RLG00000021307

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0013453
Physical Location & Seq
Reverse (-)
74029260 .. 74030549
1290 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000021307

Sequence Viewer

Length: 1290 bp
ATGGGCTCCTACAACACCATATCAAATTTCCAACGCTTGCTTTCTTTCACCAAGCAATTGACTTCCCACGTCAACCAAGGCAGCCATGACAAAGCCCTCACCCTCTTCCACCACATGCAAGCCTCACTCGCTCTCCCTCTCGACGCCCACGTCTTCTCTCTCGTCCTCAAGTCCTGCTCCGCCGTCCGCCGCCCCCAACTCGGCTCCGCCGTCCACGCCCACGTCACCAAATCGTCGTTCCTCTCAAACCCTTTTGTGGCCTGCGCTCTCGTTGACATGTACGGCAAATGCGTCTCGCTTTGGGCTGCACGCCATTTGTTCGATGAAATTCCTCGCAGAAATGTTGTTGTGTGGAATGCCATGATTTCGGTTTGTACCCGCAATGCTGATGTTGCTGAAGCTTTGAGGTTGTTTGAGGCTATGGATGTTGACCCTGATGTGTCTACTTATAACACCATTATAGCCGGAACGTCGGGGACGGATGATGGGTTGTTTAGGGCCGCGGAGGTGTATAGGAAAATGTGCGAAAGAGGGTGGAAGCCGGATTTGATCACACTTCTTGCTCTGTTACGTGCTTGTGTTGGTGTAGCAGCTTTTAGGTTCATTAAGGAAATTCATGGTTATGATGTAAGGAATGGGATTGACTCCCATTCGCAGTTGAGCAGCGGTTTAGTAGAGGCCTATGGGCGTTGTGGTTGTCTCGAAAATGCGCATAGTGTTTTCCGGGGTTTGAAGGAGAAGGATGTGGTGGCGTGGAGCAGTTTGATATCAGTGTATGCGGTTCATGGGGAGGCAAGAGCTGCATTTGATGTTTTTAGAGAAATGGAATCGGCGAAAGTGGTGCCTGATGAGATTACTTTTCTTGCAGTACTGAAAGCGTGTAGCCATGCTGAAGGATTAGCTGATGAAGCACTGAGTTATTTTGATTGCATGCGTAATTACGGCGTGCAATCAAACAGTGATCACTATTCTTGTTTAGTAGATGTTTTGAGCAGAGCAGGGAGGTTGTGCGAGGCGTATGAGGTCATAAAGAAGATGCCAGTGAAGGTGACTGCTAGAGCTTGGGGTGCCCTTCTTTCGGGGTGTAGAACTTATGGAAACCTGGAGCTTGCGGAGATAGCTGGGAAAGCTTTGTCCGAACTTGAGCCTGATAATCCTTCCCATTATTTATTGTTGTCAACGATTTATGTTAGCTTAGGAAGGCATGATGAAGCTCAGAGAATGAGAAGGGAAATGAGGCATAAAGGTGTGAAGGCACCGGTTGGAAGTAGTTGGACGGTTCAAGAGTGA

Protein Analysis

430

Amino Acids

47.43

Weight (kDa)

7.25

Isoelectric Point (pI)

32.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 113 - 156 2.4e-09 PPR repeat family
PPR_2 PF13041 145 - 194 1.2e-06 PPR repeat family
PPR_2 PF13041 247 - 295 1.3e-10 PPR repeat family
PPR_3 PF13812 247 - 294 1.1e-06 Pentatricopeptide repeat domain
PPR PF01535 250 - 278 7.4e-06 PPR repeat
PPR_long PF17177 251 - 350 2.1e-07 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 365 - 425 1.5e-13 E motif
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: OG0013453)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G03510
fragaria_vesca FvH4_6g44770
malus_domestica MD09G1093700.v1.1 MD17G1083400.v1.1
prunus_persica Prupe.3G231700_v2.0.a1
pyrus_communis pycom09g01890 pycom17g08120
rosa_chinensis RchiOBHm_Chr2g0161921
rosa_laevigata RLG00000021307
rosa_multiflora Rmu_sc0008565.1_g000004 Rmu_sc0018381.1_g000006
rosa_roxburghii Rroxscaffold_2G00088460
rosa_rugosa Rorug02G0493200
rosa_samantha Rh2AG559100 Rh2BG572500 Rh2CG542800 Rh2DG582300
rosa_wichuraiana Rw2G046280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 450
AasI GACNNNNNNGTC 1 cut(s) 149
Acc16I TGCGCA 1 cut(s) 711
AccB1I GGYRCC 3 cut(s) 841, 1067, 1255
AccI GTMKAC 1 cut(s) 443
AccII CGCG 1 cut(s) 503
AcsI RAATTY 3 cut(s) 25, 327, 612
AcuI CTGAAG 2 cut(s) 417, 912
AcyI GRCGYC 1 cut(s) 144
AfaI GTAC 3 cut(s) 281, 376, 870
AfiI CCNNNNNNNGG 3 cut(s) 200, 256, 1078
AflIII ACRYGT 1 cut(s) 276
AgeI ACCGGT 1 cut(s) 1258
AgsI TTSAA 2 cut(s) 733, 1283
AjiI CACGTC 3 cut(s) 70, 151, 223
AjnI CCWGG 1 cut(s) 1101
AjuI GAANNNNNNNTTGG 2 cut(s) 221, 253
Alw26I GTCTC 2 cut(s) 298, 704
AoxI GGCC 3 cut(s) 258, 498, 678
ApeKI GCWGC 5 cut(s) 81, 305, 590, 663, 800
ApoI RAATTY 3 cut(s) 25, 327, 612
AsiGI ACCGGT 1 cut(s) 1258
AspLEI GCGC 2 cut(s) 266, 712
AspS9I GGNCC 1 cut(s) 498
AsuC2I CCSGG 1 cut(s) 725
AsuHPI GGTGA 4 cut(s) 40, 91, 217, 1060
BaeGI GKGCMC 1 cut(s) 1072
BanI GGYRCC 3 cut(s) 841, 1067, 1255
BanII GRGCYC 1 cut(s) 8
BbsI GAAGAC 1 cut(s) 145
BbvI GCAGC 5 cut(s) 93, 292, 602, 675, 787
BccI CCATC 1 cut(s) 479
BceAI ACGGC 4 cut(s) 167, 194, 298, 958
BcgI CGANNNNNNTGC 2 cut(s) 823, 857
BciT130I CCWGG 1 cut(s) 1103
BclI TGATCA 2 cut(s) 549, 961
BcnI CCSGG 1 cut(s) 725
BcoDI GTCTC 2 cut(s) 298, 704
BfaI CTAG 1 cut(s) 1056
BisI GCNGC 7 cut(s) 82, 190, 306, 501, 591, 664, 801
BlsI GCNGC 7 cut(s) 83, 191, 307, 502, 592, 665, 802
BmcAI AGTACT 1 cut(s) 870
Bme1390I CCNGG 2 cut(s) 725, 1103
BmgBI CACGTC 3 cut(s) 70, 151, 223
BmgT120I GGNCC 1 cut(s) 498
BmiI GGNNCC 5 cut(s) 7, 205, 843, 1069, 1257
BmrFI CCNGG 2 cut(s) 725, 1103
BmsI GCATC 1 cut(s) 1026
BpiI GAAGAC 1 cut(s) 145
BpmI CTGGAG 1 cut(s) 1124
Bpu10I CCTNAGC 1 cut(s) 1195
BpuEI CTTGAG 2 cut(s) 152, 1163
BpuMI CCSGG 1 cut(s) 725
BsaAI YACGTR 1 cut(s) 572
BsaHI GRCGYC 1 cut(s) 144
BsaJI CCNNGG 3 cut(s) 76, 501, 724
BsaWI WCCGGW 1 cut(s) 1258
BsaXI ACNNNNNCTCC 2 cut(s) 117, 147
Bsc4I CCNNNNNNNGG 3 cut(s) 200, 256, 1078
Bse118I RCCGGY 1 cut(s) 1258
Bse1I ACTGG 1 cut(s) 1040
Bse3DI GCAATG 1 cut(s) 388
BseBI CCWGG 1 cut(s) 1103
BseDI CCNNGG 3 cut(s) 76, 501, 724
BseGI GGATG 3 cut(s) 430, 487, 748
BseLI CCNNNNNNNGG 3 cut(s) 200, 256, 1078
BseMI GCAATG 1 cut(s) 388
BseMII CTCAG 2 cut(s) 905, 1229
BseNI ACTGG 1 cut(s) 1040
BseSI GKGCMC 1 cut(s) 1072
BseXI GCAGC 5 cut(s) 93, 292, 602, 675, 787
BseYI CCCAGC 1 cut(s) 1121
BsgI GTGCAG 1 cut(s) 291
Bsh1236I CGCG 1 cut(s) 503
BshFI GGCC 3 cut(s) 260, 500, 680
BshNI GGYRCC 3 cut(s) 841, 1067, 1255
BshTI ACCGGT 1 cut(s) 1258
BsiSI CCGG 4 cut(s) 465, 542, 724, 1259
BslFI GGGAC 1 cut(s) 490
BslI CCNNNNNNNGG 3 cut(s) 200, 256, 1078
BsmAI GTCTC 2 cut(s) 298, 704
BsmBI CGTCTC 1 cut(s) 298
BsmFI GGGAC 1 cut(s) 490
BsmI GAATGC 1 cut(s) 361
BsnI GGCC 3 cut(s) 260, 500, 680
Bsp1286I GDGCHC 2 cut(s) 8, 1072
Bsp143I GATC 2 cut(s) 549, 961
BspANI GGCC 3 cut(s) 260, 500, 680
BspCNI CTCAG 2 cut(s) 906, 1228
BspFNI CGCG 1 cut(s) 503
BspLI GGNNCC 5 cut(s) 7, 205, 843, 1069, 1257
BspT107I GGYRCC 3 cut(s) 841, 1067, 1255
BsrDI GCAATG 1 cut(s) 388
BsrFI RCCGGY 1 cut(s) 1258
BsrI ACTGG 1 cut(s) 1040
BssAI RCCGGY 1 cut(s) 1258
BssECI CCNNGG 3 cut(s) 76, 501, 724
BssMI GATC 2 cut(s) 549, 961
BssNI GRCGYC 1 cut(s) 144
BssT1I CCWWGG 1 cut(s) 76
Bst2UI CCWGG 1 cut(s) 1103
Bst4CI ACNGT 2 cut(s) 959, 1279
Bst6I CTCTTC 1 cut(s) 110
BstACI GRCGYC 1 cut(s) 144
BstAPI GCANNNNNTGC 1 cut(s) 800
BstBAI YACGTR 1 cut(s) 572
BstC8I GCNNGC 7 cut(s) 38, 120, 262, 310, 932, 947, 1110
BstDEI CTNAG 3 cut(s) 914, 1195, 1215
BstDSI CCRYGG 1 cut(s) 501
BstF5I GGATG 3 cut(s) 430, 487, 748
BstFNI CGCG 1 cut(s) 503
BstHHI GCGC 2 cut(s) 266, 712
BstKTI GATC 2 cut(s) 552, 964
BstMAI GTCTC 2 cut(s) 298, 704
BstMBI GATC 2 cut(s) 549, 961
BstMWI GCNNNNNNNGC 8 cut(s) 128, 215, 392, 800, 908, 1067, 1118, 1127
BstNI CCWGG 1 cut(s) 1103
BstNSI RCATGY 3 cut(s) 118, 280, 934
BstSCI CCNGG 2 cut(s) 723, 1101
BstSLI GKGCMC 1 cut(s) 1072
BstUI CGCG 1 cut(s) 503
BstV1I GCAGC 5 cut(s) 93, 292, 602, 675, 787
BstV2I GAAGAC 1 cut(s) 145
BsuRI GGCC 3 cut(s) 260, 500, 680
BtgI CCRYGG 1 cut(s) 501
BtrI CACGTC 3 cut(s) 70, 151, 223
BtsCI GGATG 3 cut(s) 430, 487, 748
BtsIMutI CAGTG 4 cut(s) 777, 911, 964, 1047
Cac8I GCNNGC 7 cut(s) 38, 120, 262, 310, 932, 947, 1110
CfoI GCGC 2 cut(s) 266, 712
Cfr10I RCCGGY 1 cut(s) 1258
Cfr13I GGNCC 1 cut(s) 498
Cfr42I CCGCGG 1 cut(s) 504
CseI GACGC 2 cut(s) 152, 280
Csp6I GTAC 3 cut(s) 280, 375, 869
CspAI ACCGGT 1 cut(s) 1258
CviAII CATG 9 cut(s) 86, 115, 277, 361, 617, 785, 887, 931, 1205
CviQI GTAC 3 cut(s) 280, 375, 869
DdeI CTNAG 3 cut(s) 914, 1195, 1215
DpnI GATC 2 cut(s) 551, 963
DpnII GATC 2 cut(s) 549, 961
DrdI GACNNNNNNGTC 1 cut(s) 149
DseDI GACNNNNNNGTC 1 cut(s) 149
Eam1104I CTCTTC 1 cut(s) 110
EarI CTCTTC 1 cut(s) 110
EciI GGCGGA 3 cut(s) 169, 176, 196
Eco130I CCWWGG 1 cut(s) 76
Eco147I AGGCCT 1 cut(s) 680
Eco24I GRGCYC 1 cut(s) 8
Eco32I GATATC 1 cut(s) 768
Eco57I CTGAAG 2 cut(s) 417, 912
EcoRII CCWGG 1 cut(s) 1101
EcoRV GATATC 1 cut(s) 768
EcoT14I CCWWGG 1 cut(s) 76
EcoT38I GRGCYC 1 cut(s) 8
ErhI CCWWGG 1 cut(s) 76
Esp3I CGTCTC 1 cut(s) 298
FaeI CATG 9 cut(s) 89, 118, 280, 364, 620, 788, 890, 934, 1208
FaqI GGGAC 1 cut(s) 490
FatI CATG 9 cut(s) 85, 114, 276, 360, 616, 784, 886, 930, 1204
FauI CCCGC 1 cut(s) 386
FbaI TGATCA 2 cut(s) 549, 961
FblI GTMKAC 1 cut(s) 443
Fnu4HI GCNGC 7 cut(s) 82, 190, 306, 501, 591, 664, 801
FokI GGATG 3 cut(s) 437, 494, 755
FriOI GRGCYC 1 cut(s) 8
Fsp4HI GCNGC 7 cut(s) 82, 190, 306, 501, 591, 664, 801
FspAI RTGCGCAY 1 cut(s) 711
FspBI CTAG 1 cut(s) 1056
FspI TGCGCA 1 cut(s) 711
GlaI GCGC 2 cut(s) 265, 711
GluI GCNGC 7 cut(s) 82, 190, 306, 501, 591, 664, 801
GsaI CCCAGC 1 cut(s) 1125
GsuI CTGGAG 1 cut(s) 1124
HaeIII GGCC 3 cut(s) 260, 500, 680
HapII CCGG 4 cut(s) 465, 542, 724, 1259
HgaI GACGC 2 cut(s) 152, 280
HhaI GCGC 2 cut(s) 266, 712
Hin1I GRCGYC 1 cut(s) 144
Hin1II CATG 9 cut(s) 89, 118, 280, 364, 620, 788, 890, 934, 1208
Hin6I GCGC 2 cut(s) 264, 710
HinP1I GCGC 2 cut(s) 264, 710
HincII GTYRAC 4 cut(s) 73, 274, 430, 1179
HindII GTYRAC 4 cut(s) 73, 274, 430, 1179
HindIII AAGCTT 2 cut(s) 399, 1128
HinfI GANTC 2 cut(s) 644, 827
HpaII CCGG 4 cut(s) 465, 542, 724, 1259
HphI GGTGA 4 cut(s) 40, 91, 217, 1060
Hpy166II GTNNAC 6 cut(s) 73, 214, 274, 430, 444, 1179
Hpy188I TCNGA 2 cut(s) 1138, 1218
Hpy188III TCNNGA 3 cut(s) 140, 701, 1283
Hpy8I GTNNAC 6 cut(s) 73, 214, 274, 430, 444, 1179
Hpy99I CGWCG 3 cut(s) 146, 238, 475
HpyAV CCTTC 9 cut(s) 727, 733, 887, 1039, 1082, 1167, 1194, 1221, 1246
HpyCH4III ACNGT 2 cut(s) 959, 1279
HpyCH4IV ACGT 5 cut(s) 69, 150, 222, 470, 571
HpyCH4V TGCA 6 cut(s) 118, 308, 803, 866, 930, 949
HpyF10VI GCNNNNNNNGC 8 cut(s) 128, 215, 392, 800, 908, 1067, 1118, 1127
HpyF3I CTNAG 3 cut(s) 914, 1195, 1215
HpySE526I ACGT 5 cut(s) 69, 150, 222, 470, 571
Hsp92I GRCGYC 1 cut(s) 144
Hsp92II CATG 9 cut(s) 89, 118, 280, 364, 620, 788, 890, 934, 1208
HspAI GCGC 2 cut(s) 264, 710
Ksp22I TGATCA 2 cut(s) 549, 961
KspI CCGCGG 1 cut(s) 504
Kzo9I GATC 2 cut(s) 549, 961
LmnI GCTCC 5 cut(s) 11, 182, 209, 756, 1105
Lsp1109I GCAGC 5 cut(s) 93, 292, 602, 675, 787
LweI GCATC 1 cut(s) 1026
MaeI CTAG 1 cut(s) 1056
MaeII ACGT 5 cut(s) 69, 150, 222, 470, 571
MaeIII GTNAC 3 cut(s) 223, 567, 1048
MalI GATC 2 cut(s) 551, 963
MboI GATC 2 cut(s) 549, 961
MboII GAAGA 3 cut(s) 97, 145, 1045
MfeI CAATTG 1 cut(s) 56
MhlI GDGCHC 2 cut(s) 8, 1072
MluCI AATT 5 cut(s) 25, 56, 327, 612, 937
MlyI GAGTC 1 cut(s) 638
MmeI TCCRAC 3 cut(s) 55, 1243, 1253
MseI TTAA 1 cut(s) 606
MslI CAYNNNNRTG 2 cut(s) 621, 1245
MspA1I CMGCKG 2 cut(s) 503, 666
MspI CCGG 4 cut(s) 465, 542, 724, 1259
MspR9I CCNGG 2 cut(s) 725, 1103
MunI CAATTG 1 cut(s) 56
Mva1269I GAATGC 1 cut(s) 361
MvaI CCWGG 1 cut(s) 1103
MvnI CGCG 1 cut(s) 503
MwoI GCNNNNNNNGC 8 cut(s) 128, 215, 392, 800, 908, 1067, 1118, 1127
NciI CCSGG 1 cut(s) 725
NdeII GATC 2 cut(s) 549, 961
NlaIII CATG 9 cut(s) 89, 118, 280, 364, 620, 788, 890, 934, 1208
NlaIV GGNNCC 5 cut(s) 7, 205, 843, 1069, 1257
NmeAIII GCCGAG 1 cut(s) 180
NmuCI GTSAC 2 cut(s) 223, 1048
NsbI TGCGCA 1 cut(s) 711
NspI RCATGY 3 cut(s) 118, 280, 934
PaeI GCATGC 1 cut(s) 934
PceI AGGCCT 1 cut(s) 680
PciI ACATGT 1 cut(s) 276
PcsI WCGNNNNNNNCGW 3 cut(s) 147, 207, 288
PctI GAATGC 1 cut(s) 361
PfeI GAWTC 1 cut(s) 827
PinAI ACCGGT 1 cut(s) 1258
PkrI GCNGC 7 cut(s) 83, 191, 307, 502, 592, 665, 802
PleI GAGTC 1 cut(s) 638
PpsI GAGTC 1 cut(s) 638
Ppu21I YACGTR 1 cut(s) 572
PscI ACATGT 1 cut(s) 276
PsiI TTATAA 1 cut(s) 450
Psp6I CCWGG 1 cut(s) 1101
PspFI CCCAGC 1 cut(s) 1121
PspGI CCWGG 1 cut(s) 1101
PspN4I GGNNCC 5 cut(s) 7, 205, 843, 1069, 1257
PspPI GGNCC 1 cut(s) 498
RsaI GTAC 3 cut(s) 281, 376, 870
RsaNI GTAC 3 cut(s) 280, 375, 869
RseI CAYNNNNRTG 2 cut(s) 621, 1245
SacII CCGCGG 1 cut(s) 504
SaqAI TTAA 1 cut(s) 606
SatI GCNGC 7 cut(s) 82, 190, 306, 501, 591, 664, 801
Sau3AI GATC 2 cut(s) 549, 961
Sau96I GGNCC 1 cut(s) 498
ScaI AGTACT 1 cut(s) 870
SchI GAGTC 1 cut(s) 638
ScrFI CCNGG 2 cut(s) 725, 1103
SduI GDGCHC 2 cut(s) 8, 1072
SfaNI GCATC 1 cut(s) 1026
Sfr303I CCGCGG 1 cut(s) 504
SgrBI CCGCGG 1 cut(s) 504
SmiMI CAYNNNNRTG 2 cut(s) 621, 1245
SmlI CTYRAG 2 cut(s) 167, 1142
SmoI CTYRAG 2 cut(s) 167, 1142
SphI GCATGC 1 cut(s) 934
Sse9I AATT 5 cut(s) 25, 56, 327, 612, 937
SseBI AGGCCT 1 cut(s) 680
SspMI CTAG 1 cut(s) 1056
StuI AGGCCT 1 cut(s) 680
StyD4I CCNGG 2 cut(s) 723, 1101
StyI CCWWGG 1 cut(s) 76
TaaI ACNGT 2 cut(s) 959, 1279
TaiI ACGT 5 cut(s) 72, 153, 225, 473, 574
TaqI TCGA 3 cut(s) 141, 321, 702
TasI AATT 5 cut(s) 25, 56, 327, 612, 937
TatI WGTACW 1 cut(s) 868
TauI GCSGC 2 cut(s) 192, 503
TfiI GAWTC 1 cut(s) 827
Tru1I TTAA 1 cut(s) 606
Tru9I TTAA 1 cut(s) 606
TscAI CASTG 4 cut(s) 777, 918, 964, 1047
TseFI GTSAC 2 cut(s) 223, 1048
TseI GCWGC 5 cut(s) 81, 305, 590, 663, 800
Tsp45I GTSAC 2 cut(s) 223, 1048
TspDTI ATGAA 6 cut(s) 339, 592, 605, 773, 921, 1224
TspGWI ACGGA 1 cut(s) 494
TspRI CASTG 4 cut(s) 777, 918, 964, 1047
XapI RAATTY 3 cut(s) 25, 327, 612
XceI RCATGY 3 cut(s) 118, 280, 934
XmiI GTMKAC 1 cut(s) 443
XspI CTAG 1 cut(s) 1056
ZrmI AGTACT 1 cut(s) 870
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.