Rh5CG178200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0014691
Physical Location & Seq
Reverse (-)
17319782 .. 17321356
1575 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG178200.1

Sequence Viewer

Length: 1575 bp
ATGAATGGGTTAGCTAGACAAGCAGAGCTTTTAGTTTCACGAACCGAATGCTTTAATTTATGGACGTTTTTCATTAGGGGTAGAAGAACATACACGAAACCCCATTACAGAAACTCCTATGATTACACAGACTTGCTTCAACATTGCAGGAACACCAAATCAATCAAGAAACTCCACGCCCAGATCATCATCGGAGGTCTACACCAAAACCCATATGTGGCTTCAAAGCTAGTAGGCAAGTACGTGGAGTGTGGTGACTCAAGTATGGGAGATGCACGGAAGGTGTTCGATGAATTGACTGAGAGAGATGTGTTTGTATGGAACATGGTCATTCAGGGTTATGCAAATGTTGGTCCTTTTGCTGAGGCCCTTAAAATGTGTAATAGAATGAGGCTGAGTGGGTTATCCCCAAATCGGTATACTTACCCTTTTGTGCTTAAGGCTTGTGGAGCAATGAGAGATGGAAAGCAGGGTCAGGTTGTTCATGGGCAGATTGTGAAATCTGGGCTTGACTTGCAGTTGTTTGTGGGGAATGCTCTTGTGGCATTGTATTCTAAGTGTGAGGAAGTTGAGGTATCGAGAAGAGTGTTCGATGAATTGCCTCTGAAAGATCTTGTTAGTTGGAATTCCATGATTTCGGGGTATGCCACGAATGGATACCCGAATGAGGCTGTTGAAATTTTTCGTGCAATGATACAAGGTCCTACTACATGCTTGCCTGACCATGCCACTCTGGTTTGCGTGCTTCCGGCTTGTATTGAAGCATCTGCTATTGAAGTTGGGTTTTGGATTCATTCTTACATTGTGAAGGCGAGTATAAAAGTTGACTCTGCTTTGGGCAGTGCTCTCATTTCAATGTATGCAAACTGTGGTCGCGTAAGAGTTTCCAGAGTTATCTTTGATCGAGTAAGTGATAAGAATGTGGTGCTGTGGAGCGCCATGATGAGGTGTTATGGAATGCATGGGCACACAGACGAGGTGCTTCAGATGTTTTTGCAGTTTGAGGAGTCCGGTTTATACCCAGATGCTGTTGTGGTTTTGTGTTTATTGTCCACTTGTAGTCACGCAGGGATGGTTTCAAAAGGCTTGGAAATTTTTGAAAAAATGGAAGATTACGGAGTAGAGAAAAACGAGAAGCATTATGCTTGCATTGTAGACCTTCTGGGAAGAGCTGGGTTAATTGACCGGGCAGTCAAGTTTATTGAAAGCATGCCCATACAGCCAGGGAAAGATGTATACGGTGCACTACTTGGAGCTTGTAGGATACATAATAACATAGAACTTGCCGAAGAAACTGCAGAGAAATTGTTTGTTTTGGATCCTGGAAATGCTGGGAGGTATATTCTTCTGGCCAGCATGTATGAAGATGCAGGGCGATGGGAAGATGCAGCTAGAGTGAGGAGGCTAATCAGAGAGAAGAACATCAAGAAGCCAACTGGACGTAGTTCGATTGAGGTGGATTGCATCTATCACACATTTGGAGCTGATGATGAGTCTCACCCATATACAGACCAGATATTTGACACATTGGAGAGAATGGATAGGATAATGGAAGAAGCCATAGTAATGGTTTAG
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

Protein Analysis

524

Amino Acids

58.97

Weight (kDa)

6.3

Isoelectric Point (pI)

42.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 102 - 149 1.3e-10 PPR repeat family
PPR_3 PF13812 102 - 151 8e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 204 - 252 2.2e-06 PPR repeat family
PPR PF01535 206 - 232 1.3e-07 PPR repeat
E_motif PF20431 423 - 485 5.2e-15 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: OG0014691)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g13960
malus_domestica MD05G1239500.v1.1 MD10G1217700.v1.1
prunus_persica Prupe.4G126300_v2.0.a1
pyrus_communis pycom05g21580 pycom10g18360
rosa_chinensis RchiOBHm_Chr5g0023171
rosa_laevigata RLG00000032705
rosa_multiflora Rmu_sc0007300.1_g000014
rosa_roxburghii Rroxscaffold_1G00056170
rosa_rugosa Rorug05G0077700
rosa_samantha Rh5AG163900 Rh5BG163200 Rh5CG178200 Rh5DG164600
rosa_wichuraiana Rw0G018300 Rw5G014790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1190
AccI GTMKAC 4 cut(s) 199, 419, 1155, 1236
AccII CGCG 1 cut(s) 876
AclWI GGATC 2 cut(s) 1313, 1326
AcoI YGGCCR 1 cut(s) 1350
AcsI RAATTY 3 cut(s) 625, 678, 1092
AcuI CTGAAG 1 cut(s) 968
AfaI GTAC 1 cut(s) 242
AfiI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
AflII CTTAAG 1 cut(s) 437
AgsI TTSAA 9 cut(s) 140, 225, 677, 761, 776, 855, 1080, 1100, 1205
AjnI CCWGG 2 cut(s) 1222, 1321
AluBI AGCT 7 cut(s) 14, 28, 229, 1172, 1256, 1391, 1484
AluI AGCT 7 cut(s) 14, 28, 229, 1172, 1256, 1391, 1484
Alw21I GWGCWC 2 cut(s) 847, 1246
Alw26I GTCTC 1 cut(s) 1500
Alw44I GTGCAC 1 cut(s) 1242
AlwI GGATC 2 cut(s) 1313, 1326
AlwNI CAGNNNCTG 1 cut(s) 1028
AoxI GGCC 2 cut(s) 366, 1350
ApaLI GTGCAC 1 cut(s) 1242
ApeKI GCWGC 1 cut(s) 1388
ApoI RAATTY 3 cut(s) 625, 678, 1092
ArsI GACNNNNNNTTYG 2 cut(s) 1502, 1534
Asp700I GAANNNNTTC 2 cut(s) 284, 681
AspLEI GCGC 1 cut(s) 938
AspS9I GGNCC 3 cut(s) 353, 367, 701
AsuC2I CCSGG 1 cut(s) 1187
AsuHPI GGTGA 2 cut(s) 266, 1490
AvaII GGWCC 2 cut(s) 353, 701
BaeGI GKGCMC 2 cut(s) 969, 1246
BalI TGGCCA 1 cut(s) 1352
BamHI GGATCC 1 cut(s) 1318
Bbv12I GWGCWC 2 cut(s) 847, 1246
BbvCI CCTCAGC 1 cut(s) 363
BbvI GCAGC 1 cut(s) 1400
BccI CCATC 3 cut(s) 455, 1066, 1371
BcgI CGANNNNNNTGC 4 cut(s) 30, 64, 1277, 1311
BciT130I CCWGG 2 cut(s) 1224, 1323
BciVI GTATCC 2 cut(s) 650, 1257
BcnI CCSGG 1 cut(s) 1187
BcoDI GTCTC 1 cut(s) 1500
BfaI CTAG 3 cut(s) 15, 230, 1392
BfmI CTRYAG 1 cut(s) 1296
BfoI RGCGCY 1 cut(s) 939
BfrI CTTAAG 1 cut(s) 437
BfuI GTATCC 2 cut(s) 650, 1257
BglII AGATCT 1 cut(s) 610
BisI GCNGC 1 cut(s) 1389
BlsI GCNGC 1 cut(s) 1390
Bme1390I CCNGG 3 cut(s) 1187, 1224, 1323
Bme18I GGWCC 2 cut(s) 353, 701
BmgT120I GGNCC 3 cut(s) 353, 367, 701
BmiI GGNNCC 1 cut(s) 1320
BmrFI CCNGG 3 cut(s) 1187, 1224, 1323
BmsI GCATC 6 cut(s) 262, 773, 1015, 1357, 1375, 1473
Bpu10I CCTNAGC 1 cut(s) 363
BpuEI CTTGAG 1 cut(s) 244
BpuMI CCSGG 1 cut(s) 1187
BsaAI YACGTR 1 cut(s) 244
BsaBI GATNNNNATC 1 cut(s) 188
BsaJI CCNNGG 1 cut(s) 1223
BsaWI WCCGGW 1 cut(s) 1010
BsaXI ACNNNNNCTCC 2 cut(s) 98, 128
Bsc4I CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
Bse1I ACTGG 1 cut(s) 1441
Bse3DI GCAATG 3 cut(s) 142, 459, 696
Bse8I GATNNNNATC 1 cut(s) 188
BseBI CCWGG 2 cut(s) 1224, 1323
BseDI CCNNGG 1 cut(s) 1223
BseGI GGATG 1 cut(s) 1077
BseJI GATNNNNATC 1 cut(s) 188
BseLI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
BseMI GCAATG 3 cut(s) 142, 459, 696
BseMII CTCAG 3 cut(s) 291, 354, 386
BseNI ACTGG 1 cut(s) 1441
BseRI GAGGAG 2 cut(s) 1019, 1414
BseSI GKGCMC 2 cut(s) 969, 1246
BseXI GCAGC 1 cut(s) 1400
BseYI CCCAGC 2 cut(s) 1172, 1331
Bsh1236I CGCG 1 cut(s) 876
BshFI GGCC 2 cut(s) 368, 1352
BsiHKAI GWGCWC 2 cut(s) 847, 1246
BsiSI CCGG 3 cut(s) 749, 1011, 1186
BslI CCNNNNNNNGG 4 cut(s) 217, 414, 667, 945
BsmAI GTCTC 1 cut(s) 1500
BsmI GAATGC 3 cut(s) 53, 538, 963
BsnI GGCC 2 cut(s) 368, 1352
Bsp1286I GDGCHC 3 cut(s) 847, 969, 1246
Bsp143I GATC 4 cut(s) 183, 610, 901, 1318
BspANI GGCC 2 cut(s) 368, 1352
BspCNI CTCAG 3 cut(s) 292, 355, 387
BspFNI CGCG 1 cut(s) 876
BspLI GGNNCC 1 cut(s) 1320
BspMAI CTGCAG 1 cut(s) 1300
BspPI GGATC 2 cut(s) 1313, 1326
BspQI GCTCTTC 1 cut(s) 1162
BspTI CTTAAG 1 cut(s) 437
BsrDI GCAATG 3 cut(s) 142, 459, 696
BsrI ACTGG 1 cut(s) 1441
BssECI CCNNGG 1 cut(s) 1223
BssMI GATC 4 cut(s) 183, 610, 901, 1318
BssNAI GTATAC 2 cut(s) 420, 1237
Bst1107I GTATAC 2 cut(s) 420, 1237
Bst2UI CCWGG 2 cut(s) 1224, 1323
Bst4CI ACNGT 2 cut(s) 869, 1241
Bst6I CTCTTC 2 cut(s) 577, 1162
BstAFI CTTAAG 1 cut(s) 437
BstBAI YACGTR 1 cut(s) 244
BstC8I GCNNGC 5 cut(s) 716, 743, 1147, 1211, 1354
BstDEI CTNAG 4 cut(s) 300, 363, 395, 555
BstF5I GGATG 1 cut(s) 1077
BstFNI CGCG 1 cut(s) 876
BstH2I RGCGCY 1 cut(s) 939
BstHHI GCGC 1 cut(s) 938
BstKTI GATC 4 cut(s) 186, 613, 904, 1321
BstMAI GTCTC 1 cut(s) 1500
BstMBI GATC 4 cut(s) 183, 610, 901, 1318
BstMWI GCNNNNNNNGC 5 cut(s) 20, 449, 514, 542, 1219
BstNI CCWGG 2 cut(s) 1224, 1323
BstNSI RCATGY 3 cut(s) 714, 1213, 1360
BstSCI CCNGG 3 cut(s) 1185, 1222, 1321
BstSFI CTRYAG 1 cut(s) 1296
BstSLI GKGCMC 2 cut(s) 969, 1246
BstUI CGCG 1 cut(s) 876
BstV1I GCAGC 1 cut(s) 1400
BstX2I RGATCY 2 cut(s) 610, 1318
BstXI CCANNNNNNTGG 1 cut(s) 1567
BstYI RGATCY 2 cut(s) 610, 1318
BstZ17I GTATAC 2 cut(s) 420, 1237
BsuI GTATCC 2 cut(s) 650, 1257
BsuRI GGCC 2 cut(s) 368, 1352
BtgZI GCGATG 1 cut(s) 1390
BtsCI GGATG 1 cut(s) 1077
BtsI GCAGTG 1 cut(s) 847
BtsIMutI CAGTG 1 cut(s) 847
Cac8I GCNNGC 5 cut(s) 716, 743, 1147, 1211, 1354
CaiI CAGNNNCTG 1 cut(s) 1028
CfoI GCGC 1 cut(s) 938
Cfr13I GGNCC 3 cut(s) 353, 367, 701
Csp6I GTAC 1 cut(s) 241
CviAII CATG 9 cut(s) 325, 485, 631, 711, 725, 940, 962, 1210, 1357
CviQI GTAC 1 cut(s) 241
DdeI CTNAG 4 cut(s) 300, 363, 395, 555
DpnI GATC 4 cut(s) 185, 612, 903, 1320
DpnII GATC 4 cut(s) 183, 610, 901, 1318
DrdI GACNNNNNNGTC 1 cut(s) 1190
DseDI GACNNNNNNGTC 1 cut(s) 1190
EaeI YGGCCR 1 cut(s) 1350
Eam1104I CTCTTC 2 cut(s) 577, 1162
EarI CTCTTC 2 cut(s) 577, 1162
Eco47I GGWCC 2 cut(s) 353, 701
Eco57I CTGAAG 1 cut(s) 968
EcoO109I RGGNCCY 2 cut(s) 367, 701
EcoRI GAATTC 1 cut(s) 625
EcoRII CCWGG 2 cut(s) 1222, 1321
EcoT22I ATGCAT 1 cut(s) 963
FaeI CATG 9 cut(s) 328, 488, 634, 714, 728, 943, 965, 1213, 1360
FalI AAGNNNNNCTT 2 cut(s) 12, 44
FatI CATG 9 cut(s) 324, 484, 630, 710, 724, 939, 961, 1209, 1356
FauNDI CATATG 1 cut(s) 214
FblI GTMKAC 4 cut(s) 199, 419, 1155, 1236
Fnu4HI GCNGC 1 cut(s) 1389
FokI GGATG 1 cut(s) 1084
Fsp4HI GCNGC 1 cut(s) 1389
FspBI CTAG 3 cut(s) 15, 230, 1392
GlaI GCGC 1 cut(s) 937
GluI GCNGC 1 cut(s) 1389
GsaI CCCAGC 2 cut(s) 1176, 1335
HaeII RGCGCY 1 cut(s) 939
HaeIII GGCC 2 cut(s) 368, 1352
HapII CCGG 3 cut(s) 749, 1011, 1186
HhaI GCGC 1 cut(s) 938
Hin1II CATG 9 cut(s) 328, 488, 634, 714, 728, 943, 965, 1213, 1360
Hin6I GCGC 1 cut(s) 936
HinP1I GCGC 1 cut(s) 936
HincII GTYRAC 1 cut(s) 826
HindII GTYRAC 1 cut(s) 826
HinfI GANTC 5 cut(s) 257, 790, 827, 1007, 1493
HpaII CCGG 3 cut(s) 749, 1011, 1186
HphI GGTGA 2 cut(s) 266, 1490
Hpy166II GTNNAC 7 cut(s) 200, 420, 826, 1053, 1156, 1237, 1244
Hpy188I TCNGA 4 cut(s) 194, 606, 987, 1412
Hpy188III TCNNGA 5 cut(s) 39, 166, 579, 888, 1426
Hpy8I GTNNAC 7 cut(s) 200, 420, 826, 1053, 1156, 1237, 1244
HpyAV CCTTC 3 cut(s) 274, 802, 1169
HpyCH4III ACNGT 2 cut(s) 869, 1241
HpyCH4IV ACGT 3 cut(s) 65, 243, 1441
HpyF10VI GCNNNNNNNGC 5 cut(s) 20, 449, 514, 542, 1219
HpyF3I CTNAG 4 cut(s) 300, 363, 395, 555
HpySE526I ACGT 3 cut(s) 65, 243, 1441
Hsp92II CATG 9 cut(s) 328, 488, 634, 714, 728, 943, 965, 1213, 1360
HspAI GCGC 1 cut(s) 936
Kzo9I GATC 4 cut(s) 183, 610, 901, 1318
LguI GCTCTTC 1 cut(s) 1162
LmnI GCTCC 4 cut(s) 449, 933, 1253, 1481
Lsp1109I GCAGC 1 cut(s) 1400
LweI GCATC 6 cut(s) 262, 773, 1015, 1357, 1375, 1473
MaeI CTAG 3 cut(s) 15, 230, 1392
MaeII ACGT 3 cut(s) 65, 243, 1441
MaeIII GTNAC 2 cut(s) 254, 1061
MalI GATC 4 cut(s) 185, 612, 903, 1320
MboI GATC 4 cut(s) 183, 610, 901, 1318
MflI RGATCY 2 cut(s) 610, 1318
MhlI GDGCHC 3 cut(s) 847, 969, 1246
MlsI TGGCCA 1 cut(s) 1352
MluCI AATT 8 cut(s) 55, 293, 596, 625, 678, 1092, 1179, 1304
MluNI TGGCCA 1 cut(s) 1352
MlyI GAGTC 4 cut(s) 251, 821, 1016, 1502
MmeI TCCRAC 1 cut(s) 602
Mox20I TGGCCA 1 cut(s) 1352
Mph1103I ATGCAT 1 cut(s) 963
MroXI GAANNNNTTC 2 cut(s) 284, 681
MscI TGGCCA 1 cut(s) 1352
MseI TTAA 4 cut(s) 54, 372, 438, 1178
MslI CAYNNNNRTG 2 cut(s) 854, 1565
Msp20I TGGCCA 1 cut(s) 1352
MspCI CTTAAG 1 cut(s) 437
MspI CCGG 3 cut(s) 749, 1011, 1186
MspR9I CCNGG 3 cut(s) 1187, 1224, 1323
Mva1269I GAATGC 3 cut(s) 53, 538, 963
MvaI CCWGG 2 cut(s) 1224, 1323
MvnI CGCG 1 cut(s) 876
MwoI GCNNNNNNNGC 5 cut(s) 20, 449, 514, 542, 1219
NciI CCSGG 1 cut(s) 1187
NdeI CATATG 1 cut(s) 214
NdeII GATC 4 cut(s) 183, 610, 901, 1318
NlaIII CATG 9 cut(s) 328, 488, 634, 714, 728, 943, 965, 1213, 1360
NlaIV GGNNCC 1 cut(s) 1320
NmuCI GTSAC 2 cut(s) 254, 1061
NsiI ATGCAT 1 cut(s) 963
NspI RCATGY 3 cut(s) 714, 1213, 1360
PaeI GCATGC 1 cut(s) 1213
PciSI GCTCTTC 1 cut(s) 1162
PctI GAATGC 3 cut(s) 53, 538, 963
PdmI GAANNNNTTC 2 cut(s) 284, 681
PfeI GAWTC 1 cut(s) 790
PfoI TCCNGGA 1 cut(s) 1321
PkrI GCNGC 1 cut(s) 1390
PleI GAGTC 4 cut(s) 251, 821, 1015, 1501
PpsI GAGTC 4 cut(s) 251, 821, 1015, 1501
Ppu21I YACGTR 1 cut(s) 244
PpuMI RGGWCCY 1 cut(s) 701
Psp5II RGGWCCY 1 cut(s) 701
Psp6I CCWGG 2 cut(s) 1222, 1321
PspFI CCCAGC 2 cut(s) 1172, 1331
PspGI CCWGG 2 cut(s) 1222, 1321
PspN4I GGNNCC 1 cut(s) 1320
PspPI GGNCC 3 cut(s) 353, 367, 701
PspPPI RGGWCCY 1 cut(s) 701
PstI CTGCAG 1 cut(s) 1300
PstNI CAGNNNCTG 1 cut(s) 1028
PsuI RGATCY 2 cut(s) 610, 1318
RsaI GTAC 1 cut(s) 242
RsaNI GTAC 1 cut(s) 241
RseI CAYNNNNRTG 2 cut(s) 854, 1565
SapI GCTCTTC 1 cut(s) 1162
SaqAI TTAA 4 cut(s) 54, 372, 438, 1178
SatI GCNGC 1 cut(s) 1389
Sau3AI GATC 4 cut(s) 183, 610, 901, 1318
Sau96I GGNCC 3 cut(s) 353, 367, 701
SchI GAGTC 4 cut(s) 251, 821, 1016, 1502
ScrFI CCNGG 3 cut(s) 1187, 1224, 1323
SduI GDGCHC 3 cut(s) 847, 969, 1246
SfaNI GCATC 6 cut(s) 262, 773, 1015, 1357, 1375, 1473
SfcI CTRYAG 1 cut(s) 1296
SinI GGWCC 2 cut(s) 353, 701
SmiMI CAYNNNNRTG 2 cut(s) 854, 1565
SmlI CTYRAG 2 cut(s) 259, 437
SmoI CTYRAG 2 cut(s) 259, 437
SphI GCATGC 1 cut(s) 1213
Sse9I AATT 8 cut(s) 55, 293, 596, 625, 678, 1092, 1179, 1304
SspMI CTAG 3 cut(s) 15, 230, 1392
StyD4I CCNGG 3 cut(s) 1185, 1222, 1321
TaaI ACNGT 2 cut(s) 869, 1241
TaiI ACGT 3 cut(s) 68, 246, 1444
TaqI TCGA 5 cut(s) 288, 578, 591, 904, 1448
TasI AATT 8 cut(s) 55, 293, 596, 625, 678, 1092, 1179, 1304
TfiI GAWTC 1 cut(s) 790
Tru1I TTAA 4 cut(s) 54, 372, 438, 1178
Tru9I TTAA 4 cut(s) 54, 372, 438, 1178
TscAI CASTG 1 cut(s) 847
TseFI GTSAC 2 cut(s) 254, 1061
TseI GCWGC 1 cut(s) 1388
Tsp45I GTSAC 2 cut(s) 254, 1061
TspDTI ATGAA 7 cut(s) 17, 61, 306, 473, 609, 782, 1377
TspGWI ACGGA 2 cut(s) 292, 1131
TspRI CASTG 1 cut(s) 847
Vha464I CTTAAG 1 cut(s) 437
VneI GTGCAC 1 cut(s) 1242
VpaK11BI GGWCC 2 cut(s) 353, 701
XapI RAATTY 3 cut(s) 625, 678, 1092
XceI RCATGY 3 cut(s) 714, 1213, 1360
XmiI GTMKAC 4 cut(s) 199, 419, 1155, 1236
XmnI GAANNNNTTC 2 cut(s) 284, 681
XspI CTAG 3 cut(s) 15, 230, 1392
Zsp2I ATGCAT 1 cut(s) 963
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.