Rh5BG552100

PPR repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0018016
Physical Location & Seq
Forward (+)
87732163 .. 87733814
1652 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG552100.1

Sequence Viewer

Length: 1386 bp
ATGGTTTCCCGCCAAATTGAAGCCCTCATCCAACGGTCAAAATCAGCGGCTCATCTTCTCCAACTCCACTCTCTGGTCCTCAAAACGGGCCTCGATCACAACCCAAAGTTCGTCTCTGACTATATAAACGCGGCCAGCTCGATTTCAATCGGCTTTGCCAAGCTAGTGTTTGGTTATGTACCAATGTCTCCTCCGCCGCTGTTTGCTTGGAATTCAATCATCAGGGCCTTTGCGAAGAGCCCAGCTCCGATTGAATCGATCAACTTTTTCTTTGAGCTGCGTAGAATTGGGCTTAAACCCGACTACTTCACTTACCCTTTTGTTGTGAAAGCCTGCGGTCGATGTAAGGTGGTTGGAGTTGGTGGGTTGGTGCATTGTGTGATTATGAAAGGTGGTTTTGATTCGGATCGGTATATAGGGAATGCCCTTTTCAGAATGTATGCTGATTGCGGCGCGGTTGGGATTGCGAGGAAGGTGTTTGATGAAATGCCTGTGAGAGATGTGGTTTCTTGGAGCTCTTTGATTGCCGGATATGTTGCTTGCGACTACCCATTGGAAGCCTTAAGGGTGTTTCGAGAGATGAAGCTAGCTAATGAAAAACCAAACTCAGTCACTTTGGTAAGCTTGCTTTCTGCCTGTACCCGTTTAAACAATATTGGCACCGGGAAGTCGATTCATTGCTACGTTATCCTCCATCCCATAGAGATAGATGTTGCTCTGGGAACTGCTCTGATTGAGATGTATTCCAAGTGTGGGCATGTTGAGAAAGCCTTCCATATCTTCAATTCAATGAGTGAAAAGAATTTGCAGTCTTGGACTATTATGATTTGTGGTCTTGCCGATCATGGTCGTGGAAACGATGCTATCTTGTTGTTTTCTCGCATGGAACCAGCTGGATTGGTACCAGACAGCATGGCATTTTCTGCTATCTTGTCAGCCTGTAGCCACTTGGGCCTCCTTAATGAGGGTCGACAATTTTTCAATCAGATGGTGAGAACATATAATATTGAACCAACAATGGAACATTATGGATGCTTAGTAGATTTGCTTGGAAGAGCTGGTCTGATTGACGAAGCTTATGAAGTTATCAAAAATATGCCAATGGAGCCTAATTCAGTAATACTGCGGAGTTTCTTGGGTGCCTGTAGGAACCACAATGTAGTTTTTCCTTTTGATGATAAGTTCAGGAAAGTCCTTAAATCGGAGTCTCACCTTGGAGCAAACTATGTACTTGCAGCTAATGTATCTTCTGTCTCTGGTTGTTGGAGTGATGCTGCTGATCTGCGACTATCCATGAAACAGAAGGGTGTGGTAAAGGTTCCTGGGTGCAGTTGGGTGGAGGTGGGTGGTAGTTCATCTGGAGATATTATAAAAGAGAACGGATGA
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

461

Amino Acids

50.67

Weight (kDa)

8.44

Isoelectric Point (pI)

48.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 166 - 214 8e-10 PPR repeat family
PPR_2 PF13041 268 - 315 4.2e-07 PPR repeat family
E_motif PF20431 402 - 447 7.2e-12 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: OG0018016)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g44710
prunus_persica Prupe.6G010900_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0081411
rosa_laevigata RLG00000036932
rosa_multiflora Rmu_sc0007768.1_g000022
rosa_roxburghii Rroxscaffold_1G00002130
rosa_rugosa Rorug05G0476200
rosa_samantha Rh5BG552100 Rh5CG574700 Rh5DG561700
rosa_wichuraiana Rw5G049070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1370
Acc65I GGTACC 1 cut(s) 901
AccB1I GGYRCC 3 cut(s) 659, 901, 1139
AccB7I CCANNNNNTGG 1 cut(s) 73
AccI GTMKAC 1 cut(s) 970
AccII CGCG 2 cut(s) 131, 455
AciI CCGC 9 cut(s) 10, 47, 131, 194, 197, 336, 450, 455, 1126
AclWI GGATC 1 cut(s) 414
AcoI YGGCCR 1 cut(s) 132
AcsI RAATTY 2 cut(s) 211, 802
AfaI GTAC 4 cut(s) 180, 640, 903, 1230
AfiI CCNNNNNNNGG 5 cut(s) 73, 85, 753, 964, 1201
AflII CTTAAG 1 cut(s) 562
AgsI TTSAA 8 cut(s) 20, 147, 216, 254, 784, 789, 982, 1010
AjnI CCWGG 1 cut(s) 1321
Alw21I GWGCWC 1 cut(s) 518
Alw26I GTCTC 4 cut(s) 118, 192, 1212, 1258
AlwI GGATC 1 cut(s) 414
AoxI GGCC 4 cut(s) 88, 132, 225, 952
ApeKI GCWGC 3 cut(s) 277, 1235, 1274
ApoI RAATTY 2 cut(s) 211, 802
Asp700I GAANNNNTTC 1 cut(s) 770
Asp718I GGTACC 1 cut(s) 901
AspLEI GCGC 1 cut(s) 455
AspS9I GGNCC 4 cut(s) 76, 88, 225, 952
AsuC2I CCSGG 1 cut(s) 664
AsuHPI GGTGA 2 cut(s) 1003, 1202
AsuNHI GCTAGC 1 cut(s) 586
AvaII GGWCC 1 cut(s) 76
BanI GGYRCC 3 cut(s) 659, 901, 1139
BanII GRGCYC 2 cut(s) 242, 518
Bbv12I GWGCWC 1 cut(s) 518
BbvI GCAGC 3 cut(s) 264, 1247, 1261
BccI CCATC 2 cut(s) 702, 982
BciT130I CCWGG 1 cut(s) 1323
BcnI CCSGG 1 cut(s) 664
BcoDI GTCTC 4 cut(s) 118, 192, 1212, 1258
BfaI CTAG 2 cut(s) 164, 587
BfmI CTRYAG 2 cut(s) 940, 1144
BfrI CTTAAG 1 cut(s) 562
BglI GCCNNNNNGGC 1 cut(s) 951
BisI GCNGC 7 cut(s) 48, 132, 197, 278, 451, 1236, 1275
BlsI GCNGC 7 cut(s) 49, 133, 198, 279, 452, 1237, 1276
Bme1390I CCNGG 2 cut(s) 664, 1323
Bme18I GGWCC 1 cut(s) 76
BmgT120I GGNCC 4 cut(s) 76, 88, 225, 952
BmiI GGNNCC 7 cut(s) 661, 888, 903, 1107, 1141, 1151, 1320
BmrFI CCNGG 2 cut(s) 664, 1323
BmsI GCATC 3 cut(s) 850, 1022, 1261
BmtI GCTAGC 1 cut(s) 590
BplI GAGNNNNNCTC 2 cut(s) 229, 261
BpmI CTGGAG 1 cut(s) 1380
BpuMI CCSGG 1 cut(s) 664
Bsa29I ATCGAT 1 cut(s) 257
BsaBI GATNNNNATC 2 cut(s) 146, 405
BsaJI CCNNGG 2 cut(s) 1213, 1322
Bsc4I CCNNNNNNNGG 5 cut(s) 73, 85, 753, 964, 1201
Bse3DI GCAATG 1 cut(s) 676
Bse8I GATNNNNATC 2 cut(s) 146, 405
BseBI CCWGG 1 cut(s) 1323
BseCI ATCGAT 1 cut(s) 257
BseDI CCNNGG 2 cut(s) 1213, 1322
BseGI GGATG 3 cut(s) 27, 694, 1037
BseJI GATNNNNATC 2 cut(s) 146, 405
BseLI CCNNNNNNNGG 5 cut(s) 73, 85, 753, 964, 1201
BseMI GCAATG 1 cut(s) 676
BseMII CTCAG 1 cut(s) 621
BseRI GAGGAG 1 cut(s) 180
BseXI GCAGC 3 cut(s) 264, 1247, 1261
BseYI CCCAGC 1 cut(s) 241
BsgI GTGCAG 1 cut(s) 1348
Bsh1236I CGCG 2 cut(s) 131, 455
Bsh1285I CGRYCG 1 cut(s) 340
BshFI GGCC 4 cut(s) 90, 134, 227, 954
BshNI GGYRCC 3 cut(s) 659, 901, 1139
BshVI ATCGAT 1 cut(s) 257
BsiEI CGRYCG 1 cut(s) 340
BsiHKAI GWGCWC 1 cut(s) 518
BsiSI CCGG 2 cut(s) 528, 663
BslI CCNNNNNNNGG 5 cut(s) 73, 85, 753, 964, 1201
BsmAI GTCTC 4 cut(s) 118, 192, 1212, 1258
BsmBI CGTCTC 1 cut(s) 118
BsmI GAATGC 1 cut(s) 427
BsnI GGCC 4 cut(s) 90, 134, 227, 954
Bsp1286I GDGCHC 2 cut(s) 242, 518
Bsp143I GATC 5 cut(s) 94, 258, 406, 841, 1279
BspACI CCGC 9 cut(s) 10, 47, 131, 194, 197, 336, 450, 455, 1126
BspANI GGCC 4 cut(s) 90, 134, 227, 954
BspCNI CTCAG 1 cut(s) 620
BspDI ATCGAT 1 cut(s) 257
BspFNI CGCG 2 cut(s) 131, 455
BspLI GGNNCC 7 cut(s) 661, 888, 903, 1107, 1141, 1151, 1320
BspOI GCTAGC 1 cut(s) 590
BspPI GGATC 1 cut(s) 414
BspQI GCTCTTC 2 cut(s) 230, 1048
BspT107I GGYRCC 3 cut(s) 659, 901, 1139
BspTI CTTAAG 1 cut(s) 562
BsrDI GCAATG 1 cut(s) 676
BssECI CCNNGG 2 cut(s) 1213, 1322
BssMI GATC 5 cut(s) 94, 258, 406, 841, 1279
BssT1I CCWWGG 1 cut(s) 1213
Bst2UI CCWGG 1 cut(s) 1323
Bst4CI ACNGT 1 cut(s) 36
Bst6I CTCTTC 2 cut(s) 230, 1048
BstAFI CTTAAG 1 cut(s) 562
BstAPI GCANNNNNTGC 1 cut(s) 923
BstC8I GCNNGC 5 cut(s) 136, 334, 541, 588, 626
BstDEI CTNAG 2 cut(s) 607, 1036
BstENI CCTNNNNNAGG 1 cut(s) 962
BstF5I GGATG 3 cut(s) 27, 694, 1037
BstFNI CGCG 2 cut(s) 131, 455
BstHHI GCGC 1 cut(s) 455
BstKTI GATC 5 cut(s) 97, 261, 409, 844, 1282
BstMAI GTCTC 4 cut(s) 118, 192, 1212, 1258
BstMBI GATC 5 cut(s) 94, 258, 406, 841, 1279
BstMCI CGRYCG 1 cut(s) 340
BstMWI GCNNNNNNNGC 3 cut(s) 923, 951, 1105
BstNI CCWGG 1 cut(s) 1323
BstNSI RCATGY 1 cut(s) 761
BstSCI CCNGG 2 cut(s) 662, 1321
BstSFI CTRYAG 2 cut(s) 940, 1144
BstUI CGCG 2 cut(s) 131, 455
BstV1I GCAGC 3 cut(s) 264, 1247, 1261
Bsu15I ATCGAT 1 cut(s) 257
BsuRI GGCC 4 cut(s) 90, 134, 227, 954
BsuTUI ATCGAT 1 cut(s) 257
BtsCI GGATG 3 cut(s) 27, 694, 1037
Cac8I GCNNGC 5 cut(s) 136, 334, 541, 588, 626
CfoI GCGC 1 cut(s) 455
Cfr13I GGNCC 4 cut(s) 76, 88, 225, 952
ClaI ATCGAT 1 cut(s) 257
Csp6I GTAC 4 cut(s) 179, 639, 902, 1229
CviAII CATG 5 cut(s) 758, 845, 883, 913, 1294
CviQI GTAC 4 cut(s) 179, 639, 902, 1229
DdeI CTNAG 2 cut(s) 607, 1036
DpnI GATC 5 cut(s) 96, 260, 408, 843, 1281
DpnII GATC 5 cut(s) 94, 258, 406, 841, 1279
DraI TTTAAA 1 cut(s) 648
EaeI YGGCCR 1 cut(s) 132
Eam1104I CTCTTC 2 cut(s) 230, 1048
EarI CTCTTC 2 cut(s) 230, 1048
EciI GGCGGA 1 cut(s) 183
Ecl136II GAGCTC 1 cut(s) 516
Eco130I CCWWGG 1 cut(s) 1213
Eco24I GRGCYC 2 cut(s) 242, 518
Eco47I GGWCC 1 cut(s) 76
Eco53kI GAGCTC 1 cut(s) 516
EcoICRI GAGCTC 1 cut(s) 516
EcoNI CCTNNNNNAGG 1 cut(s) 962
EcoO109I RGGNCCY 1 cut(s) 225
EcoRI GAATTC 1 cut(s) 211
EcoRII CCWGG 1 cut(s) 1321
EcoT14I CCWWGG 1 cut(s) 1213
EcoT38I GRGCYC 2 cut(s) 242, 518
ErhI CCWWGG 1 cut(s) 1213
Esp3I CGTCTC 1 cut(s) 118
FaeI CATG 5 cut(s) 761, 848, 886, 916, 1297
FatI CATG 5 cut(s) 757, 844, 882, 912, 1293
FauI CCCGC 1 cut(s) 17
FblI GTMKAC 1 cut(s) 970
Fnu4HI GCNGC 7 cut(s) 48, 132, 197, 278, 451, 1236, 1275
FokI GGATG 3 cut(s) 14, 681, 1044
FriOI GRGCYC 2 cut(s) 242, 518
Fsp4HI GCNGC 7 cut(s) 48, 132, 197, 278, 451, 1236, 1275
FspBI CTAG 2 cut(s) 164, 587
GlaI GCGC 1 cut(s) 454
GluI GCNGC 7 cut(s) 48, 132, 197, 278, 451, 1236, 1275
GsaI CCCAGC 1 cut(s) 245
GsuI CTGGAG 1 cut(s) 1380
HaeIII GGCC 4 cut(s) 90, 134, 227, 954
HapII CCGG 2 cut(s) 528, 663
HhaI GCGC 1 cut(s) 455
Hin1II CATG 5 cut(s) 761, 848, 886, 916, 1297
Hin6I GCGC 1 cut(s) 453
HinP1I GCGC 1 cut(s) 453
HincII GTYRAC 1 cut(s) 971
HindII GTYRAC 1 cut(s) 971
HindIII AAGCTT 2 cut(s) 622, 1074
HinfI GANTC 4 cut(s) 254, 401, 673, 1205
HpaII CCGG 2 cut(s) 528, 663
HphI GGTGA 2 cut(s) 1003, 1202
Hpy166II GTNNAC 1 cut(s) 971
Hpy188I TCNGA 8 cut(s) 118, 249, 406, 434, 732, 987, 1065, 1204
Hpy188III TCNNGA 3 cut(s) 575, 1186, 1359
Hpy8I GTNNAC 1 cut(s) 971
HpyAV CCTTC 3 cut(s) 466, 781, 1297
HpyCH4III ACNGT 1 cut(s) 36
HpyCH4IV ACGT 1 cut(s) 684
HpyCH4V TGCA 4 cut(s) 373, 808, 1235, 1329
HpyF10VI GCNNNNNNNGC 3 cut(s) 923, 951, 1105
HpyF3I CTNAG 2 cut(s) 607, 1036
HpySE526I ACGT 1 cut(s) 684
Hsp92II CATG 5 cut(s) 761, 848, 886, 916, 1297
HspAI GCGC 1 cut(s) 453
KpnI GGTACC 1 cut(s) 905
Kzo9I GATC 5 cut(s) 94, 258, 406, 841, 1279
LguI GCTCTTC 2 cut(s) 230, 1048
LmnI GCTCC 4 cut(s) 250, 513, 1105, 1217
Lsp1109I GCAGC 3 cut(s) 264, 1247, 1261
LweI GCATC 3 cut(s) 850, 1022, 1261
MaeI CTAG 2 cut(s) 164, 587
MaeII ACGT 1 cut(s) 684
MaeIII GTNAC 1 cut(s) 610
MalI GATC 5 cut(s) 96, 260, 408, 843, 1281
MboI GATC 5 cut(s) 94, 258, 406, 841, 1279
MboII GAAGA 5 cut(s) 47, 247, 772, 1065, 1239
MhlI GDGCHC 2 cut(s) 242, 518
MluCI AATT 7 cut(s) 15, 211, 285, 784, 802, 974, 1111
MlyI GAGTC 1 cut(s) 1214
MmeI TCCRAC 4 cut(s) 55, 85, 334, 1244
MnlI CCTC 9 cut(s) 35, 89, 101, 201, 462, 701, 958, 965, 1333
MroXI GAANNNNTTC 1 cut(s) 770
MseI TTAA 5 cut(s) 294, 563, 647, 960, 1197
MslI CAYNNNNRTG 1 cut(s) 849
MspA1I CMGCKG 3 cut(s) 47, 199, 893
MspCI CTTAAG 1 cut(s) 562
MspI CCGG 2 cut(s) 528, 663
MspR9I CCNGG 2 cut(s) 664, 1323
MssI GTTTAAAC 1 cut(s) 648
Mva1269I GAATGC 1 cut(s) 427
MvaI CCWGG 1 cut(s) 1323
MvnI CGCG 2 cut(s) 131, 455
MwoI GCNNNNNNNGC 3 cut(s) 923, 951, 1105
NciI CCSGG 1 cut(s) 664
NdeII GATC 5 cut(s) 94, 258, 406, 841, 1279
NheI GCTAGC 1 cut(s) 586
NlaIII CATG 5 cut(s) 761, 848, 886, 916, 1297
NlaIV GGNNCC 7 cut(s) 661, 888, 903, 1107, 1141, 1151, 1320
NmuCI GTSAC 1 cut(s) 610
NspI RCATGY 1 cut(s) 761
PciSI GCTCTTC 2 cut(s) 230, 1048
PctI GAATGC 1 cut(s) 427
PdmI GAANNNNTTC 1 cut(s) 770
PfeI GAWTC 3 cut(s) 254, 401, 673
PflMI CCANNNNNTGG 1 cut(s) 73
PkrI GCNGC 7 cut(s) 49, 133, 198, 279, 452, 1237, 1276
PleI GAGTC 1 cut(s) 1213
PmeI GTTTAAAC 1 cut(s) 648
PpsI GAGTC 1 cut(s) 1213
PsiI TTATAA 1 cut(s) 1370
Psp124BI GAGCTC 1 cut(s) 518
Psp6I CCWGG 1 cut(s) 1321
PspFI CCCAGC 1 cut(s) 241
PspGI CCWGG 1 cut(s) 1321
PspN4I GGNNCC 7 cut(s) 661, 888, 903, 1107, 1141, 1151, 1320
PspPI GGNCC 4 cut(s) 76, 88, 225, 952
PvuII CAGCTG 1 cut(s) 893
RsaI GTAC 4 cut(s) 180, 640, 903, 1230
RsaNI GTAC 4 cut(s) 179, 639, 902, 1229
RseI CAYNNNNRTG 1 cut(s) 849
SacI GAGCTC 1 cut(s) 518
SalI GTCGAC 1 cut(s) 969
SapI GCTCTTC 2 cut(s) 230, 1048
SaqAI TTAA 5 cut(s) 294, 563, 647, 960, 1197
SatI GCNGC 7 cut(s) 48, 132, 197, 278, 451, 1236, 1275
Sau3AI GATC 5 cut(s) 94, 258, 406, 841, 1279
Sau96I GGNCC 4 cut(s) 76, 88, 225, 952
SchI GAGTC 1 cut(s) 1214
ScrFI CCNGG 2 cut(s) 664, 1323
SduI GDGCHC 2 cut(s) 242, 518
SfaNI GCATC 3 cut(s) 850, 1022, 1261
SfcI CTRYAG 2 cut(s) 940, 1144
SinI GGWCC 1 cut(s) 76
SmiMI CAYNNNNRTG 1 cut(s) 849
SmlI CTYRAG 1 cut(s) 562
SmoI CTYRAG 1 cut(s) 562
Sse9I AATT 7 cut(s) 15, 211, 285, 784, 802, 974, 1111
SsiI CCGC 9 cut(s) 10, 47, 131, 194, 197, 336, 450, 455, 1126
SspI AATATT 2 cut(s) 655, 1006
SspMI CTAG 2 cut(s) 164, 587
SstI GAGCTC 1 cut(s) 518
StyD4I CCNGG 2 cut(s) 662, 1321
StyI CCWWGG 1 cut(s) 1213
TaaI ACNGT 1 cut(s) 36
TaiI ACGT 1 cut(s) 687
TaqI TCGA 7 cut(s) 93, 140, 257, 340, 574, 671, 970
TasI AATT 7 cut(s) 15, 211, 285, 784, 802, 974, 1111
TatI WGTACW 1 cut(s) 1228
TauI GCSGC 4 cut(s) 50, 134, 199, 453
TfiI GAWTC 3 cut(s) 254, 401, 673
Tru1I TTAA 5 cut(s) 294, 563, 647, 960, 1197
Tru9I TTAA 5 cut(s) 294, 563, 647, 960, 1197
TseFI GTSAC 1 cut(s) 610
TseI GCWGC 3 cut(s) 277, 1235, 1274
Tsp45I GTSAC 1 cut(s) 610
TspDTI ATGAA 8 cut(s) 401, 498, 596, 609, 665, 1095, 1310, 1344
Van91I CCANNNNNTGG 1 cut(s) 73
Vha464I CTTAAG 1 cut(s) 562
VpaK11BI GGWCC 1 cut(s) 76
XagI CCTNNNNNAGG 1 cut(s) 962
XapI RAATTY 2 cut(s) 211, 802
XceI RCATGY 1 cut(s) 761
XmiI GTMKAC 1 cut(s) 970
XmnI GAANNNNTTC 1 cut(s) 770
XspI CTAG 2 cut(s) 164, 587
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.