Rorug07G0002200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000007
OG0018438
Physical Location & Seq
Reverse (-)
251656 .. 255229
3574 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug07G0002200.1

Sequence Viewer

Length: 1002 bp
ATGGGTCGCCAATCCCTAGCTAAGCTGATCGGTTCGATCGCATCACGCAAGCCATCATCATCTCCGTCAATAATTCAGCGCCGTCACTACGCAGCCGCTCCGCCGCCGCCGGCTGTCTTTGTCGACAAAAACACTCGCGTCATTTGCCAGGGCATTACCGGCAAGAATGGCACTTTCCACTGCGAACAAGCCATCGAATATGGCACTAAAATGGTGGGTGGTGTTACTCCAAAGAAGGGCGGGACCGAGCATTTGGGACTTCCAGTCTTCAATTCAGTTGCAGAAGCAAAGGCTGAAACAAAGGCTAATGCTTCAGTAATCTATGTTCCTCCACCATTTGCTGCCGCTGCAATTATGGAAGCAATGGAAGCTGAGCTGGATCTCGTTGTGTGCATCACTGAGGGTATCCCACAACATGATATGGTACGTGTGAAGGCTGCTCTTAACAGCCAATCTAAAACGCGGCTCATTGGACCAAATTGCCCTGGAATTATCAAGCCTGGTGAATGCAAAATTGGAATTATGCCAGGCTACATTCATAAACCTGGCCGTGTGGGAATTGTTTCTCGATCTGGTACCTTGACCTATGAAGCGGTTTTCCAAACAACTGCTGTTGGCCTTGGACAATCCACTTGTGTTGGTATTGGGGGGGATCCTTTTAATGGTACAAACTTTGTTGATTGCATGGAAAAATTCTTGGCAGATCCTCAAACAGAAGGTATCGTTCTTATAGGAGAGATTGGTGGGACTGCAGAAGAGGATGCCGCTGCATTGATAAAGGAAAGTGGAACTGAGAAGCCAATTGTTGCATTTATTGCTGGACTAACTGCTCCCCCTGGTCGTCGTATGGGTCATGCTGGAGCTATTGTATCGGGAGGAAAGGGAACAGCACAAGATAAAATCAAGACGCTTAGGGAAGCTGGGGTTACAGTGGTGGAGTCTCCTGCAAAAATTGGGGTTGCCATGCTTGAAGTGTTCAAGCAGAGGGGACTAGTGAACTAG
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

333

Amino Acids

34.65

Weight (kDa)

8.89

Isoelectric Point (pI)

39.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CoA_binding PF02629 42 - 135 4.4e-33 CoA binding domain
Succ_CoA_lig PF13607 182 - 316 8.1e-11 Succinyl-CoA ligase like flavodoxin domain
Ligase_CoA PF00549 188 - 309 3e-30 CoA-ligase
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: OG0018438)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g06290
malus_domestica MD14G1171500.v1.1
prunus_persica Prupe.5G165600_v2.0.a1
pyrus_communis pycom14g14320
rosa_chinensis RchiOBHm_Chr7g0192571
rosa_laevigata RLG00000004351
rosa_multiflora Rmu_sc0003108.1_g000042
rosa_rugosa Rorug07G0002200
rosa_samantha Rh7BG129100
rosa_wichuraiana Rw7G010890

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 575
AccB1I GGYRCC 1 cut(s) 575
AccBSI CCGCTC 1 cut(s) 98
AccI GTMKAC 1 cut(s) 123
AccII CGCG 2 cut(s) 138, 463
AciI CCGC 9 cut(s) 96, 101, 104, 107, 240, 345, 463, 593, 765
AclWI GGATC 4 cut(s) 387, 647, 660, 698
AcoI YGGCCR 1 cut(s) 547
AcsI RAATTY 1 cut(s) 692
AcuI CTGAAG 1 cut(s) 297
AfaI GTAC 3 cut(s) 426, 577, 667
AfiI CCNNNNNNNGG 2 cut(s) 236, 662
AflIII ACRYGT 1 cut(s) 427
AgsI TTSAA 3 cut(s) 271, 971, 979
AhdI GACNNNNNGTC 1 cut(s) 263
AhlI ACTAGT 1 cut(s) 991
AjnI CCWGG 6 cut(s) 147, 484, 499, 526, 544, 835
AjuI GAANNNNNNNTTGG 2 cut(s) 498, 530
AluBI AGCT 6 cut(s) 20, 25, 371, 376, 863, 920
AluI AGCT 6 cut(s) 20, 25, 371, 376, 863, 920
Alw26I GTCTC 1 cut(s) 945
AlwI GGATC 4 cut(s) 387, 647, 660, 698
AoxI GGCC 2 cut(s) 547, 616
ApeKI GCWGC 5 cut(s) 92, 341, 347, 437, 767
ApoI RAATTY 1 cut(s) 692
ArsI GACNNNNNNTTYG 2 cut(s) 235, 267
Asp700I GAANNNNTTC 1 cut(s) 562
Asp718I GGTACC 1 cut(s) 575
AspLEI GCGC 1 cut(s) 81
AspS9I GGNCC 2 cut(s) 243, 473
AsuHPI GGTGA 1 cut(s) 515
AvaII GGWCC 2 cut(s) 243, 473
BamHI GGATCC 1 cut(s) 652
BanI GGYRCC 1 cut(s) 575
BbsI GAAGAC 1 cut(s) 259
BbvI GCAGC 5 cut(s) 104, 328, 334, 424, 754
BccI CCATC 2 cut(s) 61, 200
BceAI ACGGC 2 cut(s) 66, 534
BciT130I CCWGG 6 cut(s) 149, 486, 501, 528, 546, 837
BciVI GTATCC 1 cut(s) 416
BcoDI GTCTC 1 cut(s) 945
BcuI ACTAGT 1 cut(s) 991
BfaI CTAG 3 cut(s) 17, 992, 1000
BfmI CTRYAG 1 cut(s) 750
BfoI RGCGCY 1 cut(s) 82
BfuI GTATCC 1 cut(s) 416
BlpI GCTNAGC 2 cut(s) 21, 372
Bme1390I CCNGG 6 cut(s) 149, 486, 501, 528, 546, 837
Bme18I GGWCC 2 cut(s) 243, 473
BmeRI GACNNNNNGTC 1 cut(s) 263
BmgT120I GGNCC 2 cut(s) 243, 473
BmiI GGNNCC 3 cut(s) 244, 577, 654
BmrFI CCNGG 6 cut(s) 149, 486, 501, 528, 546, 837
BmsI GCATC 3 cut(s) 50, 402, 751
BpiI GAAGAC 1 cut(s) 259
BpmI CTGGAG 1 cut(s) 879
Bpu10I CCTNAGC 1 cut(s) 911
Bpu1102I GCTNAGC 2 cut(s) 21, 372
BsaAI YACGTR 1 cut(s) 428
BsaJI CCNNGG 4 cut(s) 148, 484, 619, 835
BsaXI ACNNNNNCTCC 2 cut(s) 852, 882
Bsc4I CCNNNNNNNGG 2 cut(s) 236, 662
Bse118I RCCGGY 2 cut(s) 109, 158
Bse1I ACTGG 1 cut(s) 263
Bse3DI GCAATG 1 cut(s) 369
BseBI CCWGG 6 cut(s) 149, 486, 501, 528, 546, 837
BseDI CCNNGG 4 cut(s) 148, 484, 619, 835
BseGI GGATG 1 cut(s) 766
BseLI CCNNNNNNNGG 2 cut(s) 236, 662
BseMI GCAATG 1 cut(s) 369
BseMII CTCAG 3 cut(s) 363, 390, 783
BseNI ACTGG 1 cut(s) 263
BseXI GCAGC 5 cut(s) 104, 328, 334, 424, 754
BseYI CCCAGC 1 cut(s) 920
Bsh1236I CGCG 2 cut(s) 138, 463
Bsh1285I CGRYCG 1 cut(s) 39
BshFI GGCC 2 cut(s) 549, 618
BshNI GGYRCC 1 cut(s) 575
BsiEI CGRYCG 1 cut(s) 39
BsiSI CCGG 2 cut(s) 110, 159
BslFI GGGAC 3 cut(s) 256, 270, 760
BslI CCNNNNNNNGG 2 cut(s) 236, 662
BsmAI GTCTC 1 cut(s) 945
BsmFI GGGAC 3 cut(s) 256, 270, 760
BsmI GAATGC 1 cut(s) 512
BsnI GGCC 2 cut(s) 549, 618
Bsp143I GATC 6 cut(s) 27, 36, 379, 569, 652, 703
Bsp1720I GCTNAGC 2 cut(s) 21, 372
BspACI CCGC 9 cut(s) 96, 101, 104, 107, 240, 345, 463, 593, 765
BspANI GGCC 2 cut(s) 549, 618
BspCNI CTCAG 3 cut(s) 364, 391, 784
BspFNI CGCG 2 cut(s) 138, 463
BspLI GGNNCC 3 cut(s) 244, 577, 654
BspMAI CTGCAG 1 cut(s) 754
BspPI GGATC 4 cut(s) 387, 647, 660, 698
BspT107I GGYRCC 1 cut(s) 575
BsrBI CCGCTC 1 cut(s) 98
BsrDI GCAATG 1 cut(s) 369
BsrFI RCCGGY 2 cut(s) 109, 158
BsrI ACTGG 1 cut(s) 263
BssAI RCCGGY 2 cut(s) 109, 158
BssECI CCNNGG 4 cut(s) 148, 484, 619, 835
BssMI GATC 6 cut(s) 27, 36, 379, 569, 652, 703
BssT1I CCWWGG 1 cut(s) 619
Bst2UI CCWGG 6 cut(s) 149, 486, 501, 528, 546, 837
Bst4CI ACNGT 1 cut(s) 931
Bst6I CTCTTC 1 cut(s) 750
BstAPI GCANNNNNTGC 1 cut(s) 815
BstBAI YACGTR 1 cut(s) 428
BstC8I GCNNGC 2 cut(s) 50, 111
BstDEI CTNAG 5 cut(s) 21, 372, 399, 792, 911
BstF5I GGATG 1 cut(s) 766
BstFNI CGCG 2 cut(s) 138, 463
BstH2I RGCGCY 1 cut(s) 82
BstHHI GCGC 1 cut(s) 81
BstKTI GATC 6 cut(s) 30, 39, 382, 572, 655, 706
BstMAI GTCTC 1 cut(s) 945
BstMBI GATC 6 cut(s) 27, 36, 379, 569, 652, 703
BstMCI CGRYCG 1 cut(s) 39
BstMWI GCNNNNNNNGC 6 cut(s) 144, 159, 168, 347, 368, 815
BstNI CCWGG 6 cut(s) 149, 486, 501, 528, 546, 837
BstSCI CCNGG 6 cut(s) 147, 484, 499, 526, 544, 835
BstSFI CTRYAG 1 cut(s) 750
BstUI CGCG 2 cut(s) 138, 463
BstV1I GCAGC 5 cut(s) 104, 328, 334, 424, 754
BstV2I GAAGAC 1 cut(s) 259
BstX2I RGATCY 3 cut(s) 379, 652, 703
BstYI RGATCY 3 cut(s) 379, 652, 703
BsuI GTATCC 1 cut(s) 416
BsuRI GGCC 2 cut(s) 549, 618
BtsCI GGATG 1 cut(s) 766
BtsI GCAGTG 1 cut(s) 178
BtsIMutI CAGTG 3 cut(s) 178, 396, 936
Cac8I GCNNGC 2 cut(s) 50, 111
CfoI GCGC 1 cut(s) 81
Cfr10I RCCGGY 2 cut(s) 109, 158
Cfr13I GGNCC 2 cut(s) 243, 473
CseI GACGC 2 cut(s) 127, 916
Csp6I GTAC 3 cut(s) 425, 576, 666
CspCI CAANNNNNGTGG 2 cut(s) 619, 654
CviAII CATG 4 cut(s) 416, 685, 854, 964
CviQI GTAC 3 cut(s) 425, 576, 666
DdeI CTNAG 5 cut(s) 21, 372, 399, 792, 911
DpnI GATC 6 cut(s) 29, 38, 381, 571, 654, 705
DpnII GATC 6 cut(s) 27, 36, 379, 569, 652, 703
DriI GACNNNNNGTC 1 cut(s) 263
EaeI YGGCCR 1 cut(s) 547
Eam1104I CTCTTC 1 cut(s) 750
Eam1105I GACNNNNNGTC 1 cut(s) 263
EarI CTCTTC 1 cut(s) 750
EciI GGCGGA 1 cut(s) 90
Eco130I CCWWGG 1 cut(s) 619
Eco47I GGWCC 2 cut(s) 243, 473
Eco57I CTGAAG 1 cut(s) 297
EcoRII CCWGG 6 cut(s) 147, 484, 499, 526, 544, 835
EcoT14I CCWWGG 1 cut(s) 619
ErhI CCWWGG 1 cut(s) 619
FaeI CATG 4 cut(s) 419, 688, 857, 967
FaqI GGGAC 3 cut(s) 256, 270, 760
FatI CATG 4 cut(s) 415, 684, 853, 963
FauI CCCGC 1 cut(s) 233
FblI GTMKAC 1 cut(s) 123
FokI GGATG 1 cut(s) 773
FspBI CTAG 3 cut(s) 17, 992, 1000
GlaI GCGC 1 cut(s) 80
GsaI CCCAGC 1 cut(s) 924
GsuI CTGGAG 1 cut(s) 879
HaeII RGCGCY 1 cut(s) 82
HaeIII GGCC 2 cut(s) 549, 618
HapII CCGG 2 cut(s) 110, 159
HgaI GACGC 2 cut(s) 127, 916
HhaI GCGC 1 cut(s) 81
Hin1II CATG 4 cut(s) 419, 688, 857, 967
Hin6I GCGC 1 cut(s) 79
HinP1I GCGC 1 cut(s) 79
HincII GTYRAC 1 cut(s) 124
HindII GTYRAC 1 cut(s) 124
HinfI GANTC 1 cut(s) 938
HpaII CCGG 2 cut(s) 110, 159
HphI GGTGA 1 cut(s) 515
Hpy166II GTNNAC 2 cut(s) 124, 997
Hpy188III TCNNGA 3 cut(s) 567, 873, 904
Hpy8I GTNNAC 2 cut(s) 124, 997
Hpy99I CGWCG 1 cut(s) 846
HpyAV CCTTC 3 cut(s) 229, 427, 710
HpyCH4III ACNGT 1 cut(s) 931
HpyCH4IV ACGT 1 cut(s) 427
HpyCH4V TGCA 9 cut(s) 281, 350, 393, 510, 684, 752, 770, 809, 947
HpyF10VI GCNNNNNNNGC 6 cut(s) 144, 159, 168, 347, 368, 815
HpyF3I CTNAG 5 cut(s) 21, 372, 399, 792, 911
HpySE526I ACGT 1 cut(s) 427
Hsp92II CATG 4 cut(s) 419, 688, 857, 967
HspAI GCGC 1 cut(s) 79
KpnI GGTACC 1 cut(s) 579
KroI GCCGGC 1 cut(s) 109
KroNI GCCGGC 1 cut(s) 111
Kzo9I GATC 6 cut(s) 27, 36, 379, 569, 652, 703
LmnI GCTCC 3 cut(s) 103, 835, 860
Lsp1109I GCAGC 5 cut(s) 104, 328, 334, 424, 754
LweI GCATC 3 cut(s) 50, 402, 751
MaeI CTAG 3 cut(s) 17, 992, 1000
MaeII ACGT 1 cut(s) 427
MaeIII GTNAC 3 cut(s) 83, 223, 925
MalI GATC 6 cut(s) 29, 38, 381, 571, 654, 705
MbiI CCGCTC 1 cut(s) 98
MboI GATC 6 cut(s) 27, 36, 379, 569, 652, 703
MboII GAAGA 2 cut(s) 259, 767
MfeI CAATTG 1 cut(s) 801
MflI RGATCY 3 cut(s) 379, 652, 703
MlyI GAGTC 1 cut(s) 947
MnlI CCTC 6 cut(s) 339, 394, 717, 751, 869, 978
MroNI GCCGGC 1 cut(s) 109
MroXI GAANNNNTTC 1 cut(s) 562
MseI TTAA 2 cut(s) 444, 660
MslI CAYNNNNRTG 1 cut(s) 209
MspA1I CMGCKG 2 cut(s) 347, 767
MspI CCGG 2 cut(s) 110, 159
MspR9I CCNGG 6 cut(s) 149, 486, 501, 528, 546, 837
MunI CAATTG 1 cut(s) 801
Mva1269I GAATGC 1 cut(s) 512
MvaI CCWGG 6 cut(s) 149, 486, 501, 528, 546, 837
MvnI CGCG 2 cut(s) 138, 463
MwoI GCNNNNNNNGC 6 cut(s) 144, 159, 168, 347, 368, 815
NaeI GCCGGC 1 cut(s) 111
NdeII GATC 6 cut(s) 27, 36, 379, 569, 652, 703
NgoMIV GCCGGC 1 cut(s) 109
NlaIII CATG 4 cut(s) 419, 688, 857, 967
NlaIV GGNNCC 3 cut(s) 244, 577, 654
NmuCI GTSAC 1 cut(s) 83
PctI GAATGC 1 cut(s) 512
PdiI GCCGGC 1 cut(s) 111
PdmI GAANNNNTTC 1 cut(s) 562
Ple19I CGATCG 1 cut(s) 39
PleI GAGTC 1 cut(s) 946
PpsI GAGTC 1 cut(s) 946
Ppu21I YACGTR 1 cut(s) 428
Psp6I CCWGG 6 cut(s) 147, 484, 499, 526, 544, 835
PspFI CCCAGC 1 cut(s) 920
PspGI CCWGG 6 cut(s) 147, 484, 499, 526, 544, 835
PspN4I GGNNCC 3 cut(s) 244, 577, 654
PspPI GGNCC 2 cut(s) 243, 473
PsrI GAACNNNNNNTAC 2 cut(s) 309, 341
PstI CTGCAG 1 cut(s) 754
PsuI RGATCY 3 cut(s) 379, 652, 703
PvuI CGATCG 1 cut(s) 39
RsaI GTAC 3 cut(s) 426, 577, 667
RsaNI GTAC 3 cut(s) 425, 576, 666
RseI CAYNNNNRTG 1 cut(s) 209
SalI GTCGAC 1 cut(s) 122
SaqAI TTAA 2 cut(s) 444, 660
Sau3AI GATC 6 cut(s) 27, 36, 379, 569, 652, 703
Sau96I GGNCC 2 cut(s) 243, 473
SchI GAGTC 1 cut(s) 947
ScrFI CCNGG 6 cut(s) 149, 486, 501, 528, 546, 837
SfaNI GCATC 3 cut(s) 50, 402, 751
SfcI CTRYAG 1 cut(s) 750
SinI GGWCC 2 cut(s) 243, 473
SmiMI CAYNNNNRTG 1 cut(s) 209
SpeI ACTAGT 1 cut(s) 991
SsiI CCGC 9 cut(s) 96, 101, 104, 107, 240, 345, 463, 593, 765
SspMI CTAG 3 cut(s) 17, 992, 1000
StyD4I CCNGG 6 cut(s) 147, 484, 499, 526, 544, 835
StyI CCWWGG 1 cut(s) 619
TaaI ACNGT 1 cut(s) 931
TaiI ACGT 1 cut(s) 430
TaqI TCGA 4 cut(s) 35, 123, 195, 568
TaqII GACCGA 1 cut(s) 260
TauI GCSGC 6 cut(s) 98, 106, 109, 347, 466, 767
Tru1I TTAA 2 cut(s) 444, 660
Tru9I TTAA 2 cut(s) 444, 660
TscAI CASTG 3 cut(s) 185, 403, 936
TseFI GTSAC 1 cut(s) 83
TseI GCWGC 5 cut(s) 92, 341, 347, 437, 767
Tsp45I GTSAC 1 cut(s) 83
TspDTI ATGAA 2 cut(s) 527, 603
TspGWI ACGGA 1 cut(s) 54
TspRI CASTG 3 cut(s) 185, 403, 936
VpaK11BI GGWCC 2 cut(s) 243, 473
XapI RAATTY 1 cut(s) 692
XmiI GTMKAC 1 cut(s) 123
XmnI GAANNNNTTC 1 cut(s) 562
XspI CTAG 3 cut(s) 17, 992, 1000
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.