RLG00000025120

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0017684
Physical Location & Seq
Forward (+)
42086735 .. 42087767
1033 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025120

Sequence Viewer

Length: 444 bp
ATGCTCTGGATCCTTGACTATCTCATAGGGCTCTTCAGCTCCAAACCCAACAAAGCTGTGACCTTGACGAGCATAGTTCATGAGCTCGCCGACGCCGGCAGGCCCAATGAGGCTCTGGCCGCCTTTCGGAGCTTCATAGCGGCTGACATCATCCCAGAAAGCCAAGATTACAATGCTCTGGTTAAGGCACTCTTGGAAGACCCAGATTCTATTGAGGCTGCCAAGCAGTGCGTGCTGGACATGATGCGCGATGGACCCCGCATTATTCATGTCAGTGAAATCTCATACATGCCCGTGCATGTGGGTTTTGTGAAGCAGGGCAAGGCAGAGGAGGGGAAGGAGTTTCTAAGCAGATTAAGGCCAAGGGCTTGTGGGAGCTCAAGAAAAAGCAGTGAGGGAGGCTCTCAAGAGCCAAGAAGAATCAGAGGTTCAAAGTGTCCTTGA
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 PPR_3

Protein Analysis

148

Amino Acids

16.2

Weight (kDa)

7.73

Isoelectric Point (pI)

59.61

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0017684)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g08840
rosa_chinensis RchiOBHm_Chr3g0459091 RchiOBHm_Chr3g0459101
rosa_laevigata RLG00000025119 RLG00000025120
rosa_rugosa Rorug03G0033500
rosa_samantha Rh3AG091400 Rh3BG094500 Rh3CG094900 Rh3CG095100 Rh3DG095000
rosa_wichuraiana Rw3G007850

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 249
AciI CCGC 3 cut(s) 120, 140, 259
AclWI GGATC 2 cut(s) 4, 17
AcoI YGGCCR 1 cut(s) 117
AcuI CTGAAG 1 cut(s) 19
AcyI GRCGYC 1 cut(s) 93
AfiI CCNNNNNNNGG 1 cut(s) 126
AgsI TTSAA 1 cut(s) 432
AluBI AGCT 5 cut(s) 39, 56, 85, 132, 378
AluI AGCT 5 cut(s) 39, 56, 85, 132, 378
Alw21I GWGCWC 2 cut(s) 87, 380
AlwI GGATC 2 cut(s) 4, 17
AoxI GGCC 3 cut(s) 101, 117, 359
ApeKI GCWGC 1 cut(s) 218
AspLEI GCGC 1 cut(s) 249
AspS9I GGNCC 2 cut(s) 102, 254
AvaII GGWCC 1 cut(s) 254
BamHI GGATCC 1 cut(s) 9
BanII GRGCYC 3 cut(s) 33, 87, 380
BbsI GAAGAC 1 cut(s) 204
Bbv12I GWGCWC 2 cut(s) 87, 380
BbvI GCAGC 1 cut(s) 205
BccI CCATC 1 cut(s) 245
BisI GCNGC 3 cut(s) 120, 141, 219
BlsI GCNGC 3 cut(s) 121, 142, 220
Bme18I GGWCC 1 cut(s) 254
BmgT120I GGNCC 2 cut(s) 102, 254
BmiI GGNNCC 2 cut(s) 11, 256
BmsI GCATC 1 cut(s) 234
BpiI GAAGAC 1 cut(s) 204
BplI GAGNNNNNCTC 2 cut(s) 386, 418
BpuEI CTTGAG 2 cut(s) 364, 390
BsaHI GRCGYC 1 cut(s) 93
BsaJI CCNNGG 1 cut(s) 362
Bsc4I CCNNNNNNNGG 1 cut(s) 126
Bse118I RCCGGY 1 cut(s) 95
BseDI CCNNGG 1 cut(s) 362
BseGI GGATG 1 cut(s) 150
BseLI CCNNNNNNNGG 1 cut(s) 126
BseRI GAGGAG 1 cut(s) 344
BseXI GCAGC 1 cut(s) 205
Bsh1236I CGCG 1 cut(s) 249
BshFI GGCC 3 cut(s) 103, 119, 361
BsiHKAI GWGCWC 2 cut(s) 87, 380
BsiSI CCGG 1 cut(s) 96
BslI CCNNNNNNNGG 1 cut(s) 126
BsnI GGCC 3 cut(s) 103, 119, 361
Bsp1286I GDGCHC 3 cut(s) 33, 87, 380
Bsp143I GATC 1 cut(s) 9
BspACI CCGC 3 cut(s) 120, 140, 259
BspANI GGCC 3 cut(s) 103, 119, 361
BspFNI CGCG 1 cut(s) 249
BspHI TCATGA 1 cut(s) 79
BspLI GGNNCC 2 cut(s) 11, 256
BspPI GGATC 2 cut(s) 4, 17
BspQI GCTCTTC 1 cut(s) 38
BsrFI RCCGGY 1 cut(s) 95
BssAI RCCGGY 1 cut(s) 95
BssECI CCNNGG 1 cut(s) 362
BssMI GATC 1 cut(s) 9
BssNI GRCGYC 1 cut(s) 93
BssT1I CCWWGG 1 cut(s) 362
Bst6I CTCTTC 1 cut(s) 38
BstACI GRCGYC 1 cut(s) 93
BstAPI GCANNNNNTGC 1 cut(s) 232
BstC8I GCNNGC 4 cut(s) 87, 97, 101, 233
BstDEI CTNAG 1 cut(s) 347
BstF5I GGATG 1 cut(s) 150
BstFNI CGCG 1 cut(s) 249
BstHHI GCGC 1 cut(s) 249
BstKTI GATC 1 cut(s) 12
BstMBI GATC 1 cut(s) 9
BstMWI GCNNNNNNNGC 2 cut(s) 119, 232
BstNSI RCATGY 2 cut(s) 292, 302
BstUI CGCG 1 cut(s) 249
BstV1I GCAGC 1 cut(s) 205
BstV2I GAAGAC 1 cut(s) 204
BstX2I RGATCY 1 cut(s) 9
BstYI RGATCY 1 cut(s) 9
BsuRI GGCC 3 cut(s) 103, 119, 361
BtgZI GCGATG 1 cut(s) 264
BtsCI GGATG 1 cut(s) 150
BtsI GCAGTG 2 cut(s) 233, 397
BtsIMutI CAGTG 3 cut(s) 233, 280, 397
Cac8I GCNNGC 4 cut(s) 87, 97, 101, 233
CciI TCATGA 1 cut(s) 79
CfoI GCGC 1 cut(s) 249
Cfr10I RCCGGY 1 cut(s) 95
Cfr13I GGNCC 2 cut(s) 102, 254
CseI GACGC 1 cut(s) 101
CviAII CATG 5 cut(s) 80, 241, 269, 289, 299
DdeI CTNAG 1 cut(s) 347
DpnI GATC 1 cut(s) 11
DpnII GATC 1 cut(s) 9
EaeI YGGCCR 1 cut(s) 117
Eam1104I CTCTTC 1 cut(s) 38
EarI CTCTTC 1 cut(s) 38
Ecl136II GAGCTC 2 cut(s) 85, 378
Eco130I CCWWGG 1 cut(s) 362
Eco24I GRGCYC 3 cut(s) 33, 87, 380
Eco47I GGWCC 1 cut(s) 254
Eco53kI GAGCTC 2 cut(s) 85, 378
Eco57I CTGAAG 1 cut(s) 19
EcoICRI GAGCTC 2 cut(s) 85, 378
EcoT14I CCWWGG 1 cut(s) 362
EcoT38I GRGCYC 3 cut(s) 33, 87, 380
ErhI CCWWGG 1 cut(s) 362
FaeI CATG 5 cut(s) 83, 244, 272, 292, 302
FaiI YATR 9 cut(s) 26, 74, 81, 137, 242, 270, 286, 290, 300
FalI AAGNNNNNCTT 2 cut(s) 176, 208
FatI CATG 5 cut(s) 79, 240, 268, 288, 298
FauI CCCGC 1 cut(s) 266
Fnu4HI GCNGC 3 cut(s) 120, 141, 219
FokI GGATG 1 cut(s) 137
FriOI GRGCYC 3 cut(s) 33, 87, 380
Fsp4HI GCNGC 3 cut(s) 120, 141, 219
GlaI GCGC 1 cut(s) 248
GluI GCNGC 3 cut(s) 120, 141, 219
HaeIII GGCC 3 cut(s) 103, 119, 361
HapII CCGG 1 cut(s) 96
HgaI GACGC 1 cut(s) 101
HhaI GCGC 1 cut(s) 249
Hin1I GRCGYC 1 cut(s) 93
Hin1II CATG 5 cut(s) 83, 244, 272, 292, 302
Hin6I GCGC 1 cut(s) 247
HinP1I GCGC 1 cut(s) 247
HinfI GANTC 2 cut(s) 206, 420
HpaII CCGG 1 cut(s) 96
Hpy188I TCNGA 2 cut(s) 129, 425
Hpy188III TCNNGA 4 cut(s) 7, 80, 381, 407
Hpy99I CGWCG 1 cut(s) 95
HpyAV CCTTC 1 cut(s) 331
HpyCH4V TGCA 1 cut(s) 298
HpyF10VI GCNNNNNNNGC 2 cut(s) 119, 232
HpyF3I CTNAG 1 cut(s) 347
Hsp92I GRCGYC 1 cut(s) 93
Hsp92II CATG 5 cut(s) 83, 244, 272, 292, 302
HspAI GCGC 1 cut(s) 247
KroI GCCGGC 1 cut(s) 95
KroNI GCCGGC 1 cut(s) 97
Kzo9I GATC 1 cut(s) 9
LguI GCTCTTC 1 cut(s) 38
LmnI GCTCC 3 cut(s) 44, 129, 375
LpnPI CCDG 8 cut(s) 85, 101, 109, 164, 168, 216, 221, 302
Lsp1109I GCAGC 1 cut(s) 205
LweI GCATC 1 cut(s) 234
MaeIII GTNAC 1 cut(s) 58
MalI GATC 1 cut(s) 11
MboI GATC 1 cut(s) 9
MboII GAAGA 3 cut(s) 25, 209, 429
MflI RGATCY 1 cut(s) 9
MhlI GDGCHC 3 cut(s) 33, 87, 380
MnlI CCTC 7 cut(s) 103, 208, 322, 325, 388, 392, 419
MroNI GCCGGC 1 cut(s) 95
MseI TTAA 2 cut(s) 183, 356
MslI CAYNNNNRTG 2 cut(s) 273, 293
MspI CCGG 1 cut(s) 96
MvnI CGCG 1 cut(s) 249
MwoI GCNNNNNNNGC 2 cut(s) 119, 232
NaeI GCCGGC 1 cut(s) 97
NdeII GATC 1 cut(s) 9
NgoMIV GCCGGC 1 cut(s) 95
NlaIII CATG 5 cut(s) 83, 244, 272, 292, 302
NlaIV GGNNCC 2 cut(s) 11, 256
NmuCI GTSAC 1 cut(s) 58
NspI RCATGY 2 cut(s) 292, 302
PagI TCATGA 1 cut(s) 79
PciSI GCTCTTC 1 cut(s) 38
PdiI GCCGGC 1 cut(s) 97
PfeI GAWTC 2 cut(s) 206, 420
PkrI GCNGC 3 cut(s) 121, 142, 220
Psp124BI GAGCTC 2 cut(s) 87, 380
PspN4I GGNNCC 2 cut(s) 11, 256
PspPI GGNCC 2 cut(s) 102, 254
PsuI RGATCY 1 cut(s) 9
RseI CAYNNNNRTG 2 cut(s) 273, 293
SacI GAGCTC 2 cut(s) 87, 380
SapI GCTCTTC 1 cut(s) 38
SaqAI TTAA 2 cut(s) 183, 356
SatI GCNGC 3 cut(s) 120, 141, 219
Sau3AI GATC 1 cut(s) 9
Sau96I GGNCC 2 cut(s) 102, 254
SduI GDGCHC 3 cut(s) 33, 87, 380
SetI ASST 7 cut(s) 41, 58, 65, 87, 134, 380, 430
SfaNI GCATC 1 cut(s) 234
SinI GGWCC 1 cut(s) 254
SmiMI CAYNNNNRTG 2 cut(s) 273, 293
SmlI CTYRAG 2 cut(s) 379, 405
SmoI CTYRAG 2 cut(s) 379, 405
SsiI CCGC 3 cut(s) 120, 140, 259
SstI GAGCTC 2 cut(s) 87, 380
StyI CCWWGG 1 cut(s) 362
TauI GCSGC 2 cut(s) 122, 143
TfiI GAWTC 2 cut(s) 206, 420
Tru1I TTAA 2 cut(s) 183, 356
Tru9I TTAA 2 cut(s) 183, 356
TscAI CASTG 3 cut(s) 233, 280, 397
TseFI GTSAC 1 cut(s) 58
TseI GCWGC 1 cut(s) 218
Tsp45I GTSAC 1 cut(s) 58
TspDTI ATGAA 3 cut(s) 68, 124, 257
TspRI CASTG 3 cut(s) 233, 280, 397
VpaK11BI GGWCC 1 cut(s) 254
XceI RCATGY 2 cut(s) 292, 302
XcmI CCANNNNNNNNNTGG 1 cut(s) 112
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.