Rorug01G0424000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0000991
Physical Location & Seq
Forward (+)
52446631 .. 52451687
5057 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0424000.1

Sequence Viewer

Length: 1158 bp
ATGGACCTGAAATCAAACCATACTTCTCCTGTTCTCACTGATCCTGCGCCTTTAGGCAAGTCGAGACTTGGCGTACATTCCAGTCTGTTACCATATTCAGGGCCAGGAACTGCTTTTCCAGCAAGCCTTCTCTTAACCATCCCTAGGAGGAAGAATGGATTTCTTGATGATGTTCGCTCCAGCTCTTGGCTTGATGCTATGAAATCTTCATCGCCTCCTCACAGAAAGATAACTAAGGATGTTAACAATGACTCTCCAGCAACTGAGTATGATATTGCCTATCGCACATGGATGGTTAAGTATCCGTCAGCTCTTACATCTTTTGAGCAAATCACTAATTATGCCAAGGGCAAAAGAATAGCATTGTTTCTCGATTATGATGGGACTCTTTCGCCAATTGTAGATAACCCTGACTGTGCCTTTATGTCTGATGCTATGCGAAGGGCTGTAAGAAGAGCGGCAAAACATTTCCCAACAGCAATAATTAGTGGAAGAAGCCATGACAAGGTATACGAGTTTGTTGGACTAAATGAACTATATTATGCGGGTAGTCATGGGATGGACATAATGGGCCCTGTTAGACAATCAGTAGTTGGTGACCATAGACATGGCTTTGGGTCTACTGACAGACAGGGCAAGGATGTTAATCTGTTCCAGCCTGCAGCAGAGTTTTTACCTATGATTGGCGAGGTTCTTAAATCCCTAGTAGAAACTACCAAAGACATTGAAGGAGCTAAAGTTGAGAATAACAAGTTCTGTGTCTCTGTACACTACCGCAATGTAGATGAGAAGTATTGGGCTGTAGTTGCACAGCGTGTTCATGACATTCTTAAAAACTACCCACGCCTGCGGTTGACTCATGGACGGAAGGTTTTAGAGGTCCGACCGGTGATAAATTGGGATAAAGGGAAGGCAGTCACATTTTTACTTGAATCTCTTGGGCTAAGTGATTGTGAAGATGTGCTCCCAATATATATTGGAGATGACCGCACAGATGAAGATGCATTCAAGGTTCTGAGGGAAGGAAACAGGGGTTATGGCATTTTAGTCTCTGCTGTGCCAAAGGAAAGCAATGCATTTTACTCACTAAGGGACCCCTCAGAGGTGATGGAGTTTCTGAAGTCACTGGTGATATGGAGGAAGTCAAGTGCTCTATAA
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

385

Amino Acids

43.14

Weight (kDa)

8.72

Isoelectric Point (pI)

39.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Trehalose_PPase PF02358 123 - 367 5.8e-70 Trehalose-phosphatase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 186
AccBSI CCGCTC 1 cut(s) 458
AccI GTMKAC 2 cut(s) 510, 620
AciI CCGC 5 cut(s) 458, 545, 775, 850, 988
AclWI GGATC 1 cut(s) 35
AcuI CTGAAG 1 cut(s) 1139
AdeI CACNNNGTG 1 cut(s) 815
AfaI GTAC 2 cut(s) 75, 768
AfiI CCNNNNNNNGG 6 cut(s) 98, 144, 186, 505, 683, 1102
AgeI ACCGGT 1 cut(s) 886
AgsI TTSAA 3 cut(s) 728, 932, 1009
AjnI CCWGG 1 cut(s) 103
AloI GAACNNNNNNTCC 2 cut(s) 100, 132
AluBI AGCT 3 cut(s) 183, 311, 734
AluI AGCT 3 cut(s) 183, 311, 734
Alw21I GWGCWC 2 cut(s) 966, 1153
Alw26I GTCTC 3 cut(s) 58, 766, 1054
AlwI GGATC 1 cut(s) 35
AlwNI CAGNNNCTG 2 cut(s) 110, 263
AoxI GGCC 2 cut(s) 101, 571
ApaI GGGCCC 1 cut(s) 575
ApeKI GCWGC 1 cut(s) 662
AsiGI ACCGGT 1 cut(s) 886
AspA2I CCTAGG 1 cut(s) 143
AspLEI GCGC 1 cut(s) 49
AspS9I GGNCC 6 cut(s) 4, 101, 571, 572, 880, 1093
AsuHPI GGTGA 4 cut(s) 608, 901, 1117, 1141
AvaII GGWCC 3 cut(s) 4, 880, 1093
AvrII CCTAGG 1 cut(s) 143
BaeGI GKGCMC 1 cut(s) 575
BanII GRGCYC 1 cut(s) 575
Bbv12I GWGCWC 2 cut(s) 966, 1153
BbvI GCAGC 1 cut(s) 674
BccI CCATC 5 cut(s) 146, 286, 374, 553, 1102
BciT130I CCWGG 1 cut(s) 105
BciVI GTATCC 1 cut(s) 312
BcoDI GTCTC 3 cut(s) 58, 766, 1054
BfaI CTAG 2 cut(s) 144, 704
BfmI CTRYAG 2 cut(s) 660, 801
BfuI GTATCC 1 cut(s) 312
BisI GCNGC 2 cut(s) 459, 663
BlnI CCTAGG 1 cut(s) 143
BlsI GCNGC 2 cut(s) 460, 664
Bme1390I CCNGG 1 cut(s) 105
Bme18I GGWCC 3 cut(s) 4, 880, 1093
BmgT120I GGNCC 6 cut(s) 4, 101, 571, 572, 880, 1093
BmiI GGNNCC 3 cut(s) 573, 1094, 1095
BmrFI CCNGG 1 cut(s) 105
BmsI GCATC 3 cut(s) 184, 421, 991
BpmI CTGGAG 2 cut(s) 163, 240
BsaBI GATNNNNATC 1 cut(s) 645
BsaJI CCNNGG 2 cut(s) 143, 345
BsaWI WCCGGW 1 cut(s) 886
BsaXI ACNNNNNCTCC 2 cut(s) 723, 753
Bsc4I CCNNNNNNNGG 6 cut(s) 98, 144, 186, 505, 683, 1102
Bse118I RCCGGY 1 cut(s) 886
Bse1I ACTGG 2 cut(s) 81, 1131
Bse3DI GCAATG 2 cut(s) 784, 1078
Bse8I GATNNNNATC 1 cut(s) 645
BseBI CCWGG 1 cut(s) 105
BseDI CCNNGG 2 cut(s) 143, 345
BseGI GGATG 5 cut(s) 138, 244, 297, 564, 646
BseJI GATNNNNATC 1 cut(s) 645
BseLI CCNNNNNNNGG 6 cut(s) 98, 144, 186, 505, 683, 1102
BseMI GCAATG 2 cut(s) 784, 1078
BseMII CTCAG 3 cut(s) 255, 1007, 1113
BseNI ACTGG 2 cut(s) 81, 1131
BseRI GAGGAG 1 cut(s) 207
BseSI GKGCMC 1 cut(s) 575
BseXI GCAGC 1 cut(s) 674
Bsh1285I CGRYCG 1 cut(s) 887
BshFI GGCC 2 cut(s) 103, 573
BshTI ACCGGT 1 cut(s) 886
BsiEI CGRYCG 1 cut(s) 887
BsiHKAI GWGCWC 2 cut(s) 966, 1153
BsiSI CCGG 1 cut(s) 887
BslFI GGGAC 2 cut(s) 397, 1106
BslI CCNNNNNNNGG 6 cut(s) 98, 144, 186, 505, 683, 1102
BsmAI GTCTC 3 cut(s) 58, 766, 1054
BsmFI GGGAC 2 cut(s) 397, 1106
BsmI GAATGC 1 cut(s) 1004
BsnI GGCC 2 cut(s) 103, 573
Bsp120I GGGCCC 1 cut(s) 571
Bsp1286I GDGCHC 3 cut(s) 575, 966, 1153
Bsp1407I TGTACA 1 cut(s) 766
Bsp143I GATC 1 cut(s) 40
BspACI CCGC 5 cut(s) 458, 545, 775, 850, 988
BspANI GGCC 2 cut(s) 103, 573
BspCNI CTCAG 3 cut(s) 256, 1008, 1112
BspHI TCATGA 1 cut(s) 820
BspLI GGNNCC 3 cut(s) 573, 1094, 1095
BspMAI CTGCAG 1 cut(s) 664
BspPI GGATC 1 cut(s) 35
BspQI GCTCTTC 1 cut(s) 448
BsrBI CCGCTC 1 cut(s) 458
BsrDI GCAATG 2 cut(s) 784, 1078
BsrFI RCCGGY 1 cut(s) 886
BsrGI TGTACA 1 cut(s) 766
BsrI ACTGG 2 cut(s) 81, 1131
BssAI RCCGGY 1 cut(s) 886
BssECI CCNNGG 2 cut(s) 143, 345
BssMI GATC 1 cut(s) 40
BssNAI GTATAC 1 cut(s) 511
BssT1I CCWWGG 2 cut(s) 143, 345
Bst1107I GTATAC 1 cut(s) 511
Bst2UI CCWGG 1 cut(s) 105
Bst4CI ACNGT 1 cut(s) 416
Bst6I CTCTTC 1 cut(s) 448
BstAUI TGTACA 1 cut(s) 766
BstC8I GCNNGC 3 cut(s) 124, 660, 848
BstDEI CTNAG 6 cut(s) 234, 264, 944, 1016, 1088, 1099
BstEII GGTNACC 1 cut(s) 596
BstF5I GGATG 5 cut(s) 138, 244, 297, 564, 646
BstHHI GCGC 1 cut(s) 49
BstKTI GATC 1 cut(s) 43
BstMAI GTCTC 3 cut(s) 58, 766, 1054
BstMBI GATC 1 cut(s) 40
BstMCI CGRYCG 1 cut(s) 887
BstMWI GCNNNNNNNGC 2 cut(s) 119, 806
BstNI CCWGG 1 cut(s) 105
BstPI GGTNACC 1 cut(s) 596
BstSCI CCNGG 1 cut(s) 103
BstSFI CTRYAG 2 cut(s) 660, 801
BstSLI GKGCMC 1 cut(s) 575
BstV1I GCAGC 1 cut(s) 674
BstXI CCANNNNNNTGG 1 cut(s) 608
BstZ17I GTATAC 1 cut(s) 511
BsuI GTATCC 1 cut(s) 312
BsuRI GGCC 2 cut(s) 103, 573
BtgZI GCGATG 1 cut(s) 195
BtsCI GGATG 5 cut(s) 138, 244, 297, 564, 646
BtsIMutI CAGTG 2 cut(s) 36, 1124
Cac8I GCNNGC 3 cut(s) 124, 660, 848
CaiI CAGNNNCTG 2 cut(s) 110, 263
CciI TCATGA 1 cut(s) 820
CfoI GCGC 1 cut(s) 49
Cfr10I RCCGGY 1 cut(s) 886
Cfr13I GGNCC 6 cut(s) 4, 101, 571, 572, 880, 1093
Csp6I GTAC 2 cut(s) 74, 767
CspAI ACCGGT 1 cut(s) 886
CviAII CATG 6 cut(s) 288, 500, 554, 608, 821, 860
CviQI GTAC 2 cut(s) 74, 767
DdeI CTNAG 6 cut(s) 234, 264, 944, 1016, 1088, 1099
DpnI GATC 1 cut(s) 42
DpnII GATC 1 cut(s) 40
DraIII CACNNNGTG 1 cut(s) 815
Eam1104I CTCTTC 1 cut(s) 448
EarI CTCTTC 1 cut(s) 448
Eco130I CCWWGG 2 cut(s) 143, 345
Eco24I GRGCYC 1 cut(s) 575
Eco47I GGWCC 3 cut(s) 4, 880, 1093
Eco57I CTGAAG 1 cut(s) 1139
Eco91I GGTNACC 1 cut(s) 596
EcoO109I RGGNCCY 2 cut(s) 572, 1093
EcoO65I GGTNACC 1 cut(s) 596
EcoRII CCWGG 1 cut(s) 103
EcoT14I CCWWGG 2 cut(s) 143, 345
EcoT22I ATGCAT 2 cut(s) 1006, 1078
EcoT38I GRGCYC 1 cut(s) 575
ErhI CCWWGG 2 cut(s) 143, 345
FaeI CATG 6 cut(s) 291, 503, 557, 611, 824, 863
FaqI GGGAC 2 cut(s) 397, 1106
FatI CATG 6 cut(s) 287, 499, 553, 607, 820, 859
FauI CCCGC 1 cut(s) 538
FblI GTMKAC 2 cut(s) 510, 620
Fnu4HI GCNGC 2 cut(s) 459, 663
FokI GGATG 5 cut(s) 125, 251, 304, 571, 653
FriOI GRGCYC 1 cut(s) 575
Fsp4HI GCNGC 2 cut(s) 459, 663
FspBI CTAG 2 cut(s) 144, 704
GlaI GCGC 1 cut(s) 48
GluI GCNGC 2 cut(s) 459, 663
GsuI CTGGAG 2 cut(s) 163, 240
HaeIII GGCC 2 cut(s) 103, 573
HapII CCGG 1 cut(s) 887
HhaI GCGC 1 cut(s) 49
Hin1II CATG 6 cut(s) 291, 503, 557, 611, 824, 863
Hin6I GCGC 1 cut(s) 47
HinP1I GCGC 1 cut(s) 47
HincII GTYRAC 2 cut(s) 244, 855
HindII GTYRAC 2 cut(s) 244, 855
HinfI GANTC 4 cut(s) 251, 385, 856, 932
HpaI GTTAAC 1 cut(s) 244
HpaII CCGG 1 cut(s) 887
HphI GGTGA 4 cut(s) 608, 901, 1117, 1141
Hpy166II GTNNAC 5 cut(s) 244, 511, 621, 769, 855
Hpy188I TCNGA 5 cut(s) 430, 884, 1017, 1102, 1119
Hpy188III TCNNGA 4 cut(s) 63, 164, 371, 821
Hpy8I GTNNAC 5 cut(s) 244, 511, 621, 769, 855
HpyAV CCTTC 6 cut(s) 137, 435, 722, 862, 904, 1016
HpyCH4III ACNGT 1 cut(s) 416
HpyCH4V TGCA 4 cut(s) 662, 809, 1004, 1076
HpyF10VI GCNNNNNNNGC 2 cut(s) 119, 806
HpyF3I CTNAG 6 cut(s) 234, 264, 944, 1016, 1088, 1099
Hsp92II CATG 6 cut(s) 291, 503, 557, 611, 824, 863
HspAI GCGC 1 cut(s) 47
KflI GGGWCCC 1 cut(s) 1093
KspAI GTTAAC 1 cut(s) 244
Kzo9I GATC 1 cut(s) 40
LguI GCTCTTC 1 cut(s) 448
LmnI GCTCC 3 cut(s) 182, 731, 969
Lsp1109I GCAGC 1 cut(s) 674
LweI GCATC 3 cut(s) 184, 421, 991
MaeI CTAG 2 cut(s) 144, 704
MaeIII GTNAC 4 cut(s) 87, 596, 916, 1122
MalI GATC 1 cut(s) 42
MbiI CCGCTC 1 cut(s) 458
MboI GATC 1 cut(s) 40
MboII GAAGA 6 cut(s) 163, 198, 465, 504, 968, 1010
MfeI CAATTG 1 cut(s) 396
MhlI GDGCHC 3 cut(s) 575, 966, 1153
MluCI AATT 4 cut(s) 337, 396, 483, 895
MlyI GAGTC 3 cut(s) 245, 379, 850
MmeI TCCRAC 2 cut(s) 502, 907
MnlI CCTC 9 cut(s) 141, 225, 228, 682, 871, 1011, 1096, 1108, 1131
Mph1103I ATGCAT 2 cut(s) 1006, 1078
MseI TTAA 6 cut(s) 134, 243, 297, 645, 696, 831
MslI CAYNNNNRTG 2 cut(s) 290, 606
MspI CCGG 1 cut(s) 887
MspR9I CCNGG 1 cut(s) 105
MunI CAATTG 1 cut(s) 396
Mva1269I GAATGC 1 cut(s) 1004
MvaI CCWGG 1 cut(s) 105
MwoI GCNNNNNNNGC 2 cut(s) 119, 806
NdeII GATC 1 cut(s) 40
NlaIII CATG 6 cut(s) 291, 503, 557, 611, 824, 863
NlaIV GGNNCC 3 cut(s) 573, 1094, 1095
NmuCI GTSAC 3 cut(s) 596, 916, 1122
NsiI ATGCAT 2 cut(s) 1006, 1078
PagI TCATGA 1 cut(s) 820
PciSI GCTCTTC 1 cut(s) 448
PctI GAATGC 1 cut(s) 1004
PfeI GAWTC 1 cut(s) 932
PflMI CCANNNNNTGG 1 cut(s) 186
PinAI ACCGGT 1 cut(s) 886
PkrI GCNGC 2 cut(s) 460, 664
PleI GAGTC 3 cut(s) 245, 379, 850
PpsI GAGTC 3 cut(s) 245, 379, 850
PpuMI RGGWCCY 1 cut(s) 1093
Psp5II RGGWCCY 1 cut(s) 1093
Psp6I CCWGG 1 cut(s) 103
PspEI GGTNACC 1 cut(s) 596
PspGI CCWGG 1 cut(s) 103
PspN4I GGNNCC 3 cut(s) 573, 1094, 1095
PspOMI GGGCCC 1 cut(s) 571
PspPI GGNCC 6 cut(s) 4, 101, 571, 572, 880, 1093
PspPPI RGGWCCY 1 cut(s) 1093
PstI CTGCAG 1 cut(s) 664
PstNI CAGNNNCTG 2 cut(s) 110, 263
RsaI GTAC 2 cut(s) 75, 768
RsaNI GTAC 2 cut(s) 74, 767
RseI CAYNNNNRTG 2 cut(s) 290, 606
SapI GCTCTTC 1 cut(s) 448
SaqAI TTAA 6 cut(s) 134, 243, 297, 645, 696, 831
SatI GCNGC 2 cut(s) 459, 663
Sau3AI GATC 1 cut(s) 40
Sau96I GGNCC 6 cut(s) 4, 101, 571, 572, 880, 1093
SchI GAGTC 3 cut(s) 245, 379, 850
ScrFI CCNGG 1 cut(s) 105
SduI GDGCHC 3 cut(s) 575, 966, 1153
SfaNI GCATC 3 cut(s) 184, 421, 991
SfcI CTRYAG 2 cut(s) 660, 801
SinI GGWCC 3 cut(s) 4, 880, 1093
SmiMI CAYNNNNRTG 2 cut(s) 290, 606
Sse9I AATT 4 cut(s) 337, 396, 483, 895
SsiI CCGC 5 cut(s) 458, 545, 775, 850, 988
SspMI CTAG 2 cut(s) 144, 704
StyD4I CCNGG 1 cut(s) 103
StyI CCWWGG 2 cut(s) 143, 345
TaaI ACNGT 1 cut(s) 416
TaqI TCGA 2 cut(s) 62, 372
TasI AATT 4 cut(s) 337, 396, 483, 895
TatI WGTACW 1 cut(s) 766
TauI GCSGC 1 cut(s) 461
TfiI GAWTC 1 cut(s) 932
Tru1I TTAA 6 cut(s) 134, 243, 297, 645, 696, 831
Tru9I TTAA 6 cut(s) 134, 243, 297, 645, 696, 831
TscAI CASTG 2 cut(s) 43, 1131
TseFI GTSAC 3 cut(s) 596, 916, 1122
TseI GCWGC 1 cut(s) 662
Tsp45I GTSAC 3 cut(s) 596, 916, 1122
TspDTI ATGAA 5 cut(s) 198, 215, 546, 809, 1011
TspGWI ACGGA 2 cut(s) 294, 880
TspRI CASTG 2 cut(s) 43, 1131
Van91I CCANNNNNTGG 1 cut(s) 186
VpaK11BI GGWCC 3 cut(s) 4, 880, 1093
XmaJI CCTAGG 1 cut(s) 143
XmiI GTMKAC 2 cut(s) 510, 620
XspI CTAG 2 cut(s) 144, 704
Zsp2I ATGCAT 2 cut(s) 1006, 1078
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.