Rw1G013540

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0016322
Physical Location & Seq
Forward (+)
30296942 .. 30302022
5081 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G013540.1

Sequence Viewer

Length: 666 bp
ATGGTTAAATGTGAAGTCTTGCCTAATAAATGCACCTACCCTTTTGTTCTCAAGGCCTATGCCGGCGTCGGGGACTTGAATTTGGGGAAGTCGGTTCATGGGTCGGTGGTGAAATTCGGGTTTGGTGATGATGTCCATGTTCGGAACACCATGGTTCATATGTACTGTTGCTGCAGTGGAGGGATTGAAAGTGTACGAAAGGTGTTTGATGAAATGCCTAACTGGGACTCTGTTTCGTGGAGCGCGATGATTGGAGGGTATGTGAGGGTGGGGTGGTCTAGTGATGCGGTGGACTTGTTTAAGGAGATGCAGATGGCGGGAAGCGTCTTCAGATTCAAGTGTTTATCTATTTCTTGTGGTGAATATGTTGGAGGTCTAACTATAGTATTCTTCAGTATTGCATATGAGAAGCATGAAATAAGCACTGGTGTAGTGGTGTCAGGAGATGGAATGGAATCTTATATGCAGACCATTGTCCTCGACGGTGGAATGTCATGTCGAGGATTTGTTGGAGCTGCAACAAGAGTTCCTGGCCAGCGAGAAGATTTGGAAAAATGCAATGAGACTGCATTTACACCGTTCGAGACATCAAGACTAGATTACAATGAAGATCATGATGAACCTTATGGAAGGATTGGTGTATATGGCATGCTATGTGATGCATAG
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 PPR_3

Protein Analysis

221

Amino Acids

24.29

Weight (kDa)

5.0

Isoelectric Point (pI)

32.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 78 - 107 7.5e-08 PPR repeat
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)
AccII CGCG 1 cut(s) 245
AciI CCGC 2 cut(s) 287, 317
AcoI YGGCCR 1 cut(s) 532
AcsI RAATTY 2 cut(s) 79, 113
AcuI CTGAAG 2 cut(s) 313, 376
AcyI GRCGYC 1 cut(s) 66
AfaI GTAC 2 cut(s) 164, 195
AfiI CCNNNNNNNGG 1 cut(s) 69
AgsI TTSAA 3 cut(s) 79, 188, 337
AjnI CCWGG 1 cut(s) 529
AluBI AGCT 1 cut(s) 515
AluI AGCT 1 cut(s) 515
Alw26I GTCTC 2 cut(s) 557, 578
AoxI GGCC 2 cut(s) 54, 532
ApeKI GCWGC 2 cut(s) 171, 515
ApoI RAATTY 2 cut(s) 79, 113
AspLEI GCGC 1 cut(s) 245
AsuHPI GGTGA 3 cut(s) 121, 137, 371
BalI TGGCCA 1 cut(s) 534
BbsI GAAGAC 1 cut(s) 319
BbvI GCAGC 2 cut(s) 158, 502
BccI CCATC 2 cut(s) 307, 440
BciT130I CCWGG 1 cut(s) 531
BcoDI GTCTC 2 cut(s) 557, 578
BfaI CTAG 2 cut(s) 279, 596
BfmI CTRYAG 2 cut(s) 172, 381
BisI GCNGC 2 cut(s) 172, 516
BlsI GCNGC 2 cut(s) 173, 517
Bme1390I CCNGG 1 cut(s) 531
BmrFI CCNGG 1 cut(s) 531
BmrI ACTGGG 1 cut(s) 232
BmsI GCATC 3 cut(s) 274, 297, 649
BmuI ACTGGG 1 cut(s) 232
BoxI GACNNNNGTC 1 cut(s) 473
BpiI GAAGAC 1 cut(s) 319
BpuEI CTTGAG 1 cut(s) 35
BsaHI GRCGYC 1 cut(s) 66
BsaJI CCNNGG 1 cut(s) 150
BsaXI ACNNNNNCTCC 2 cut(s) 246, 276
Bsc4I CCNNNNNNNGG 1 cut(s) 69
Bse118I RCCGGY 1 cut(s) 62
Bse1I ACTGG 2 cut(s) 227, 430
Bse3DI GCAATG 1 cut(s) 565
BseBI CCWGG 1 cut(s) 531
BseDI CCNNGG 1 cut(s) 150
BseLI CCNNNNNNNGG 1 cut(s) 69
BseMI GCAATG 1 cut(s) 565
BseNI ACTGG 2 cut(s) 227, 430
BseXI GCAGC 2 cut(s) 158, 502
Bsh1236I CGCG 1 cut(s) 245
BshFI GGCC 2 cut(s) 56, 534
BsiSI CCGG 1 cut(s) 63
BslFI GGGAC 2 cut(s) 86, 239
BslI CCNNNNNNNGG 1 cut(s) 69
BsmAI GTCTC 2 cut(s) 557, 578
BsmFI GGGAC 2 cut(s) 86, 239
BsnI GGCC 2 cut(s) 56, 534
Bsp143I GATC 1 cut(s) 610
Bsp19I CCATGG 1 cut(s) 150
BspACI CCGC 2 cut(s) 287, 317
BspANI GGCC 2 cut(s) 56, 534
BspFNI CGCG 1 cut(s) 245
BspHI TCATGA 1 cut(s) 613
BspMAI CTGCAG 1 cut(s) 176
BsrDI GCAATG 1 cut(s) 565
BsrFI RCCGGY 1 cut(s) 62
BsrI ACTGG 2 cut(s) 227, 430
BssAI RCCGGY 1 cut(s) 62
BssECI CCNNGG 1 cut(s) 150
BssMI GATC 1 cut(s) 610
BssNI GRCGYC 1 cut(s) 66
BssT1I CCWWGG 1 cut(s) 150
Bst2UI CCWGG 1 cut(s) 531
Bst4CI ACNGT 3 cut(s) 167, 485, 579
BstACI GRCGYC 1 cut(s) 66
BstC8I GCNNGC 3 cut(s) 64, 536, 650
BstDSI CCRYGG 1 cut(s) 150
BstFNI CGCG 1 cut(s) 245
BstHHI GCGC 1 cut(s) 245
BstKTI GATC 1 cut(s) 613
BstMAI GTCTC 2 cut(s) 557, 578
BstMBI GATC 1 cut(s) 610
BstNI CCWGG 1 cut(s) 531
BstNSI RCATGY 1 cut(s) 652
BstPAI GACNNNNGTC 1 cut(s) 473
BstSCI CCNGG 1 cut(s) 529
BstSFI CTRYAG 2 cut(s) 172, 381
BstUI CGCG 1 cut(s) 245
BstV1I GCAGC 2 cut(s) 158, 502
BstV2I GAAGAC 1 cut(s) 319
BsuRI GGCC 2 cut(s) 56, 534
BtgI CCRYGG 1 cut(s) 150
BtgZI GCGATG 1 cut(s) 260
BtsI GCAGTG 1 cut(s) 181
BtsIMutI CAGTG 2 cut(s) 181, 423
Cac8I GCNNGC 3 cut(s) 64, 536, 650
CciI TCATGA 1 cut(s) 613
CfoI GCGC 1 cut(s) 245
Cfr10I RCCGGY 1 cut(s) 62
CseI GACGC 2 cut(s) 55, 313
Csp6I GTAC 2 cut(s) 163, 194
CviAII CATG 7 cut(s) 98, 137, 151, 413, 495, 614, 649
CviJI RGCY 3 cut(s) 56, 515, 534
CviKI_1 RGCY 3 cut(s) 56, 515, 534
CviQI GTAC 2 cut(s) 163, 194
DpnI GATC 1 cut(s) 612
DpnII GATC 1 cut(s) 610
EaeI YGGCCR 1 cut(s) 532
Eco130I CCWWGG 1 cut(s) 150
Eco147I AGGCCT 1 cut(s) 56
Eco57I CTGAAG 2 cut(s) 313, 376
EcoRII CCWGG 1 cut(s) 529
EcoT14I CCWWGG 1 cut(s) 150
EcoT22I ATGCAT 1 cut(s) 664
ErhI CCWWGG 1 cut(s) 150
FaeI CATG 7 cut(s) 101, 140, 154, 416, 498, 617, 652
FaqI GGGAC 2 cut(s) 86, 239
FatI CATG 7 cut(s) 97, 136, 150, 412, 494, 613, 648
FauI CCCGC 1 cut(s) 310
FauNDI CATATG 2 cut(s) 159, 403
Fnu4HI GCNGC 2 cut(s) 172, 516
Fsp4HI GCNGC 2 cut(s) 172, 516
FspBI CTAG 2 cut(s) 279, 596
GlaI GCGC 1 cut(s) 244
GluI GCNGC 2 cut(s) 172, 516
HaeIII GGCC 2 cut(s) 56, 534
HapII CCGG 1 cut(s) 63
HgaI GACGC 2 cut(s) 55, 313
HhaI GCGC 1 cut(s) 245
Hin1I GRCGYC 1 cut(s) 66
Hin1II CATG 7 cut(s) 101, 140, 154, 416, 498, 617, 652
Hin6I GCGC 1 cut(s) 243
HinP1I GCGC 1 cut(s) 243
HinfI GANTC 3 cut(s) 227, 333, 455
HpaII CCGG 1 cut(s) 63
HphI GGTGA 3 cut(s) 121, 137, 371
Hpy166II GTNNAC 2 cut(s) 194, 292
Hpy188I TCNGA 2 cut(s) 144, 332
Hpy188III TCNNGA 4 cut(s) 441, 583, 591, 614
Hpy8I GTNNAC 2 cut(s) 194, 292
Hpy99I CGWCG 2 cut(s) 71, 485
HpyAV CCTTC 1 cut(s) 624
HpyCH4III ACNGT 3 cut(s) 167, 485, 579
HpyCH4V TGCA 9 cut(s) 33, 174, 310, 401, 466, 518, 558, 569, 662
Hsp92I GRCGYC 1 cut(s) 66
Hsp92II CATG 7 cut(s) 101, 140, 154, 416, 498, 617, 652
HspAI GCGC 1 cut(s) 243
KroI GCCGGC 1 cut(s) 62
KroNI GCCGGC 1 cut(s) 64
Kzo9I GATC 1 cut(s) 610
LmnI GCTCC 2 cut(s) 240, 512
LpnPI CCDG 7 cut(s) 76, 208, 411, 426, 516, 543, 548
Lsp1109I GCAGC 2 cut(s) 158, 502
LweI GCATC 3 cut(s) 274, 297, 649
MaeI CTAG 2 cut(s) 279, 596
MalI GATC 1 cut(s) 612
MboI GATC 1 cut(s) 610
MboII GAAGA 4 cut(s) 319, 382, 554, 620
MlsI TGGCCA 1 cut(s) 534
MluCI AATT 2 cut(s) 79, 113
MluNI TGGCCA 1 cut(s) 534
MlyI GAGTC 1 cut(s) 221
MmeI TCCRAC 2 cut(s) 349, 490
MnlI CCTC 6 cut(s) 173, 248, 258, 365, 488, 494
Mox20I TGGCCA 1 cut(s) 534
Mph1103I ATGCAT 1 cut(s) 664
MroNI GCCGGC 1 cut(s) 62
MscI TGGCCA 1 cut(s) 534
MseI TTAA 2 cut(s) 6, 300
Msp20I TGGCCA 1 cut(s) 534
MspI CCGG 1 cut(s) 63
MspR9I CCNGG 1 cut(s) 531
MvaI CCWGG 1 cut(s) 531
MvnI CGCG 1 cut(s) 245
NaeI GCCGGC 1 cut(s) 64
NcoI CCATGG 1 cut(s) 150
NdeI CATATG 2 cut(s) 159, 403
NdeII GATC 1 cut(s) 610
NgoMIV GCCGGC 1 cut(s) 62
NlaIII CATG 7 cut(s) 101, 140, 154, 416, 498, 617, 652
NsiI ATGCAT 1 cut(s) 664
NspI RCATGY 1 cut(s) 652
PaeI GCATGC 1 cut(s) 652
PagI TCATGA 1 cut(s) 613
PceI AGGCCT 1 cut(s) 56
PcsI WCGNNNNNNNCGW 1 cut(s) 242
PdiI GCCGGC 1 cut(s) 64
PfeI GAWTC 2 cut(s) 333, 455
PkrI GCNGC 2 cut(s) 173, 517
PleI GAGTC 1 cut(s) 221
PpsI GAGTC 1 cut(s) 221
PshAI GACNNNNGTC 1 cut(s) 473
Psp6I CCWGG 1 cut(s) 529
PspGI CCWGG 1 cut(s) 529
PstI CTGCAG 1 cut(s) 176
RsaI GTAC 2 cut(s) 164, 195
RsaNI GTAC 2 cut(s) 163, 194
SaqAI TTAA 2 cut(s) 6, 300
SatI GCNGC 2 cut(s) 172, 516
Sau3AI GATC 1 cut(s) 610
SchI GAGTC 1 cut(s) 221
ScrFI CCNGG 1 cut(s) 531
SetI ASST 5 cut(s) 38, 204, 376, 517, 625
SfaNI GCATC 3 cut(s) 274, 297, 649
SfcI CTRYAG 2 cut(s) 172, 381
SmlI CTYRAG 1 cut(s) 50
SmoI CTYRAG 1 cut(s) 50
SphI GCATGC 1 cut(s) 652
Sse9I AATT 2 cut(s) 79, 113
SseBI AGGCCT 1 cut(s) 56
SsiI CCGC 2 cut(s) 287, 317
SspMI CTAG 2 cut(s) 279, 596
StuI AGGCCT 1 cut(s) 56
StyD4I CCNGG 1 cut(s) 529
StyI CCWWGG 1 cut(s) 150
TaaI ACNGT 3 cut(s) 167, 485, 579
TaqI TCGA 3 cut(s) 480, 499, 582
TasI AATT 2 cut(s) 79, 113
TatI WGTACW 1 cut(s) 162
TfiI GAWTC 2 cut(s) 333, 455
Tru1I TTAA 2 cut(s) 6, 300
Tru9I TTAA 2 cut(s) 6, 300
TscAI CASTG 2 cut(s) 181, 430
TseI GCWGC 2 cut(s) 171, 515
TspDTI ATGAA 6 cut(s) 86, 146, 225, 429, 621, 633
TspRI CASTG 2 cut(s) 181, 430
XapI RAATTY 2 cut(s) 79, 113
XceI RCATGY 1 cut(s) 652
XspI CTAG 2 cut(s) 279, 596
Zsp2I ATGCAT 1 cut(s) 664
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.