RchiOBHm_Chr3g0477321

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0008107
Physical Location & Seq
Forward (+)
23179976 .. 23181989
2014 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44263

Sequence Viewer

Length: 1272 bp
ATGTACGGCAAATGTGGCAAGTCGTGGAATGCCCAGAAGGTGTTCGACGAAACGCCTCACAGAAATGTAATGACTTGGAACTCTTTGATTTCTGGTTATTTGCAAGCTGGTTCGCCACTCAGAGCAACTCGTTTGTTTCTGGACATGTTAAAGGTCGGTGGTCGGAACAGAACCGCCGACGACGTTCAGCTTTTCGGGGGTGTTGGTGCATGGTTTGGGCTTGAAAATGGGGGATTTGCTAGAGAGTCATGGCGGGTGTTTAATCAAATGCGAGACAGGAATGTTGTGACATGGACTTCCATGGTTACTGGGTGCGCGCAGAGTGGGCAGGCTGATGAGGCAATGACTTTGGTGAAAGAAATGCTGCTGTTGGGTCTCAAGCCGAATTATGTTACTTATAATAGTTTGTTGAGTTCATTTGCTAGCATGGACTTTTGGGATTGTTGCAGGCAAATCCATTGCCGGATAGTGAAAGAAGGGTTTGATTCCCACGTGTATATTGTGGTTACCCTTTTGACCGTATATTCAGAGTCTAATAGTAGCTCGGAGGATTTCCGTGCGCTTTGCTCGTGTGCTTCAGTGTGGGATCAAATCTCGTGGAATGCAGCTGGTGTTGCTGTGGATTTTTTCTCATTTGCAAGCATTTTAAGAGCAGCAGGAACTCTTTCAGCACTTGTAGAGGGAAAGAAAATCCATGCTCTCATCTTCCTGAGTGGACATGCTTCAAATTTATGTGTTCAGAATGGGCTTGTTTCAATGTATGGAAGATGCGGTGCCATCCATGATGCAAAGTGGGTGTTTACTTTGATGAAAGAACATGATGTGGTCTCCTGGAATTCATTATTATCAGGTTATGCACATCATGGATTTGGGAAGGAGACTGTTGAATTGTTTGAGCAAATGAGAAGAACAGAGGTCAAACCAGATAATACCATCTTCCTGATTGTACTAACTGCCTGTAGCCATGTTGGTTTATTGGACAAAGGGCTCGAGTATTTCAATCTAATGAGAAATGATGATTTGCCTGAACCACCCAAGGTGGAGCATTACGCTACCATAGTTGATCTTTTTGGTCGGGCTGGAAACCTTCACAAAGTGGAAGCCTTCTTCAATACCATGCCAATAGAGCCGGGTGCCTCAGTATACAAAGCTCTACTTAGTGCGTGCCTAGTTCATGGAAACAGAGAACTTGCTCTTCGTTCTGCAACGAAGCTTCAACAACTGTGCCAAATGATCCTGCAACTTACATACTGCTATCAAATGTGTTGTTGA
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
PPR PPR_2 Pkinase_Tyr

Protein Analysis

423

Amino Acids

47.26

Weight (kDa)

6.88

Isoelectric Point (pI)

26.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 81 - 210 5.2e-07 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 93 - 141 4.5e-12 PPR repeat family
PPR_3 PF13812 94 - 140 1e-07 Pentatricopeptide repeat domain
PPR PF01535 96 - 125 3.7e-07 PPR repeat
PPR_2 PF13041 274 - 321 4.9e-09 PPR repeat family
PPR PF01535 276 - 303 1.3e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 399
AccB1I GGYRCC 2 cut(s) 773, 1133
AccI GTMKAC 1 cut(s) 1143
AccII CGCG 1 cut(s) 317
AciI CCGC 3 cut(s) 174, 253, 771
AclWI GGATC 2 cut(s) 594, 1228
AcsI RAATTY 2 cut(s) 727, 835
AcuI CTGAAG 1 cut(s) 561
AcvI CACGTG 1 cut(s) 493
AdeI CACNNNGTG 1 cut(s) 1096
AfaI GTAC 2 cut(s) 5, 948
AflIII ACRYGT 2 cut(s) 144, 492
AgsI TTSAA 7 cut(s) 224, 726, 756, 887, 1000, 1111, 1217
AjnI CCWGG 1 cut(s) 830
AluBI AGCT 6 cut(s) 107, 190, 543, 608, 1151, 1213
AluI AGCT 6 cut(s) 107, 190, 543, 608, 1151, 1213
Alw26I GTCTC 4 cut(s) 267, 380, 832, 872
AlwI GGATC 2 cut(s) 594, 1228
Ama87I CYCGRG 1 cut(s) 989
ApeKI GCWGC 3 cut(s) 364, 605, 653
ApoI RAATTY 2 cut(s) 727, 835
Asp700I GAANNNNTTC 2 cut(s) 41, 664
AspLEI GCGC 3 cut(s) 317, 319, 562
AsuC2I CCSGG 1 cut(s) 1131
AsuHPI GGTGA 1 cut(s) 364
AsuNHI GCTAGC 1 cut(s) 422
AvaI CYCGRG 1 cut(s) 989
BanI GGYRCC 2 cut(s) 773, 1133
BanII GRGCYC 1 cut(s) 990
BauI CACGAG 2 cut(s) 568, 595
BbrPI CACGTG 1 cut(s) 493
BbvI GCAGC 3 cut(s) 351, 617, 665
BccI CCATC 2 cut(s) 785, 941
BceAI ACGGC 1 cut(s) 22
BciT130I CCWGG 1 cut(s) 832
BcnI CCSGG 1 cut(s) 1131
BcoDI GTCTC 4 cut(s) 267, 380, 832, 872
BfaI CTAG 3 cut(s) 240, 423, 1169
BfmI CTRYAG 1 cut(s) 958
BisI GCNGC 3 cut(s) 365, 606, 654
BlsI GCNGC 3 cut(s) 366, 607, 655
Bme1390I CCNGG 2 cut(s) 832, 1131
BmeT110I CYCGRG 1 cut(s) 989
BmiI GGNNCC 2 cut(s) 775, 1135
BmrFI CCNGG 2 cut(s) 832, 1131
BmrI ACTGGG 1 cut(s) 318
BmsI GCATC 2 cut(s) 758, 775
BmtI GCTAGC 1 cut(s) 426
BmuI ACTGGG 1 cut(s) 318
BpuEI CTTGAG 1 cut(s) 362
BpuMI CCSGG 1 cut(s) 1131
BsaAI YACGTR 1 cut(s) 493
BsaI GGTCTC 2 cut(s) 380, 832
BsaJI CCNNGG 2 cut(s) 300, 1035
Bse1I ACTGG 1 cut(s) 313
Bse3DI GCAATG 2 cut(s) 348, 457
BseBI CCWGG 1 cut(s) 832
BseDI CCNNGG 2 cut(s) 300, 1035
BseGI GGATG 1 cut(s) 777
BseMI GCAATG 2 cut(s) 348, 457
BseMII CTCAG 3 cut(s) 133, 701, 1152
BseNI ACTGG 1 cut(s) 313
BsePI GCGCGC 1 cut(s) 315
BseXI GCAGC 3 cut(s) 351, 617, 665
Bsh1236I CGCG 1 cut(s) 317
BshNI GGYRCC 2 cut(s) 773, 1133
BsiHKCI CYCGRG 1 cut(s) 989
BsiSI CCGG 2 cut(s) 463, 1130
BsmAI GTCTC 4 cut(s) 267, 380, 832, 872
BsmI GAATGC 2 cut(s) 34, 607
Bso31I GGTCTC 2 cut(s) 380, 832
BsoBI CYCGRG 1 cut(s) 989
Bsp1286I GDGCHC 1 cut(s) 990
Bsp143I GATC 3 cut(s) 586, 1063, 1233
Bsp19I CCATGG 1 cut(s) 300
BspACI CCGC 3 cut(s) 174, 253, 771
BspCNI CTCAG 3 cut(s) 132, 702, 1151
BspFNI CGCG 1 cut(s) 317
BspLI GGNNCC 2 cut(s) 775, 1135
BspOI GCTAGC 1 cut(s) 426
BspPI GGATC 2 cut(s) 594, 1228
BspQI GCTCTTC 1 cut(s) 1200
BspT107I GGYRCC 2 cut(s) 773, 1133
BspTNI GGTCTC 2 cut(s) 380, 832
BsrDI GCAATG 2 cut(s) 348, 457
BsrI ACTGG 1 cut(s) 313
BssECI CCNNGG 2 cut(s) 300, 1035
BssHII GCGCGC 1 cut(s) 315
BssMI GATC 3 cut(s) 586, 1063, 1233
BssNAI GTATAC 1 cut(s) 1144
BssSI CACGAG 2 cut(s) 568, 595
BssT1I CCWWGG 2 cut(s) 300, 1035
Bst1107I GTATAC 1 cut(s) 1144
Bst2BI CACGAG 2 cut(s) 568, 595
Bst2UI CCWGG 1 cut(s) 832
Bst4CI ACNGT 3 cut(s) 520, 883, 1224
Bst6I CTCTTC 1 cut(s) 1200
BstBAI YACGTR 1 cut(s) 493
BstC8I GCNNGC 7 cut(s) 105, 317, 330, 424, 449, 640, 1165
BstDEI CTNAG 4 cut(s) 119, 710, 1138, 1157
BstDSI CCRYGG 1 cut(s) 300
BstEII GGTNACC 1 cut(s) 505
BstF5I GGATG 1 cut(s) 777
BstFNI CGCG 1 cut(s) 317
BstHHI GCGC 3 cut(s) 317, 319, 562
BstKTI GATC 3 cut(s) 589, 1066, 1236
BstMAI GTCTC 4 cut(s) 267, 380, 832, 872
BstMBI GATC 3 cut(s) 586, 1063, 1233
BstMWI GCNNNNNNNGC 5 cut(s) 15, 325, 338, 614, 1126
BstNI CCWGG 1 cut(s) 832
BstNSI RCATGY 2 cut(s) 148, 722
BstPI GGTNACC 1 cut(s) 505
BstSCI CCNGG 2 cut(s) 830, 1129
BstSFI CTRYAG 1 cut(s) 958
BstUI CGCG 1 cut(s) 317
BstV1I GCAGC 3 cut(s) 351, 617, 665
BstZ17I GTATAC 1 cut(s) 1144
BtgI CCRYGG 1 cut(s) 300
BtsCI GGATG 1 cut(s) 777
BtsIMutI CAGTG 1 cut(s) 585
Cac8I GCNNGC 7 cut(s) 105, 317, 330, 424, 449, 640, 1165
CfoI GCGC 3 cut(s) 317, 319, 562
Csp6I GTAC 2 cut(s) 4, 947
CspCI CAANNNNNGTGG 2 cut(s) 578, 613
CviQI GTAC 2 cut(s) 4, 947
DdeI CTNAG 4 cut(s) 119, 710, 1138, 1157
DpnI GATC 3 cut(s) 588, 1065, 1235
DpnII GATC 3 cut(s) 586, 1063, 1233
DraIII CACNNNGTG 1 cut(s) 1096
Eam1104I CTCTTC 1 cut(s) 1200
EarI CTCTTC 1 cut(s) 1200
Eco130I CCWWGG 2 cut(s) 300, 1035
Eco24I GRGCYC 1 cut(s) 990
Eco31I GGTCTC 2 cut(s) 380, 832
Eco57I CTGAAG 1 cut(s) 561
Eco72I CACGTG 1 cut(s) 493
Eco88I CYCGRG 1 cut(s) 989
Eco91I GGTNACC 1 cut(s) 505
EcoO65I GGTNACC 1 cut(s) 505
EcoRI GAATTC 1 cut(s) 835
EcoRII CCWGG 1 cut(s) 830
EcoT14I CCWWGG 2 cut(s) 300, 1035
EcoT38I GRGCYC 1 cut(s) 990
ErhI CCWWGG 2 cut(s) 300, 1035
FalI AAGNNNNNCTT 2 cut(s) 1140, 1172
FauI CCCGC 1 cut(s) 246
FblI GTMKAC 1 cut(s) 1143
Fnu4HI GCNGC 3 cut(s) 365, 606, 654
FokI GGATG 1 cut(s) 764
FriOI GRGCYC 1 cut(s) 990
Fsp4HI GCNGC 3 cut(s) 365, 606, 654
FspBI CTAG 3 cut(s) 240, 423, 1169
GlaI GCGC 3 cut(s) 316, 318, 561
GluI GCNGC 3 cut(s) 365, 606, 654
HapII CCGG 2 cut(s) 463, 1130
HhaI GCGC 3 cut(s) 317, 319, 562
Hin6I GCGC 3 cut(s) 315, 317, 560
HinP1I GCGC 3 cut(s) 315, 317, 560
HindIII AAGCTT 1 cut(s) 1211
HinfI GANTC 3 cut(s) 245, 485, 530
HpaII CCGG 2 cut(s) 463, 1130
HphI GGTGA 1 cut(s) 364
Hpy166II GTNNAC 3 cut(s) 716, 801, 1144
Hpy188I TCNGA 5 cut(s) 122, 165, 529, 547, 741
Hpy188III TCNNGA 3 cut(s) 140, 709, 940
Hpy8I GTNNAC 3 cut(s) 716, 801, 1144
Hpy99I CGWCG 3 cut(s) 50, 182, 185
HpyAV CCTTC 5 cut(s) 31, 470, 868, 1097, 1114
HpyCH4III ACNGT 3 cut(s) 520, 883, 1224
HpyCH4IV ACGT 2 cut(s) 183, 492
HpyCH4V TGCA 9 cut(s) 103, 209, 447, 605, 638, 788, 857, 1205, 1240
HpyF10VI GCNNNNNNNGC 5 cut(s) 15, 325, 338, 614, 1126
HpyF3I CTNAG 4 cut(s) 119, 710, 1138, 1157
HpySE526I ACGT 2 cut(s) 183, 492
HspAI GCGC 3 cut(s) 315, 317, 560
Kzo9I GATC 3 cut(s) 586, 1063, 1233
LguI GCTCTTC 1 cut(s) 1200
LmnI GCTCC 1 cut(s) 1042
Lsp1109I GCAGC 3 cut(s) 351, 617, 665
LweI GCATC 2 cut(s) 758, 775
MaeI CTAG 3 cut(s) 240, 423, 1169
MaeII ACGT 2 cut(s) 183, 492
MaeIII GTNAC 4 cut(s) 286, 304, 391, 505
MalI GATC 3 cut(s) 588, 1065, 1235
MboI GATC 3 cut(s) 586, 1063, 1233
MboII GAAGA 6 cut(s) 697, 777, 918, 928, 1099, 1187
MhlI GDGCHC 1 cut(s) 990
MluCI AATT 4 cut(s) 385, 727, 835, 887
MlyI GAGTC 2 cut(s) 254, 539
MmeI TCCRAC 1 cut(s) 143
MnlI CCTC 6 cut(s) 66, 331, 541, 673, 907, 1147
MroXI GAANNNNTTC 2 cut(s) 41, 664
MseI TTAA 3 cut(s) 149, 261, 647
MslI CAYNNNNRTG 1 cut(s) 63
MspA1I CMGCKG 1 cut(s) 608
MspI CCGG 2 cut(s) 463, 1130
MspR9I CCNGG 2 cut(s) 832, 1131
Mva1269I GAATGC 2 cut(s) 34, 607
MvaI CCWGG 1 cut(s) 832
MvnI CGCG 1 cut(s) 317
MwoI GCNNNNNNNGC 5 cut(s) 15, 325, 338, 614, 1126
NciI CCSGG 1 cut(s) 1131
NcoI CCATGG 1 cut(s) 300
NdeII GATC 3 cut(s) 586, 1063, 1233
NheI GCTAGC 1 cut(s) 422
NlaIV GGNNCC 2 cut(s) 775, 1135
NmuCI GTSAC 1 cut(s) 286
NspI RCATGY 2 cut(s) 148, 722
PaeR7I CTCGAG 1 cut(s) 989
PauI GCGCGC 1 cut(s) 315
PciI ACATGT 1 cut(s) 144
PciSI GCTCTTC 1 cut(s) 1200
PctI GAATGC 2 cut(s) 34, 607
PdmI GAANNNNTTC 2 cut(s) 41, 664
PfeI GAWTC 1 cut(s) 485
PfoI TCCNGGA 1 cut(s) 830
PkrI GCNGC 3 cut(s) 366, 607, 655
PleI GAGTC 2 cut(s) 253, 538
PmaCI CACGTG 1 cut(s) 493
PmlI CACGTG 1 cut(s) 493
PpsI GAGTC 2 cut(s) 253, 538
Ppu21I YACGTR 1 cut(s) 493
PscI ACATGT 1 cut(s) 144
PsiI TTATAA 1 cut(s) 399
Psp6I CCWGG 1 cut(s) 830
PspCI CACGTG 1 cut(s) 493
PspEI GGTNACC 1 cut(s) 505
PspGI CCWGG 1 cut(s) 830
PspN4I GGNNCC 2 cut(s) 775, 1135
PspXI VCTCGAGB 1 cut(s) 989
PteI GCGCGC 1 cut(s) 315
PvuII CAGCTG 1 cut(s) 608
RsaI GTAC 2 cut(s) 5, 948
RsaNI GTAC 2 cut(s) 4, 947
RseI CAYNNNNRTG 1 cut(s) 63
SapI GCTCTTC 1 cut(s) 1200
SaqAI TTAA 3 cut(s) 149, 261, 647
SatI GCNGC 3 cut(s) 365, 606, 654
Sau3AI GATC 3 cut(s) 586, 1063, 1233
SchI GAGTC 2 cut(s) 254, 539
ScrFI CCNGG 2 cut(s) 832, 1131
SduI GDGCHC 1 cut(s) 990
SfaNI GCATC 2 cut(s) 758, 775
SfcI CTRYAG 1 cut(s) 958
Sfr274I CTCGAG 1 cut(s) 989
SlaI CTCGAG 1 cut(s) 989
SmiMI CAYNNNNRTG 1 cut(s) 63
SmlI CTYRAG 2 cut(s) 377, 989
SmoI CTYRAG 2 cut(s) 377, 989
Sse9I AATT 4 cut(s) 385, 727, 835, 887
SsiI CCGC 3 cut(s) 174, 253, 771
SspMI CTAG 3 cut(s) 240, 423, 1169
StyD4I CCNGG 2 cut(s) 830, 1129
StyI CCWWGG 2 cut(s) 300, 1035
TaaI ACNGT 3 cut(s) 520, 883, 1224
TaiI ACGT 2 cut(s) 186, 495
TaqI TCGA 2 cut(s) 45, 990
TasI AATT 4 cut(s) 385, 727, 835, 887
TatI WGTACW 1 cut(s) 946
TfiI GAWTC 1 cut(s) 485
Tru1I TTAA 3 cut(s) 149, 261, 647
Tru9I TTAA 3 cut(s) 149, 261, 647
TscAI CASTG 1 cut(s) 585
TseFI GTSAC 1 cut(s) 286
TseI GCWGC 3 cut(s) 364, 605, 653
Tsp45I GTSAC 1 cut(s) 286
TspDTI ATGAA 4 cut(s) 405, 824, 828, 1163
TspGWI ACGGA 1 cut(s) 545
TspRI CASTG 1 cut(s) 585
XapI RAATTY 2 cut(s) 727, 835
XceI RCATGY 2 cut(s) 148, 722
XhoI CTCGAG 1 cut(s) 989
XmiI GTMKAC 1 cut(s) 1143
XmnI GAANNNNTTC 2 cut(s) 41, 664
XspI CTAG 3 cut(s) 240, 423, 1169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.