RLG00000025119

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0017684
Physical Location & Seq
Forward (+)
42081916 .. 42083455
1540 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025119

Sequence Viewer

Length: 1248 bp
ATGGCGGCAAGGTTGTTATCTCGGGCCCTGCGTTCTCTTGCCCCCAACTCTTTCTTCTCTAACCAACCTACTTCTCATATACCCATCTCTGCTTCTTCTTCTTCCTCTCTAATTCAACCAAAGCTTCACAAAAGGAACCTTCTGTTTTTTCCCTCCTCACCTTCTCCCACCTCTCTCACTCAACCCAATATTACTAGCATTAGGCTCTTCAGCTCCCAACCCAGCCATAAGCTCAACGACGACGTTTCTGACCAACCCAACCCCAAAGCCGTCACCCTCACCAGCATCATCCTCGAGCACGCCGAGGCCGGCCGGACCAAGGACGCTCTCGATGTCTATAAGAAATTCATCGCCGCCGGAATATTCCCAGAATATGACACTTACAATGCCCTGATCACGGCACTCGCCGCAGACCCAAAATTTGTTGGGGATGCCAGGGAGTGTGTGCTGCACATGATGACCAACGGTTTCCGCAACAGCCCAGATGTCGGTGCTTACTTGGCCGTGTACGACGGGTTTGTGAAGCAGGGCAACGCCGACGAGGGGAAGCAGTTTTTGAAGGAGATCAAAGCTAAGGGCTTGTGTAGAGTTGATGAGGAGTCTGTGAGGGAGGCTCTCAAAGACAAAGCAGATGATGAGGTTCAAGGGGTCATTGACATTCTGAAGGATGACAAGATTGGCAAGAGCACCAGACCCCTAGAGTCTTTGTATGAGACTTACACAACGGTGGACGCCTATTTCAAGAACAACACTCATGAAGATTTGCAGAACGACGAAGCCTTCTTAGAGAATGTAAAGATAGTGTACACGTTGACGATGAGACATGAGTGCAATATGATGTTTGATGCTTTGATACAAGACGGCCTCACCGAAGAGGCTATGGAGATGAGGGCCTCCATCCTAGACACGGGTAAAGTACCTGGTGTGGTCTTCTTCACCGGCTGGATTAGCTCCGTCGACCTTGTTCCAGGGAGAACAGAGGAGGCTATTGAGGTGTTCAAGCGGATGTTATCCGTCCGAATCGCGCCCAATGCATACACTTATACTGTTCTAATCAAGGCACTCACCAAAGACCCCAATTACATCGGTGATGCCAAGAAGTACTTGCTGGAAATGGTGAACAATGGAATGCGGCCCAATGCCAAGACTTACAAATCTGTGGTTGAGGCGTTTGCTGGGGCGGACAGGATCGAGGAATGCTGGGAATTAATGAAGCAGATGAAGGCCAAGGGCATTGAGCTAGATTAA
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

416

Amino Acids

46.28

Weight (kDa)

5.56

Isoelectric Point (pI)

37.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 324 - 357 5.8e-08 PPR repeat family
PPR_long PF17177 326 - 414 1.1e-08 Pentacotripeptide-repeat region of PRORP
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)
AccI GTMKAC 1 cut(s) 957
AccII CGCG 1 cut(s) 1025
AciI CCGC 7 cut(s) 5, 354, 408, 472, 1003, 1132, 1181
AclWI GGATC 1 cut(s) 1196
AcoI YGGCCR 2 cut(s) 310, 501
AcsI RAATTY 2 cut(s) 344, 419
AcuI CTGAAG 2 cut(s) 193, 683
AcyI GRCGYC 1 cut(s) 732
AfaI GTAC 4 cut(s) 509, 806, 918, 1103
AfiI CCNNNNNNNGG 5 cut(s) 319, 397, 488, 543, 907
AflIII ACRYGT 1 cut(s) 807
AgsI TTSAA 5 cut(s) 116, 559, 644, 742, 1000
AjnI CCWGG 3 cut(s) 434, 919, 967
AjuI GAANNNNNNNTTGG 2 cut(s) 38, 70
AleI CACNNNNGTG 1 cut(s) 725
AluBI AGCT 6 cut(s) 124, 213, 232, 572, 951, 1240
AluI AGCT 6 cut(s) 124, 213, 232, 572, 951, 1240
Alw21I GWGCWC 2 cut(s) 300, 689
Alw26I GTCTC 2 cut(s) 707, 814
AlwI GGATC 1 cut(s) 1196
Ama87I CYCGRG 2 cut(s) 21, 293
AoxI GGCC 8 cut(s) 24, 306, 310, 501, 862, 891, 1133, 1224
ApaI GGGCCC 1 cut(s) 28
ApeKI GCWGC 1 cut(s) 448
ApoI RAATTY 2 cut(s) 344, 419
ArsI GACNNNNNNTTYG 2 cut(s) 404, 436
AseI ATTAAT 1 cut(s) 1208
AspLEI GCGC 1 cut(s) 1027
AspS9I GGNCC 5 cut(s) 24, 25, 315, 891, 1134
AsuHPI GGTGA 8 cut(s) 150, 265, 271, 859, 928, 1057, 1100, 1129
AvaI CYCGRG 2 cut(s) 21, 293
AvaII GGWCC 1 cut(s) 315
BaeGI GKGCMC 1 cut(s) 28
BanII GRGCYC 1 cut(s) 28
BbsI GAAGAC 1 cut(s) 922
Bbv12I GWGCWC 2 cut(s) 300, 689
BbvI GCAGC 1 cut(s) 435
BccI CCATC 2 cut(s) 92, 905
BceAI ACGGC 4 cut(s) 254, 414, 488, 877
BcgI CGANNNNNNTGC 2 cut(s) 274, 308
BciT130I CCWGG 3 cut(s) 436, 921, 969
BclI TGATCA 1 cut(s) 393
BcoDI GTCTC 2 cut(s) 707, 814
BfaI CTAG 4 cut(s) 195, 698, 902, 1241
BisI GCNGC 5 cut(s) 6, 354, 408, 449, 1133
BlsI GCNGC 5 cut(s) 7, 355, 409, 450, 1134
BmcAI AGTACT 1 cut(s) 1103
Bme1390I CCNGG 3 cut(s) 436, 921, 969
Bme18I GGWCC 1 cut(s) 315
BmeT110I CYCGRG 2 cut(s) 21, 293
BmgT120I GGNCC 5 cut(s) 24, 25, 315, 891, 1134
BmiI GGNNCC 2 cut(s) 26, 137
BmrFI CCNGG 3 cut(s) 436, 921, 969
BmsI GCATC 4 cut(s) 294, 421, 835, 1081
BpiI GAAGAC 1 cut(s) 922
BplI GAGNNNNNCTC 2 cut(s) 598, 630
Bpu10I CCTNAGC 1 cut(s) 573
BsaHI GRCGYC 1 cut(s) 732
BsaJI CCNNGG 5 cut(s) 303, 318, 435, 968, 1227
Bsc4I CCNNNNNNNGG 5 cut(s) 319, 397, 488, 543, 907
Bse118I RCCGGY 2 cut(s) 308, 938
BseBI CCWGG 3 cut(s) 436, 921, 969
BseDI CCNNGG 5 cut(s) 303, 318, 435, 968, 1227
BseGI GGATG 5 cut(s) 288, 436, 673, 897, 1011
BseLI CCNNNNNNNGG 5 cut(s) 319, 397, 488, 543, 907
BseRI GAGGAG 3 cut(s) 145, 611, 995
BseSI GKGCMC 1 cut(s) 28
BseX3I CGGCCG 1 cut(s) 310
BseXI GCAGC 1 cut(s) 435
BseYI CCCAGC 3 cut(s) 221, 1175, 1200
BsgI GTGCAG 1 cut(s) 434
Bsh1236I CGCG 1 cut(s) 1025
Bsh1285I CGRYCG 1 cut(s) 313
BshFI GGCC 8 cut(s) 26, 308, 312, 503, 864, 893, 1135, 1226
BsiEI CGRYCG 1 cut(s) 313
BsiHKAI GWGCWC 2 cut(s) 300, 689
BsiHKCI CYCGRG 2 cut(s) 21, 293
BsiSI CCGG 4 cut(s) 309, 313, 357, 939
BslI CCNNNNNNNGG 5 cut(s) 319, 397, 488, 543, 907
BsmAI GTCTC 2 cut(s) 707, 814
BsmI GAATGC 2 cut(s) 1134, 1202
BsnI GGCC 8 cut(s) 26, 308, 312, 503, 864, 893, 1135, 1226
BsoBI CYCGRG 2 cut(s) 21, 293
Bsp120I GGGCCC 1 cut(s) 24
Bsp1286I GDGCHC 3 cut(s) 28, 300, 689
Bsp1407I TGTACA 1 cut(s) 804
Bsp143I GATC 3 cut(s) 393, 564, 1188
BspACI CCGC 7 cut(s) 5, 354, 408, 472, 1003, 1132, 1181
BspANI GGCC 8 cut(s) 26, 308, 312, 503, 864, 893, 1135, 1226
BspFNI CGCG 1 cut(s) 1025
BspHI TCATGA 1 cut(s) 754
BspLI GGNNCC 2 cut(s) 26, 137
BspPI GGATC 1 cut(s) 1196
BspQI GCTCTTC 1 cut(s) 212
BsrFI RCCGGY 2 cut(s) 308, 938
BsrGI TGTACA 1 cut(s) 804
BssAI RCCGGY 2 cut(s) 308, 938
BssECI CCNNGG 5 cut(s) 303, 318, 435, 968, 1227
BssMI GATC 3 cut(s) 393, 564, 1188
BssNI GRCGYC 1 cut(s) 732
BssT1I CCWWGG 2 cut(s) 318, 1227
Bst2UI CCWGG 3 cut(s) 436, 921, 969
Bst4CI ACNGT 3 cut(s) 467, 727, 1048
Bst6I CTCTTC 2 cut(s) 212, 867
BstACI GRCGYC 1 cut(s) 732
BstAUI TGTACA 1 cut(s) 804
BstC8I GCNNGC 2 cut(s) 300, 310
BstDEI CTNAG 2 cut(s) 573, 784
BstF5I GGATG 5 cut(s) 288, 436, 673, 897, 1011
BstFNI CGCG 1 cut(s) 1025
BstHHI GCGC 1 cut(s) 1027
BstKTI GATC 3 cut(s) 396, 567, 1191
BstMAI GTCTC 2 cut(s) 707, 814
BstMBI GATC 3 cut(s) 393, 564, 1188
BstMCI CGRYCG 1 cut(s) 313
BstMWI GCNNNNNNNGC 4 cut(s) 407, 500, 948, 1031
BstNI CCWGG 3 cut(s) 436, 921, 969
BstSCI CCNGG 3 cut(s) 434, 919, 967
BstSLI GKGCMC 1 cut(s) 28
BstUI CGCG 1 cut(s) 1025
BstV1I GCAGC 1 cut(s) 435
BstV2I GAAGAC 1 cut(s) 922
BstZI CGGCCG 1 cut(s) 310
BsuRI GGCC 8 cut(s) 26, 308, 312, 503, 864, 893, 1135, 1226
BtgZI GCGATG 1 cut(s) 334
BtsCI GGATG 5 cut(s) 288, 436, 673, 897, 1011
Cac8I GCNNGC 2 cut(s) 300, 310
CciI TCATGA 1 cut(s) 754
CfoI GCGC 1 cut(s) 1027
Cfr10I RCCGGY 2 cut(s) 308, 938
Cfr13I GGNCC 5 cut(s) 24, 25, 315, 891, 1134
CseI GACGC 2 cut(s) 332, 740
CsiI ACCWGGT 1 cut(s) 919
Csp6I GTAC 4 cut(s) 508, 805, 917, 1102
CviAII CATG 3 cut(s) 454, 755, 824
CviQI GTAC 4 cut(s) 508, 805, 917, 1102
DdeI CTNAG 2 cut(s) 573, 784
DpnI GATC 3 cut(s) 395, 566, 1190
DpnII GATC 3 cut(s) 393, 564, 1188
EaeI YGGCCR 2 cut(s) 310, 501
EagI CGGCCG 1 cut(s) 310
Eam1104I CTCTTC 2 cut(s) 212, 867
EarI CTCTTC 2 cut(s) 212, 867
EciI GGCGGA 1 cut(s) 1196
EclXI CGGCCG 1 cut(s) 310
Eco130I CCWWGG 2 cut(s) 318, 1227
Eco24I GRGCYC 1 cut(s) 28
Eco47I GGWCC 1 cut(s) 315
Eco52I CGGCCG 1 cut(s) 310
Eco57I CTGAAG 2 cut(s) 193, 683
Eco88I CYCGRG 2 cut(s) 21, 293
EcoO109I RGGNCCY 2 cut(s) 25, 891
EcoRII CCWGG 3 cut(s) 434, 919, 967
EcoT14I CCWWGG 2 cut(s) 318, 1227
EcoT22I ATGCAT 1 cut(s) 1036
EcoT38I GRGCYC 1 cut(s) 28
ErhI CCWWGG 2 cut(s) 318, 1227
FaeI CATG 3 cut(s) 457, 758, 827
FalI AAGNNNNNCTT 2 cut(s) 1088, 1120
FatI CATG 3 cut(s) 453, 754, 823
FbaI TGATCA 1 cut(s) 393
FblI GTMKAC 1 cut(s) 957
Fnu4HI GCNGC 5 cut(s) 6, 354, 408, 449, 1133
FokI GGATG 5 cut(s) 275, 443, 680, 884, 1018
FriOI GRGCYC 1 cut(s) 28
FseI GGCCGGCC 1 cut(s) 312
Fsp4HI GCNGC 5 cut(s) 6, 354, 408, 449, 1133
FspBI CTAG 4 cut(s) 195, 698, 902, 1241
GlaI GCGC 1 cut(s) 1026
GluI GCNGC 5 cut(s) 6, 354, 408, 449, 1133
GsaI CCCAGC 3 cut(s) 225, 1179, 1204
HaeIII GGCC 8 cut(s) 26, 308, 312, 503, 864, 893, 1135, 1226
HapII CCGG 4 cut(s) 309, 313, 357, 939
HgaI GACGC 2 cut(s) 332, 740
HhaI GCGC 1 cut(s) 1027
Hin1I GRCGYC 1 cut(s) 732
Hin1II CATG 3 cut(s) 457, 758, 827
Hin6I GCGC 1 cut(s) 1025
HinP1I GCGC 1 cut(s) 1025
HincII GTYRAC 2 cut(s) 813, 958
HindII GTYRAC 2 cut(s) 813, 958
HindIII AAGCTT 1 cut(s) 122
HinfI GANTC 3 cut(s) 599, 701, 1020
HpaII CCGG 4 cut(s) 309, 313, 357, 939
HphI GGTGA 8 cut(s) 150, 265, 271, 859, 928, 1057, 1100, 1129
Hpy166II GTNNAC 7 cut(s) 508, 730, 805, 807, 813, 958, 1120
Hpy188I TCNGA 3 cut(s) 250, 663, 1019
Hpy188III TCNNGA 3 cut(s) 329, 742, 755
Hpy8I GTNNAC 7 cut(s) 508, 730, 805, 807, 813, 958, 1120
Hpy99I CGWCG 6 cut(s) 242, 245, 515, 542, 776, 959
HpyAV CCTTC 6 cut(s) 149, 171, 553, 658, 790, 1216
HpyCH4III ACNGT 3 cut(s) 467, 727, 1048
HpyCH4IV ACGT 2 cut(s) 243, 809
HpyCH4V TGCA 4 cut(s) 451, 766, 831, 1034
HpyF10VI GCNNNNNNNGC 4 cut(s) 407, 500, 948, 1031
HpyF3I CTNAG 2 cut(s) 573, 784
HpySE526I ACGT 2 cut(s) 243, 809
Hsp92I GRCGYC 1 cut(s) 732
Hsp92II CATG 3 cut(s) 457, 758, 827
HspAI GCGC 1 cut(s) 1025
KroI GCCGGC 1 cut(s) 308
KroNI GCCGGC 1 cut(s) 310
Ksp22I TGATCA 1 cut(s) 393
Kzo9I GATC 3 cut(s) 393, 564, 1188
LguI GCTCTTC 1 cut(s) 212
LmnI GCTCC 2 cut(s) 218, 956
Lsp1109I GCAGC 1 cut(s) 435
LweI GCATC 4 cut(s) 294, 421, 835, 1081
MabI ACCWGGT 1 cut(s) 919
MaeI CTAG 4 cut(s) 195, 698, 902, 1241
MaeII ACGT 2 cut(s) 243, 809
MaeIII GTNAC 1 cut(s) 271
MalI GATC 3 cut(s) 395, 566, 1190
MboI GATC 3 cut(s) 393, 564, 1188
MboII GAAGA 9 cut(s) 46, 87, 90, 93, 199, 770, 884, 922, 925
MhlI GDGCHC 3 cut(s) 28, 300, 689
MluCI AATT 5 cut(s) 111, 344, 419, 1078, 1205
MlyI GAGTC 2 cut(s) 608, 710
Mph1103I ATGCAT 1 cut(s) 1036
MroNI GCCGGC 1 cut(s) 308
MseI TTAA 2 cut(s) 1208, 1246
MslI CAYNNNNRTG 1 cut(s) 725
MspI CCGG 4 cut(s) 309, 313, 357, 939
MspR9I CCNGG 3 cut(s) 436, 921, 969
Mva1269I GAATGC 2 cut(s) 1134, 1202
MvaI CCWGG 3 cut(s) 436, 921, 969
MvnI CGCG 1 cut(s) 1025
MwoI GCNNNNNNNGC 4 cut(s) 407, 500, 948, 1031
NaeI GCCGGC 1 cut(s) 310
NdeII GATC 3 cut(s) 393, 564, 1188
NgoMIV GCCGGC 1 cut(s) 308
NlaIII CATG 3 cut(s) 457, 758, 827
NlaIV GGNNCC 2 cut(s) 26, 137
NmeAIII GCCGAG 1 cut(s) 328
NmuCI GTSAC 1 cut(s) 271
NsiI ATGCAT 1 cut(s) 1036
OliI CACNNNNGTG 1 cut(s) 725
PaeR7I CTCGAG 1 cut(s) 293
PagI TCATGA 1 cut(s) 754
PciSI GCTCTTC 1 cut(s) 212
PcsI WCGNNNNNNNCGW 3 cut(s) 28, 300, 867
PctI GAATGC 2 cut(s) 1134, 1202
PdiI GCCGGC 1 cut(s) 310
PfeI GAWTC 1 cut(s) 1020
PkrI GCNGC 5 cut(s) 7, 355, 409, 450, 1134
PleI GAGTC 2 cut(s) 607, 709
PpsI GAGTC 2 cut(s) 607, 709
PshBI ATTAAT 1 cut(s) 1208
Psp6I CCWGG 3 cut(s) 434, 919, 967
PspFI CCCAGC 3 cut(s) 221, 1175, 1200
PspGI CCWGG 3 cut(s) 434, 919, 967
PspN4I GGNNCC 2 cut(s) 26, 137
PspOMI GGGCCC 1 cut(s) 24
PspPI GGNCC 5 cut(s) 24, 25, 315, 891, 1134
PspXI VCTCGAGB 1 cut(s) 293
RigI GGCCGGCC 1 cut(s) 312
RsaI GTAC 4 cut(s) 509, 806, 918, 1103
RsaNI GTAC 4 cut(s) 508, 805, 917, 1102
RseI CAYNNNNRTG 1 cut(s) 725
SalI GTCGAC 1 cut(s) 956
SapI GCTCTTC 1 cut(s) 212
SaqAI TTAA 2 cut(s) 1208, 1246
SatI GCNGC 5 cut(s) 6, 354, 408, 449, 1133
Sau3AI GATC 3 cut(s) 393, 564, 1188
Sau96I GGNCC 5 cut(s) 24, 25, 315, 891, 1134
ScaI AGTACT 1 cut(s) 1103
SchI GAGTC 2 cut(s) 608, 710
ScrFI CCNGG 3 cut(s) 436, 921, 969
SduI GDGCHC 3 cut(s) 28, 300, 689
SexAI ACCWGGT 1 cut(s) 919
SfaNI GCATC 4 cut(s) 294, 421, 835, 1081
Sfr274I CTCGAG 1 cut(s) 293
SinI GGWCC 1 cut(s) 315
SlaI CTCGAG 1 cut(s) 293
SmiMI CAYNNNNRTG 1 cut(s) 725
SmlI CTYRAG 1 cut(s) 293
SmoI CTYRAG 1 cut(s) 293
Sse9I AATT 5 cut(s) 111, 344, 419, 1078, 1205
SsiI CCGC 7 cut(s) 5, 354, 408, 472, 1003, 1132, 1181
SspI AATATT 2 cut(s) 190, 363
SspMI CTAG 4 cut(s) 195, 698, 902, 1241
StyD4I CCNGG 3 cut(s) 434, 919, 967
StyI CCWWGG 2 cut(s) 318, 1227
TaaI ACNGT 3 cut(s) 467, 727, 1048
TaiI ACGT 2 cut(s) 246, 812
TaqI TCGA 4 cut(s) 294, 330, 957, 1191
TasI AATT 5 cut(s) 111, 344, 419, 1078, 1205
TatI WGTACW 2 cut(s) 804, 1101
TauI GCSGC 4 cut(s) 8, 356, 410, 1135
TfiI GAWTC 1 cut(s) 1020
Tru1I TTAA 2 cut(s) 1208, 1246
Tru9I TTAA 2 cut(s) 1208, 1246
TseFI GTSAC 1 cut(s) 271
TseI GCWGC 1 cut(s) 448
Tsp45I GTSAC 1 cut(s) 271
TspDTI ATGAA 4 cut(s) 337, 771, 1226, 1235
TspGWI ACGGA 2 cut(s) 943, 1003
VpaK11BI GGWCC 1 cut(s) 315
VspI ATTAAT 1 cut(s) 1208
XapI RAATTY 2 cut(s) 344, 419
XhoI CTCGAG 1 cut(s) 293
XmiI GTMKAC 1 cut(s) 957
XspI CTAG 4 cut(s) 195, 698, 902, 1241
ZrmI AGTACT 1 cut(s) 1103
Zsp2I ATGCAT 1 cut(s) 1036
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.