Rroxscaffold_3G00228220

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0001684
Physical Location & Seq
Forward (+)
12568979 .. 12569520
542 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00228220.1

Sequence Viewer

Length: 471 bp
ATGCCCAAGAGAGATGTGGTTTCTTGGACTATCATGGTGGGTGGCTATGCGCAAAGAGGTATTTGTGAAGAGGCAATGAAACTTTTCCAACAACTGCTGCAGGGCGGCGTAGCTGAGCCTAATGAGGCTACCATTGTCAATGCATTGTCAGCATGTTCATCGATTTGTGCATTGAATTCAGGCCAGCAGGTGCATTCCTACATCAGTACTCGAGGAGATCTCATGGTGAATGGCAATGTGGGAAATGCGTTAATGAACATGTATGTCAGCCTGTCAGGTGTGGAAATTGGCATGTCCATGAATGGCCATCACATCCACGTGTTGCAGCTCTTTTCCAGTATGCTAGTCAATGAGGTTTCTCCTGATGGTGTAACCTTCCTTGAGTTGTTAGCAGTATACAGTCATGCTGGCCTGGTAAATCAAGGTTTTATATTCTTTGATTATGAAGGAAGTCTACCGGATTGTCCCTGA
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

Protein Analysis

156

Amino Acids

16.8

Weight (kDa)

4.79

Isoelectric Point (pI)

37.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 4 - 52 7.3e-07 PPR repeat family
PPR PF01535 7 - 37 7.9e-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)
AarI CACCTGC 1 cut(s) 178
Acc16I TGCGCA 1 cut(s) 51
Acc36I ACCTGC 1 cut(s) 178
AccI GTMKAC 2 cut(s) 396, 454
AciI CCGC 1 cut(s) 105
AcoI YGGCCR 1 cut(s) 304
AcsI RAATTY 1 cut(s) 175
AcvI CACGTG 1 cut(s) 319
AfaI GTAC 1 cut(s) 208
AflIII ACRYGT 2 cut(s) 258, 318
AgsI TTSAA 1 cut(s) 175
AjnI CCWGG 1 cut(s) 411
AluBI AGCT 2 cut(s) 113, 328
AluI AGCT 2 cut(s) 113, 328
Ama87I CYCGRG 1 cut(s) 210
AoxI GGCC 3 cut(s) 181, 304, 409
ApeKI GCWGC 2 cut(s) 97, 325
ApoI RAATTY 1 cut(s) 175
Asp700I GAANNNNTTC 1 cut(s) 83
AspLEI GCGC 1 cut(s) 52
AsuHPI GGTGA 1 cut(s) 238
AvaI CYCGRG 1 cut(s) 210
BalI TGGCCA 1 cut(s) 306
BarI GAAGNNNNNNTAC 2 cut(s) 438, 470
BbrPI CACGTG 1 cut(s) 319
BbvI GCAGC 2 cut(s) 84, 337
BccI CCATC 2 cut(s) 315, 359
BcgI CGANNNNNNTGC 2 cut(s) 141, 175
BciT130I CCWGG 1 cut(s) 413
BfaI CTAG 1 cut(s) 344
BfmI CTRYAG 1 cut(s) 98
BfuAI ACCTGC 1 cut(s) 178
BglII AGATCT 1 cut(s) 217
BisI GCNGC 3 cut(s) 98, 106, 326
BlpI GCTNAGC 1 cut(s) 114
BlsI GCNGC 3 cut(s) 99, 107, 327
BmcAI AGTACT 1 cut(s) 208
Bme1390I CCNGG 1 cut(s) 413
BmeT110I CYCGRG 1 cut(s) 210
BmrFI CCNGG 1 cut(s) 413
BplI GAGNNNNNCTC 2 cut(s) 204, 236
Bpu1102I GCTNAGC 1 cut(s) 114
BpuEI CTTGAG 1 cut(s) 401
Bsa29I ATCGAT 1 cut(s) 161
BsaAI YACGTR 1 cut(s) 319
BsaWI WCCGGW 1 cut(s) 457
Bse1I ACTGG 1 cut(s) 336
Bse3DI GCAATG 2 cut(s) 81, 241
BseBI CCWGG 1 cut(s) 413
BseCI ATCGAT 1 cut(s) 161
BseGI GGATG 1 cut(s) 312
BseMI GCAATG 2 cut(s) 81, 241
BseMII CTCAG 1 cut(s) 105
BseNI ACTGG 1 cut(s) 336
BseRI GAGGAG 1 cut(s) 228
BseXI GCAGC 2 cut(s) 84, 337
BshFI GGCC 3 cut(s) 183, 306, 411
BshVI ATCGAT 1 cut(s) 161
BsiHKCI CYCGRG 1 cut(s) 210
BsiSI CCGG 1 cut(s) 458
BslFI GGGAC 1 cut(s) 450
BsmFI GGGAC 1 cut(s) 450
BsmI GAATGC 1 cut(s) 193
BsnI GGCC 3 cut(s) 183, 306, 411
BsoBI CYCGRG 1 cut(s) 210
Bsp143I GATC 1 cut(s) 217
Bsp1720I GCTNAGC 1 cut(s) 114
BspACI CCGC 1 cut(s) 105
BspANI GGCC 3 cut(s) 183, 306, 411
BspCNI CTCAG 1 cut(s) 106
BspDI ATCGAT 1 cut(s) 161
BspMAI CTGCAG 1 cut(s) 102
BspMI ACCTGC 1 cut(s) 178
BsrDI GCAATG 2 cut(s) 81, 241
BsrI ACTGG 1 cut(s) 336
BssMI GATC 1 cut(s) 217
BssNAI GTATAC 1 cut(s) 397
Bst1107I GTATAC 1 cut(s) 397
Bst2UI CCWGG 1 cut(s) 413
Bst4CI ACNGT 1 cut(s) 401
Bst6I CTCTTC 1 cut(s) 63
BstBAI YACGTR 1 cut(s) 319
BstC8I GCNNGC 2 cut(s) 185, 409
BstDEI CTNAG 1 cut(s) 114
BstF5I GGATG 1 cut(s) 312
BstHHI GCGC 1 cut(s) 52
BstKTI GATC 1 cut(s) 220
BstMBI GATC 1 cut(s) 217
BstMWI GCNNNNNNNGC 1 cut(s) 149
BstNI CCWGG 1 cut(s) 413
BstNSI RCATGY 3 cut(s) 156, 262, 295
BstSCI CCNGG 1 cut(s) 411
BstSFI CTRYAG 1 cut(s) 98
BstV1I GCAGC 2 cut(s) 84, 337
BstX2I RGATCY 1 cut(s) 217
BstYI RGATCY 1 cut(s) 217
BstZ17I GTATAC 1 cut(s) 397
Bsu15I ATCGAT 1 cut(s) 161
BsuRI GGCC 3 cut(s) 183, 306, 411
BsuTUI ATCGAT 1 cut(s) 161
BtsCI GGATG 1 cut(s) 312
BveI ACCTGC 1 cut(s) 178
Cac8I GCNNGC 2 cut(s) 185, 409
CfoI GCGC 1 cut(s) 52
ClaI ATCGAT 1 cut(s) 161
Csp6I GTAC 1 cut(s) 207
CviAII CATG 7 cut(s) 34, 153, 223, 259, 292, 298, 404
CviJI RGCY 9 cut(s) 45, 113, 118, 128, 183, 270, 306, 328, 411
CviKI_1 RGCY 9 cut(s) 45, 113, 118, 128, 183, 270, 306, 328, 411
CviQI GTAC 1 cut(s) 207
DdeI CTNAG 1 cut(s) 114
DpnI GATC 1 cut(s) 219
DpnII GATC 1 cut(s) 217
EaeI YGGCCR 1 cut(s) 304
Eam1104I CTCTTC 1 cut(s) 63
EarI CTCTTC 1 cut(s) 63
Eco72I CACGTG 1 cut(s) 319
Eco88I CYCGRG 1 cut(s) 210
EcoRI GAATTC 1 cut(s) 175
EcoRII CCWGG 1 cut(s) 411
EcoT22I ATGCAT 1 cut(s) 145
FaeI CATG 7 cut(s) 37, 156, 226, 262, 295, 301, 407
FaqI GGGAC 1 cut(s) 450
FatI CATG 7 cut(s) 33, 152, 222, 258, 291, 297, 403
FblI GTMKAC 2 cut(s) 396, 454
Fnu4HI GCNGC 3 cut(s) 98, 106, 326
FokI GGATG 1 cut(s) 299
Fsp4HI GCNGC 3 cut(s) 98, 106, 326
FspBI CTAG 1 cut(s) 344
FspI TGCGCA 1 cut(s) 51
GlaI GCGC 1 cut(s) 51
GluI GCNGC 3 cut(s) 98, 106, 326
HaeIII GGCC 3 cut(s) 183, 306, 411
HapII CCGG 1 cut(s) 458
HhaI GCGC 1 cut(s) 52
Hin1II CATG 7 cut(s) 37, 156, 226, 262, 295, 301, 407
Hin6I GCGC 1 cut(s) 50
HinP1I GCGC 1 cut(s) 50
HpaII CCGG 1 cut(s) 458
HphI GGTGA 1 cut(s) 238
Hpy166II GTNNAC 2 cut(s) 397, 455
Hpy188III TCNNGA 1 cut(s) 362
Hpy8I GTNNAC 2 cut(s) 397, 455
HpyAV CCTTC 2 cut(s) 385, 440
HpyCH4III ACNGT 1 cut(s) 401
HpyCH4IV ACGT 1 cut(s) 318
HpyCH4V TGCA 5 cut(s) 100, 143, 170, 193, 325
HpyF10VI GCNNNNNNNGC 1 cut(s) 149
HpyF3I CTNAG 1 cut(s) 114
HpySE526I ACGT 1 cut(s) 318
Hsp92II CATG 7 cut(s) 37, 156, 226, 262, 295, 301, 407
HspAI GCGC 1 cut(s) 50
Kzo9I GATC 1 cut(s) 217
Lsp1109I GCAGC 2 cut(s) 84, 337
MaeI CTAG 1 cut(s) 344
MaeII ACGT 1 cut(s) 318
MaeIII GTNAC 1 cut(s) 370
MalI GATC 1 cut(s) 219
MboI GATC 1 cut(s) 217
MboII GAAGA 1 cut(s) 80
MflI RGATCY 1 cut(s) 217
MlsI TGGCCA 1 cut(s) 306
MluCI AATT 2 cut(s) 175, 285
MluNI TGGCCA 1 cut(s) 306
MmeI TCCRAC 1 cut(s) 112
MnlI CCTC 5 cut(s) 50, 64, 118, 206, 346
Mox20I TGGCCA 1 cut(s) 306
Mph1103I ATGCAT 1 cut(s) 145
MroXI GAANNNNTTC 1 cut(s) 83
MscI TGGCCA 1 cut(s) 306
MseI TTAA 1 cut(s) 251
MslI CAYNNNNRTG 2 cut(s) 296, 317
Msp20I TGGCCA 1 cut(s) 306
MspI CCGG 1 cut(s) 458
MspR9I CCNGG 1 cut(s) 413
Mva1269I GAATGC 1 cut(s) 193
MvaI CCWGG 1 cut(s) 413
MwoI GCNNNNNNNGC 1 cut(s) 149
NdeII GATC 1 cut(s) 217
NlaIII CATG 7 cut(s) 37, 156, 226, 262, 295, 301, 407
NsbI TGCGCA 1 cut(s) 51
NsiI ATGCAT 1 cut(s) 145
NspI RCATGY 3 cut(s) 156, 262, 295
PaeR7I CTCGAG 1 cut(s) 210
PaqCI CACCTGC 1 cut(s) 178
PciI ACATGT 1 cut(s) 258
PctI GAATGC 1 cut(s) 193
PdmI GAANNNNTTC 1 cut(s) 83
PkrI GCNGC 3 cut(s) 99, 107, 327
PmaCI CACGTG 1 cut(s) 319
PmlI CACGTG 1 cut(s) 319
Ppu21I YACGTR 1 cut(s) 319
PscI ACATGT 1 cut(s) 258
Psp6I CCWGG 1 cut(s) 411
PspCI CACGTG 1 cut(s) 319
PspGI CCWGG 1 cut(s) 411
PspXI VCTCGAGB 1 cut(s) 210
PstI CTGCAG 1 cut(s) 102
PsuI RGATCY 1 cut(s) 217
RsaI GTAC 1 cut(s) 208
RsaNI GTAC 1 cut(s) 207
RseI CAYNNNNRTG 2 cut(s) 296, 317
SaqAI TTAA 1 cut(s) 251
SatI GCNGC 3 cut(s) 98, 106, 326
Sau3AI GATC 1 cut(s) 217
ScaI AGTACT 1 cut(s) 208
ScrFI CCNGG 1 cut(s) 413
SetI ASST 9 cut(s) 61, 115, 192, 280, 321, 330, 357, 377, 427
SfcI CTRYAG 1 cut(s) 98
Sfr274I CTCGAG 1 cut(s) 210
SlaI CTCGAG 1 cut(s) 210
SmiMI CAYNNNNRTG 2 cut(s) 296, 317
SmlI CTYRAG 2 cut(s) 210, 380
SmoI CTYRAG 2 cut(s) 210, 380
Sse9I AATT 2 cut(s) 175, 285
SsiI CCGC 1 cut(s) 105
SspMI CTAG 1 cut(s) 344
StyD4I CCNGG 1 cut(s) 411
TaaI ACNGT 1 cut(s) 401
TaiI ACGT 1 cut(s) 321
TaqI TCGA 2 cut(s) 161, 211
TasI AATT 2 cut(s) 175, 285
TatI WGTACW 1 cut(s) 206
TauI GCSGC 1 cut(s) 108
Tru1I TTAA 1 cut(s) 251
Tru9I TTAA 1 cut(s) 251
TseI GCWGC 2 cut(s) 97, 325
TspDTI ATGAA 5 cut(s) 92, 147, 269, 314, 459
XapI RAATTY 1 cut(s) 175
XceI RCATGY 3 cut(s) 156, 262, 295
XcmI CCANNNNNNNNNTGG 1 cut(s) 13
XhoI CTCGAG 1 cut(s) 210
XmiI GTMKAC 2 cut(s) 396, 454
XmnI GAANNNNTTC 1 cut(s) 83
XspI CTAG 1 cut(s) 344
ZrmI AGTACT 1 cut(s) 208
Zsp2I ATGCAT 1 cut(s) 145
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.