Rh5DG545500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0014707
Physical Location & Seq
Forward (+)
83889203 .. 83891456
2254 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG545500.1

Sequence Viewer

Length: 1338 bp
ATGATGTTTGCTTCGGCGTTTAATGGGTGGTTTGAGCAAGCAATTGGGTACTTTTGTTTGATGCGAGAGTTGGGAATTGTTGCCAATAAGTTCAGTTTTCCGGTCATGCTTAAAGTTTGTGTTGGTTTGATGGATTTGAATAAGGGAAAGGAGGTTCATGCTGTGGTGTATAAGATGGGGTTTGAAAAGGATGTTGCTTTGGGGAATGCATTGGTTGATATGTATTGCAAATGTGGAAGCTTGTGTTATGGTCATCGAGTTTTTGATCGAATGTTTGAAAGAGATGTGGCTTCTTGGACATCTATGATATGTGGGTACTGTAATGTAGGAAGGACTGATCAAGCGGCAATGTTGTTTGAGAGGATGAAGTTGGAGGGATTGGAACCAAATGATTTCACATGGAATGCAATGATAGCTGGGTATGCTCGGAGTGGAGATAGCAATCGAGCATATGTGCTACTATCTAGGATGACTAAAGAAGGATTGGTTCCTGATTTGGTTACATGGAATGCTATAATTTCAGGTTTTGCCCAAAGCCAGGAGGCAGGTGAAGCTTTTAAGTTGTTCAGTGCTATGTTAGTGTCTGGAATTAAGCCCAACCTTGTCACTATCACAGGATTGCTCCCAGCTTGTGGATTGCTTGGTTCAGTTGAAAGAGGGAGAGAAATTCATGGATTGATATGTAGGATGGGATTTGACATAAATGTCTTTGTTGCTAGTGCTCTTATTGACATGTACTCGAAATGTGGCAGTGTGAAAAATGCTCGAAGTGTATTTGACTGGACTCCTGTATACAATGTTGCGTCGTGGAATGCAATGATCGGATGTTATGGTAAGCACGGTATGGTTGATTCTGCGGTAGAGCTTTTCGAAAGAATGCAAGAGGGAGGAGTTCAGGCTAATGAAGTGACTTTGAGTTGTGTACTTTCTGCATGCAGCCATAGTGGTTCTGTAGAAAAGGGTTTAGAGATATTCAGGTCCATGAAAGAGAGCCATGGAGTTGAGGCAAGTAAAGAACATTATGGTTGTGTCGTCGATCTCTTGTGCCGTTCAGGGAAGATGGTAGAAGCTTATGAGTTTGTGAAGTCCATTCCTATAGAAGTCACTGAATCCATTATTGGAGCTTTGCTGAACGGGTGTAAAGTCCATGGAAGAAGAGATCTTGCTAAATTGATGGCTCAGGATATTCTGAAAATGGAGTTAAAGAGACCCGGAGGTTTTGTAACACTCTCAAATATCTATGCTGCTGATGGAGAATGGGAAGAAGTTGAGTATGTAAGGAAGGTGATGAAGCAGAGGAAGGTCCTTAAGAAACCTGGATTTAGTTCACTCGATTAA
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

445

Amino Acids

49.23

Weight (kDa)

7.04

Isoelectric Point (pI)

27.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 92 - 140 3.9e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 92 - 123 3.3e-07 PPR repeat
PPR_2 PF13041 94 - 135 2e-11 PPR repeat family
PPR PF01535 98 - 127 3.1e-07 PPR repeat
PPR_long PF17177 113 - 219 1.5e-09 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 126 - 176 1.6e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 126 - 158 3.6e-07 PPR repeat
PPR_2 PF13041 129 - 177 2.3e-12 PPR repeat family
PPR PF01535 132 - 162 1.3e-06 PPR repeat
PPR_3 PF13812 153 - 212 6.8e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 161 - 192 1.1e-06 PPR repeat
PPR_2 PF13041 164 - 211 1.2e-11 PPR repeat family
PPR_long PF17177 264 - 387 1.2e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 265 - 294 2.4e-06 PPR repeat
PPR_2 PF13041 266 - 313 1.1e-12 PPR repeat family
PPR PF01535 269 - 298 6.8e-10 PPR repeat
E_motif PF20431 387 - 443 7e-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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Orthologous Genes (Group: OG0014707)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g43470
malus_domestica MD11G1024300.v1.1
prunus_persica Prupe.6G020300_v2.0.a1
pyrus_communis pycom11g01920
rosa_chinensis RchiOBHm_Chr5g0077881
rosa_laevigata RLG00000036722
rosa_multiflora Rmu_co8015760.1_g000001 Rmu_sc0031428.1_g000002 Rmu_ssc0000186.1_g000002
rosa_roxburghii Rroxscaffold_1G00004300
rosa_rugosa Rorug05G0456900 Rorug05G0456900
rosa_samantha Rh5AG511300 Rh5BG534000 Rh5CG557500 Rh5DG545500
rosa_wichuraiana Rw5G047450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 536
AasI GACNNNNNNGTC 1 cut(s) 704
Acc36I ACCTGC 1 cut(s) 536
AccB7I CCANNNNNTGG 1 cut(s) 632
AccI GTMKAC 1 cut(s) 792
AciI CCGC 2 cut(s) 344, 857
AcsI RAATTY 1 cut(s) 666
AfaI GTAC 4 cut(s) 50, 317, 737, 924
AfiI CCNNNNNNNGG 2 cut(s) 538, 632
AflII CTTAAG 1 cut(s) 1307
AflIII ACRYGT 1 cut(s) 732
AgsI TTSAA 4 cut(s) 139, 185, 278, 653
AjnI CCWGG 2 cut(s) 537, 1315
AjuI GAANNNNNNNTTGG 2 cut(s) 1101, 1133
AloI GAACNNNNNNTCC 2 cut(s) 138, 170
AluBI AGCT 7 cut(s) 240, 416, 554, 629, 865, 1070, 1124
AluI AGCT 7 cut(s) 240, 416, 554, 629, 865, 1070, 1124
Alw21I GWGCWC 1 cut(s) 724
Alw26I GTCTC 1 cut(s) 1201
ApeKI GCWGC 2 cut(s) 936, 1244
ApoI RAATTY 1 cut(s) 666
AspS9I GGNCC 2 cut(s) 978, 1303
AsuC2I CCSGG 1 cut(s) 1212
AsuHPI GGTGA 2 cut(s) 560, 1297
AsuII TTCGAA 1 cut(s) 870
AvaII GGWCC 2 cut(s) 978, 1303
BaeI ACNNNNGTAYC 2 cut(s) 40, 73
Bbv12I GWGCWC 1 cut(s) 724
BbvI GCAGC 2 cut(s) 948, 1231
BccI CCATC 6 cut(s) 124, 169, 682, 1054, 1168, 1244
BceAI ACGGC 1 cut(s) 1032
BciT130I CCWGG 2 cut(s) 539, 1317
BclI TGATCA 1 cut(s) 337
BcnI CCSGG 1 cut(s) 1212
BcoDI GTCTC 1 cut(s) 1201
BfaI CTAG 2 cut(s) 465, 717
BfmI CTRYAG 2 cut(s) 951, 1095
BfrI CTTAAG 1 cut(s) 1307
BfuAI ACCTGC 1 cut(s) 536
BglII AGATCT 1 cut(s) 1159
BisI GCNGC 3 cut(s) 345, 937, 1245
BlsI GCNGC 3 cut(s) 346, 938, 1246
Bme1390I CCNGG 3 cut(s) 539, 1212, 1317
Bme18I GGWCC 2 cut(s) 978, 1303
BmgT120I GGNCC 2 cut(s) 978, 1303
BmiI GGNNCC 2 cut(s) 384, 489
BmrFI CCNGG 3 cut(s) 539, 1212, 1317
BmsI GCATC 1 cut(s) 51
Bpu10I CCTNAGC 1 cut(s) 1179
Bpu14I TTCGAA 1 cut(s) 870
BpuMI CCSGG 1 cut(s) 1212
BsaBI GATNNNNATC 1 cut(s) 441
BsaI GGTCTC 1 cut(s) 1201
BsaJI CCNNGG 2 cut(s) 994, 1147
BsaWI WCCGGW 1 cut(s) 100
BsaXI ACNNNNNCTCC 2 cut(s) 1206, 1236
Bsc4I CCNNNNNNNGG 2 cut(s) 538, 632
Bse1I ACTGG 1 cut(s) 785
Bse3DI GCAATG 3 cut(s) 354, 414, 822
Bse8I GATNNNNATC 1 cut(s) 441
BseBI CCWGG 2 cut(s) 539, 1317
BseDI CCNNGG 2 cut(s) 994, 1147
BseGI GGATG 5 cut(s) 196, 369, 474, 693, 830
BseJI GATNNNNATC 1 cut(s) 441
BseLI CCNNNNNNNGG 2 cut(s) 538, 632
BseMI GCAATG 3 cut(s) 354, 414, 822
BseMII CTCAG 1 cut(s) 1193
BseNI ACTGG 1 cut(s) 785
BseRI GAGGAG 1 cut(s) 903
BseXI GCAGC 2 cut(s) 948, 1231
BseYI CCCAGC 2 cut(s) 416, 625
BsiHKAI GWGCWC 1 cut(s) 724
BsiSI CCGG 2 cut(s) 101, 1212
BslI CCNNNNNNNGG 2 cut(s) 538, 632
BsmAI GTCTC 1 cut(s) 1201
BsmI GAATGC 5 cut(s) 211, 409, 514, 817, 882
Bso31I GGTCTC 1 cut(s) 1201
Bsp119I TTCGAA 1 cut(s) 870
Bsp1286I GDGCHC 1 cut(s) 724
Bsp143I GATC 5 cut(s) 265, 337, 819, 1036, 1159
Bsp19I CCATGG 2 cut(s) 994, 1147
BspACI CCGC 2 cut(s) 344, 857
BspCNI CTCAG 1 cut(s) 1192
BspLI GGNNCC 2 cut(s) 384, 489
BspMI ACCTGC 1 cut(s) 536
BspT104I TTCGAA 1 cut(s) 870
BspTI CTTAAG 1 cut(s) 1307
BspTNI GGTCTC 1 cut(s) 1201
BsrDI GCAATG 3 cut(s) 354, 414, 822
BsrI ACTGG 1 cut(s) 785
BssECI CCNNGG 2 cut(s) 994, 1147
BssMI GATC 5 cut(s) 265, 337, 819, 1036, 1159
BssNAI GTATAC 1 cut(s) 793
BssT1I CCWWGG 2 cut(s) 994, 1147
Bst1107I GTATAC 1 cut(s) 793
Bst2UI CCWGG 2 cut(s) 539, 1317
Bst4CI ACNGT 2 cut(s) 320, 842
Bst6I CTCTTC 1 cut(s) 1150
BstAFI CTTAAG 1 cut(s) 1307
BstBI TTCGAA 1 cut(s) 870
BstC8I GCNNGC 2 cut(s) 39, 934
BstDEI CTNAG 1 cut(s) 1179
BstDSI CCRYGG 2 cut(s) 994, 1147
BstF5I GGATG 5 cut(s) 196, 369, 474, 693, 830
BstKTI GATC 5 cut(s) 268, 340, 822, 1039, 1162
BstMAI GTCTC 1 cut(s) 1201
BstMBI GATC 5 cut(s) 265, 337, 819, 1036, 1159
BstMWI GCNNNNNNNGC 3 cut(s) 413, 422, 551
BstNI CCWGG 2 cut(s) 539, 1317
BstNSI RCATGY 2 cut(s) 736, 936
BstSCI CCNGG 3 cut(s) 537, 1210, 1315
BstSFI CTRYAG 2 cut(s) 951, 1095
BstV1I GCAGC 2 cut(s) 948, 1231
BstX2I RGATCY 1 cut(s) 1159
BstYI RGATCY 1 cut(s) 1159
BstZ17I GTATAC 1 cut(s) 793
BtgI CCRYGG 2 cut(s) 994, 1147
BtsCI GGATG 5 cut(s) 196, 369, 474, 693, 830
BtsI GCAGTG 1 cut(s) 757
BtsIMutI CAGTG 3 cut(s) 574, 757, 1104
BveI ACCTGC 1 cut(s) 536
Cac8I GCNNGC 2 cut(s) 39, 934
Cfr13I GGNCC 2 cut(s) 978, 1303
CseI GACGC 1 cut(s) 792
Csp6I GTAC 4 cut(s) 49, 316, 736, 923
CviQI GTAC 4 cut(s) 49, 316, 736, 923
DdeI CTNAG 1 cut(s) 1179
DpnI GATC 5 cut(s) 267, 339, 821, 1038, 1161
DpnII GATC 5 cut(s) 265, 337, 819, 1036, 1159
DrdI GACNNNNNNGTC 1 cut(s) 704
DseDI GACNNNNNNGTC 1 cut(s) 704
Eam1104I CTCTTC 1 cut(s) 1150
EarI CTCTTC 1 cut(s) 1150
Eco130I CCWWGG 2 cut(s) 994, 1147
Eco31I GGTCTC 1 cut(s) 1201
Eco47I GGWCC 2 cut(s) 978, 1303
EcoO109I RGGNCCY 1 cut(s) 1303
EcoRII CCWGG 2 cut(s) 537, 1315
EcoT14I CCWWGG 2 cut(s) 994, 1147
EcoT22I ATGCAT 1 cut(s) 211
ErhI CCWWGG 2 cut(s) 994, 1147
FauNDI CATATG 1 cut(s) 451
FbaI TGATCA 1 cut(s) 337
FblI GTMKAC 1 cut(s) 792
Fnu4HI GCNGC 3 cut(s) 345, 937, 1245
FokI GGATG 5 cut(s) 203, 376, 481, 700, 837
Fsp4HI GCNGC 3 cut(s) 345, 937, 1245
FspBI CTAG 2 cut(s) 465, 717
GluI GCNGC 3 cut(s) 345, 937, 1245
GsaI CCCAGC 2 cut(s) 420, 629
HapII CCGG 2 cut(s) 101, 1212
HgaI GACGC 1 cut(s) 792
HindIII AAGCTT 3 cut(s) 238, 552, 1068
HinfI GANTC 3 cut(s) 784, 851, 1109
HpaII CCGG 2 cut(s) 101, 1212
HphI GGTGA 2 cut(s) 560, 1297
Hpy166II GTNNAC 3 cut(s) 793, 923, 1328
Hpy188I TCNGA 3 cut(s) 429, 824, 1191
Hpy188III TCNNGA 3 cut(s) 491, 585, 1181
Hpy8I GTNNAC 3 cut(s) 793, 923, 1328
Hpy99I CGWCG 2 cut(s) 808, 1037
HpyAV CCTTC 4 cut(s) 324, 473, 1276, 1294
HpyCH4III ACNGT 2 cut(s) 320, 842
HpyCH4V TGCA 7 cut(s) 209, 228, 407, 815, 880, 932, 936
HpyF10VI GCNNNNNNNGC 3 cut(s) 413, 422, 551
HpyF3I CTNAG 1 cut(s) 1179
Ksp22I TGATCA 1 cut(s) 337
Kzo9I GATC 5 cut(s) 265, 337, 819, 1036, 1159
LmnI GCTCC 2 cut(s) 627, 1121
Lsp1109I GCAGC 2 cut(s) 948, 1231
LweI GCATC 1 cut(s) 51
MaeI CTAG 2 cut(s) 465, 717
MaeIII GTNAC 5 cut(s) 499, 604, 907, 1102, 1222
MalI GATC 5 cut(s) 267, 339, 821, 1038, 1161
MboI GATC 5 cut(s) 265, 337, 819, 1036, 1159
MboII GAAGA 4 cut(s) 1069, 1164, 1167, 1274
MfeI CAATTG 1 cut(s) 42
MflI RGATCY 1 cut(s) 1159
MhlI GDGCHC 1 cut(s) 724
MluCI AATT 6 cut(s) 42, 75, 516, 588, 666, 1169
MlyI GAGTC 1 cut(s) 778
MmeI TCCRAC 1 cut(s) 351
Mph1103I ATGCAT 1 cut(s) 211
MseI TTAA 7 cut(s) 21, 111, 558, 591, 1202, 1308, 1336
MspCI CTTAAG 1 cut(s) 1307
MspI CCGG 2 cut(s) 101, 1212
MspR9I CCNGG 3 cut(s) 539, 1212, 1317
MunI CAATTG 1 cut(s) 42
Mva1269I GAATGC 5 cut(s) 211, 409, 514, 817, 882
MvaI CCWGG 2 cut(s) 539, 1317
MwoI GCNNNNNNNGC 3 cut(s) 413, 422, 551
NciI CCSGG 1 cut(s) 1212
NcoI CCATGG 2 cut(s) 994, 1147
NdeI CATATG 1 cut(s) 451
NdeII GATC 5 cut(s) 265, 337, 819, 1036, 1159
NlaIV GGNNCC 2 cut(s) 384, 489
NmuCI GTSAC 3 cut(s) 604, 907, 1102
NsiI ATGCAT 1 cut(s) 211
NspI RCATGY 2 cut(s) 736, 936
NspV TTCGAA 1 cut(s) 870
PaeI GCATGC 1 cut(s) 936
PaqCI CACCTGC 1 cut(s) 536
PciI ACATGT 1 cut(s) 732
PctI GAATGC 5 cut(s) 211, 409, 514, 817, 882
PfeI GAWTC 2 cut(s) 851, 1109
PflMI CCANNNNNTGG 1 cut(s) 632
PkrI GCNGC 3 cut(s) 346, 938, 1246
PleI GAGTC 1 cut(s) 778
PpsI GAGTC 1 cut(s) 778
PpuMI RGGWCCY 1 cut(s) 1303
PscI ACATGT 1 cut(s) 732
Psp5II RGGWCCY 1 cut(s) 1303
Psp6I CCWGG 2 cut(s) 537, 1315
PspFI CCCAGC 2 cut(s) 416, 625
PspGI CCWGG 2 cut(s) 537, 1315
PspN4I GGNNCC 2 cut(s) 384, 489
PspPI GGNCC 2 cut(s) 978, 1303
PspPPI RGGWCCY 1 cut(s) 1303
PsuI RGATCY 1 cut(s) 1159
RsaI GTAC 4 cut(s) 50, 317, 737, 924
RsaNI GTAC 4 cut(s) 49, 316, 736, 923
SaqAI TTAA 7 cut(s) 21, 111, 558, 591, 1202, 1308, 1336
SatI GCNGC 3 cut(s) 345, 937, 1245
Sau3AI GATC 5 cut(s) 265, 337, 819, 1036, 1159
Sau96I GGNCC 2 cut(s) 978, 1303
SchI GAGTC 1 cut(s) 778
ScrFI CCNGG 3 cut(s) 539, 1212, 1317
SduI GDGCHC 1 cut(s) 724
SfaNI GCATC 1 cut(s) 51
SfcI CTRYAG 2 cut(s) 951, 1095
SfuI TTCGAA 1 cut(s) 870
SinI GGWCC 2 cut(s) 978, 1303
SmlI CTYRAG 1 cut(s) 1307
SmoI CTYRAG 1 cut(s) 1307
SphI GCATGC 1 cut(s) 936
Sse9I AATT 6 cut(s) 42, 75, 516, 588, 666, 1169
SsiI CCGC 2 cut(s) 344, 857
SspMI CTAG 2 cut(s) 465, 717
StyD4I CCNGG 3 cut(s) 537, 1210, 1315
StyI CCWWGG 2 cut(s) 994, 1147
TaaI ACNGT 2 cut(s) 320, 842
TaqI TCGA 8 cut(s) 256, 268, 445, 740, 766, 870, 1035, 1332
TasI AATT 6 cut(s) 42, 75, 516, 588, 666, 1169
TatI WGTACW 2 cut(s) 735, 922
TauI GCSGC 1 cut(s) 347
TfiI GAWTC 2 cut(s) 851, 1109
Tru1I TTAA 7 cut(s) 21, 111, 558, 591, 1202, 1308, 1336
Tru9I TTAA 7 cut(s) 21, 111, 558, 591, 1202, 1308, 1336
TscAI CASTG 3 cut(s) 574, 757, 1111
TseFI GTSAC 3 cut(s) 604, 907, 1102
TseI GCWGC 2 cut(s) 936, 1244
Tsp45I GTSAC 3 cut(s) 604, 907, 1102
TspDTI ATGAA 6 cut(s) 146, 380, 659, 918, 998, 1304
TspRI CASTG 3 cut(s) 574, 757, 1111
Van91I CCANNNNNTGG 1 cut(s) 632
Vha464I CTTAAG 1 cut(s) 1307
VpaK11BI GGWCC 2 cut(s) 978, 1303
XapI RAATTY 1 cut(s) 666
XceI RCATGY 2 cut(s) 736, 936
XmiI GTMKAC 1 cut(s) 792
XspI CTAG 2 cut(s) 465, 717
Zsp2I ATGCAT 1 cut(s) 211
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.