 cut(s) 236, 449
Csp6I GTAC 3 cut(s) 13, 512, 649
CviQI GTAC 3 cut(s) 13, 512, 649
DdeI CTNAG 4 cut(s) 226, 702, 747, 1253
DpnI GATC 5 cut(s) 543, 572, 621, 925, 1020
DpnII GATC 5 cut(s) 541, 570, 619, 923, 1018
DrdI GACNNNNNNGTC 1 cut(s) 1228
DriI GACNNNNNGTC 1 cut(s) 388
DseDI GACNNNNNNGTC 1 cut(s) 1228
Eam1104I CTCTTC 1 cut(s) 149
Eam1105I GACNNNNNGTC 1 cut(s) 388
EarI CTCTTC 1 cut(s) 149
Ecl136II GAGCTC 1 cut(s) 1004
Eco130I CCWWGG 1 cut(s) 1063
Eco24I GRGCYC 2 cut(s) 1006, 1119
Eco32I GATATC 1 cut(s) 6
Eco47I GGWCC 3 cut(s) 184, 396, 1291
Eco53kI GAGCTC 1 cut(s) 1004
Eco57I CTGAAG 3 cut(s) 346, 891, 995
Eco88I CYCGRG 1 cut(s) 16
EcoICRI GAGCTC 1 cut(s) 1004
EcoRV GATATC 1 cut(s) 6
EcoT14I CCWWGG 1 cut(s) 1063
EcoT22I ATGCAT 1 cut(s) 1015
EcoT38I GRGCYC 2 cut(s) 1006, 1119
ErhI CCWWGG 1 cut(s) 1063
FaqI GGGAC 3 cut(s) 226, 395, 677
FauNDI CATATG 2 cut(s) 592, 1344
Fnu4HI GCNGC 4 cut(s) 1050, 1092, 1161, 1164
FokI GGATG 6 cut(s) 166, 449, 722, 802, 1042, 1364
FriOI GRGCYC 2 cut(s) 1006, 1119
Fsp4HI GCNGC 4 cut(s) 1050, 1092, 1161, 1164
FspBI CTAG 6 cut(s) 374, 579, 623, 921, 1079, 1083
GluI GCNGC 4 cut(s) 1050, 1092, 1161, 1164
GsaI CCCAGC 2 cut(s) 563, 761
HaeIII GGCC 2 cut(s) 577, 1076
HapII CCGG 1 cut(s) 574
HgaI GACGC 2 cut(s) 236, 449
HincII GTYRAC 1 cut(s) 643
HindII GTYRAC 1 cut(s) 643
HinfI GANTC 5 cut(s) 131, 697, 767, 1059, 1229
HpaII CCGG 1 cut(s) 574
HphI GGTGA 2 cut(s) 347, 1204
Hpy166II GTNNAC 5 cut(s) 192, 338, 643, 1040, 1294
Hpy188I TCNGA 5 cut(s) 750, 871, 1018, 1302, 1390
Hpy188III TCNNGA 6 cut(s) 18, 429, 550, 675, 701, 1407
Hpy8I GTNNAC 5 cut(s) 192, 338, 643, 1040, 1294
HpyAV CCTTC 7 cut(s) 700, 757, 866, 970, 1191, 1342, 1373
HpyCH4III ACNGT 3 cut(s) 481, 586, 1298
HpyCH4IV ACGT 2 cut(s) 112, 194
HpyF10VI GCNNNNNNNGC 6 cut(s) 416, 623, 1010, 1046, 1088, 1097
HpyF3I CTNAG 4 cut(s) 226, 702, 747, 1253
HpySE526I ACGT 2 cut(s) 112, 194
Kzo9I GATC 5 cut(s) 541, 570, 619, 923, 1018
LmnI GCTCC 2 cut(s) 1009, 1114
Lsp1109I GCAGC 3 cut(s) 1036, 1078, 1175
LweI GCATC 4 cut(s) 144, 434, 1022, 1171
MaeI CTAG 6 cut(s) 374, 579, 623, 921, 1079, 1083
MaeII ACGT 2 cut(s) 112, 194
MaeIII GTNAC 4 cut(s) 586, 768, 820, 929
MalI GATC 5 cut(s) 543, 572, 621, 925, 1020
MboI GATC 5 cut(s) 541, 570, 619, 923, 1018
MboII GAAGA 3 cut(s) 136, 352, 1220
MfeI CAATTG 2 cut(s) 273, 939
MflI RGATCY 3 cut(s) 541, 570, 619
MhlI GDGCHC 3 cut(s) 1006, 1042, 1119
MluCI AATT 7 cut(s) 273, 304, 529, 732, 882, 939, 1331
MlyI GAGTC 3 cut(s) 776, 1068, 1238
MmeI TCCRAC 1 cut(s) 1092
Mph1103I ATGCAT 1 cut(s) 1015
MroXI GAANNNNTTC 1 cut(s) 876
MseI TTAA 6 cut(s) 471, 630, 731, 783, 893, 915
MslI CAYNNNNRTG 1 cut(s) 1125
MspA1I CMGCKG 1 cut(s) 1166
MspCI CTTAAG 1 cut(s) 470
MspI CCGG 1 cut(s) 574
MunI CAATTG 2 cut(s) 273, 939
Mva1269I GAATGC 1 cut(s) 375
MwoI GCNNNNNNNGC 6 cut(s) 416, 623, 1010, 1046, 1088, 1097
NcoI CCATGG 1 cut(s) 1063
NdeI CATATG 2 cut(s) 592, 1344
NdeII GATC 5 cut(s) 541, 570, 619, 923, 1018
NlaIV GGNNCC 2 cut(s) 572, 1116
NmuCI GTSAC 3 cut(s) 768, 820, 929
NsiI ATGCAT 1 cut(s) 1015
NspI RCATGY 1 cut(s) 649
OliI CACNNNNGTG 1 cut(s) 1125
PaeR7I CTCGAG 1 cut(s) 16
PciI ACATGT 1 cut(s) 645
PctI GAATGC 1 cut(s) 375
PdmI GAANNNNTTC 1 cut(s) 876
PfeI GAWTC 2 cut(s) 131, 697
PflFI GACNNNGTC 1 cut(s) 1289
PkrI GCNGC 4 cut(s) 1051, 1093, 1162, 1165
PleI GAGTC 3 cut(s) 775, 1067, 1237
PpsI GAGTC 3 cut(s) 775, 1067, 1237
PscI ACATGT 1 cut(s) 645
Psp124BI GAGCTC 1 cut(s) 1006
PspFI CCCAGC 2 cut(s) 559, 757
PspN4I GGNNCC 2 cut(s) 572, 1116
PspPI GGNCC 4 cut(s) 184, 396, 1075, 1291
PstI CTGCAG 1 cut(s) 1096
PsuI RGATCY 3 cut(s) 541, 570, 619
PsyI GACNNNGTC 1 cut(s) 1289
PvuII CAGCTG 1 cut(s) 1166
RsaI GTAC 3 cut(s) 14, 513, 650
RsaNI GTAC 3 cut(s) 13, 512, 649
RseI CAYNNNNRTG 1 cut(s) 1125
SacI GAGCTC 1 cut(s) 1006
SaqAI TTAA 6 cut(s) 471, 630, 731, 783, 893, 915
SatI GCNGC 4 cut(s) 1050, 1092, 1161, 1164
Sau3AI GATC 5 cut(s) 541, 570, 619, 923, 1018
Sau96I GGNCC 4 cut(s) 184, 396, 1075, 1291
SchI GAGTC 3 cut(s) 776, 1068, 1238
SduI GDGCHC 3 cut(s) 1006, 1042, 1119
SfaNI GCATC 4 cut(s) 144, 434, 1022, 1171
SfcI CTRYAG 1 cut(s) 1092
Sfr274I CTCGAG 1 cut(s) 16
SinI GGWCC 3 cut(s) 184, 396, 1291
SlaI CTCGAG 1 cut(s) 16
SmiMI CAYNNNNRTG 1 cut(s) 1125
SmlI CTYRAG 2 cut(s) 16, 470
SmoI CTYRAG 2 cut(s) 16, 470
Sse9I AATT 7 cut(s) 273, 304, 529, 732, 882, 939, 1331
SsiI CCGC 1 cut(s) 1161
SspMI CTAG 6 cut(s) 374, 579, 623, 921, 1079, 1083
SstI GAGCTC 1 cut(s) 1006
StyI CCWWGG 1 cut(s) 1063
TaaI ACNGT 3 cut(s) 481, 586, 1298
TaiI ACGT 2 cut(s) 115, 197
TaqI TCGA 3 cut(s) 17, 367, 1057
TasI AATT 7 cut(s) 273, 304, 529, 732, 882, 939, 1331
TatI WGTACW 3 cut(s) 12, 511, 648
TauI GCSGC 1 cut(s) 1163
TfiI GAWTC 2 cut(s) 131, 697
Tru1I TTAA 6 cut(s) 471, 630, 731, 783, 893, 915
Tru9I TTAA 6 cut(s) 471, 630, 731, 783, 893, 915
TscAI CASTG 1 cut(s) 1301
TseFI GTSAC 3 cut(s) 768, 820, 929
TseI GCWGC 3 cut(s) 1049, 1091, 1163
Tsp45I GTSAC 3 cut(s) 768, 820, 929
TspDTI ATGAA 7 cut(s) 245, 302, 446, 648, 683, 1328, 1361
TspRI CASTG 1 cut(s) 1301
Tth111I GACNNNGTC 1 cut(s) 1289
Vha464I CTTAAG 1 cut(s) 470
VneI GTGCAC 1 cut(s) 1038
VpaK11BI GGWCC 3 cut(s) 184, 396, 1291
XapI RAATTY 1 cut(s) 882
XceI RCATGY 1 cut(s) 649
XhoI CTCGAG 1 cut(s) 16
XmnI GAANNNNTTC 1 cut(s) 876
XspI CTAG 6 cut(s) 374, 579, 623, 921, 1079, 1083
Zsp2I ATGCAT 1 cut(s) 1015
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.