Rh5CG327400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0017629
Physical Location & Seq
Forward (+)
36352761 .. 36354095
1335 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG327400.1

Sequence Viewer

Length: 1335 bp
ATGGTAGAGAGGACATTGTTTTCTTGGTCGACTATGATCAGTGCGTATGCCAAGTTGGGTGAGTTGGAGGAAGCGAGGCGGCTTTTTAATGAGATGCCGCAGAGGAATGTGGTTTCGTGGAATGCGATGATTGCTGGGTATGCGCAGAATGAGAAGTATGCTGAGGCTGTTGGGTTGTTTAGGGAAATGCAAGAGTGTGGGATGGCGCCAAATGATGTTACGCTGGTTAGTGTGTTGTCCGCTTGCGCTCATCTTGGGGCACTTGATTTGGGGAAGTGGATTGATAGGTTTATAAAACGAAGCGGGATGGAGTTGGGTCTGTTTTTGGGGAATGCTTTAGCGGATATGTATGCCAAGTGTGGCTGCATAACCGAAGCTAGGCTGGTTTTCAATAACATGCATGAGAGGGATGTGATATCTTGGAGTATTATCATTACTGGGTTGGCAATGAATGGGCATGCTGATGAAGCTTTTGAGTGTTTTAGTACGATGATTGAACACGGTTTGAAGCCAAATGAAATTACGTTTATGGGGTTATTGACAGCATGTACTCATGCTGGTTTGGTGGACAAGGGGCTTGAGTATTTTGATATGATGGAGAAAGCATATGGAATATCTCCCAAGATTGAGCACTATGGGTGTTTGGTTGATCTTCTCAGCCGTGCTGGTCGCCTTGCTAAAGCAGAGGATATGATTAACTCCATGCCTATGAAGCCTAATGTTATAGTCTGGGGTGCATTGCTCGGTGGTTGTCGGATTTATAAAGATACTGATAGAGGGGAGCGTGTTGTTCAGCAGATTCTTGAACTAGATTCTGAGCACTCTGGAAGCTATGTTTATCTTGCAAATCTGTATGCTTCGATGGGAAGGCTTGATGATGCAGCACAGTGTAGACTGAGAATGCGAGATAAAGGCGTAACAAAAACACCTGGCTGCAGTTGGATAGAGGTGGATAACATAGTTCATGAATTCTTCATGGGAGATTTATCGCATCCTCAGTTGGACAAAATATATTCAATGATTAAAGAACTGAGGTGGGAAATGAAGCTAGCCGGATACAAACCAAAGACAGATCTGGTGCTTCATAACATAGACGAAGAAGAGAAAGAGGATGCTTTATCTGTTCATAGTGAGAAGCTGGCCATTGCATTTGGGCTTATCAGTACTAGCCCAGGAACTACAATTCGAATTGTAAAGAACTTGCGAGTTTGTAGTGACTGTCATGACGCGACAAAATTAATCTCCAAAATTGTAGAACGAGAGATTATCGTACGAGACCGAAGTCGCTTCCATCATTTCAAAGATGGTAAATGTTCTTGCAATGACTACTGGTAA
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
DYW_deaminase PPR PPR_2

Protein Analysis

444

Amino Acids

50.11

Weight (kDa)

5.82

Isoelectric Point (pI)

35.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 3 - 32 5.3e-06 PPR repeat
PPR_2 PF13041 6 - 37 5.2e-07 PPR repeat family
PPR PF01535 7 - 37 1.9e-09 PPR repeat
PPR_2 PF13041 35 - 84 2.1e-13 PPR repeat family
PPR PF01535 38 - 67 4e-09 PPR repeat
PPR_2 PF13041 136 - 184 3.6e-11 PPR repeat family
E_motif PF20431 254 - 316 8e-18 E motif
DYW_deaminase PF14432 352 - 444 2.8e-44 DYW family of nucleic acid deaminases
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: OG0017629)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g24230
malus_domestica MD15G1089600.v1.1
prunus_persica Prupe.1G444200_v2.0.a1
pyrus_communis pycom15g08400
rosa_chinensis RchiOBHm_Chr5g0043351
rosa_laevigata RLG00000034182
rosa_multiflora Rmu_sc0000060.1_g000011 Rmu_sc0000060.1_g000039
rosa_roxburghii Rroxscaffold_1G00037500
rosa_rugosa Rorug05G0205400
rosa_samantha Rh5CG327400
rosa_wichuraiana Rw5G027000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 293, 762
Acc16I TGCGCA 1 cut(s) 144
AccB1I GGYRCC 1 cut(s) 205
AccI GTMKAC 2 cut(s) 29, 892
AccII CGCG 1 cut(s) 1229
AciI CCGC 5 cut(s) 79, 98, 240, 303, 341
AcoI YGGCCR 1 cut(s) 1140
AcsI RAATTY 1 cut(s) 968
AcyI GRCGYC 1 cut(s) 206
AfaI GTAC 4 cut(s) 487, 550, 1165, 1272
AfiI CCNNNNNNNGG 1 cut(s) 378
AgsI TTSAA 6 cut(s) 391, 497, 508, 806, 1017, 1300
AjnI CCWGG 2 cut(s) 928, 1171
AluBI AGCT 5 cut(s) 377, 470, 831, 1048, 1138
AluI AGCT 5 cut(s) 377, 470, 831, 1048, 1138
Alw21I GWGCWC 2 cut(s) 633, 822
Alw26I GTCTC 1 cut(s) 1269
AoxI GGCC 1 cut(s) 1140
ApeKI GCWGC 3 cut(s) 363, 881, 933
ApoI RAATTY 1 cut(s) 968
AseI ATTAAT 1 cut(s) 1238
AspLEI GCGC 3 cut(s) 145, 208, 248
AsuHPI GGTGA 1 cut(s) 71
AsuII TTCGAA 1 cut(s) 1186
AsuNHI GCTAGC 1 cut(s) 1048
BaeGI GKGCMC 1 cut(s) 262
BalI TGGCCA 1 cut(s) 1142
BanI GGYRCC 1 cut(s) 205
Bbv12I GWGCWC 2 cut(s) 633, 822
BbvCI CCTCAGC 1 cut(s) 162
BbvI GCAGC 3 cut(s) 350, 893, 920
BccI CCATC 6 cut(s) 196, 301, 589, 856, 1298, 1299
BceAI ACGGC 1 cut(s) 645
BciT130I CCWGG 2 cut(s) 930, 1173
BciVI GTATCC 1 cut(s) 1049
BclI TGATCA 1 cut(s) 36
BcoDI GTCTC 1 cut(s) 1269
BfaI CTAG 4 cut(s) 378, 809, 1049, 1167
BfmI CTRYAG 1 cut(s) 934
BfoI RGCGCY 1 cut(s) 209
BfuI GTATCC 1 cut(s) 1049
BglII AGATCT 1 cut(s) 1072
BisI GCNGC 5 cut(s) 80, 98, 364, 882, 934
BlsI GCNGC 5 cut(s) 81, 99, 365, 883, 935
BmcAI AGTACT 1 cut(s) 1165
Bme1390I CCNGG 2 cut(s) 930, 1173
BmiI GGNNCC 1 cut(s) 207
BmrFI CCNGG 2 cut(s) 930, 1173
BmrI ACTGGG 1 cut(s) 447
BmsI GCATC 4 cut(s) 84, 868, 1000, 1102
BmtI GCTAGC 1 cut(s) 1052
BmuI ACTGGG 1 cut(s) 447
BoxI GACNNNNGTC 1 cut(s) 1281
Bpu10I CCTNAGC 1 cut(s) 162
Bpu14I TTCGAA 1 cut(s) 1186
BpuEI CTTGAG 1 cut(s) 599
BsaHI GRCGYC 1 cut(s) 206
BsaI GGTCTC 1 cut(s) 1269
BsaJI CCNNGG 1 cut(s) 1171
Bsc4I CCNNNNNNNGG 1 cut(s) 378
Bse1I ACTGG 2 cut(s) 442, 1334
Bse3DI GCAATG 4 cut(s) 453, 737, 1143, 1327
BseBI CCWGG 2 cut(s) 930, 1173
BseDI CCNNGG 1 cut(s) 1171
BseGI GGATG 5 cut(s) 207, 312, 415, 991, 1117
BseLI CCNNNNNNNGG 1 cut(s) 378
BseMI GCAATG 4 cut(s) 453, 737, 1143, 1327
BseMII CTCAG 6 cut(s) 153, 670, 807, 887, 1010, 1022
BseNI ACTGG 2 cut(s) 442, 1334
BseSI GKGCMC 1 cut(s) 262
BseXI GCAGC 3 cut(s) 350, 893, 920
BseYI CCCAGC 1 cut(s) 134
Bsh1236I CGCG 1 cut(s) 1229
BshFI GGCC 1 cut(s) 1142
BshNI GGYRCC 1 cut(s) 205
BsiHKAI GWGCWC 2 cut(s) 633, 822
BsiSI CCGG 1 cut(s) 1053
BsiWI CGTACG 1 cut(s) 1270
BslI CCNNNNNNNGG 1 cut(s) 378
BsmAI GTCTC 1 cut(s) 1269
BsmI GAATGC 3 cut(s) 127, 337, 906
BsnI GGCC 1 cut(s) 1142
Bso31I GGTCTC 1 cut(s) 1269
Bsp119I TTCGAA 1 cut(s) 1186
Bsp1286I GDGCHC 3 cut(s) 262, 633, 822
Bsp143I GATC 3 cut(s) 36, 649, 1072
BspACI CCGC 5 cut(s) 79, 98, 240, 303, 341
BspANI GGCC 1 cut(s) 1142
BspCNI CTCAG 6 cut(s) 154, 669, 808, 888, 1009, 1023
BspFNI CGCG 1 cut(s) 1229
BspHI TCATGA 2 cut(s) 964, 1222
BspLI GGNNCC 1 cut(s) 207
BspMAI CTGCAG 1 cut(s) 938
BspOI GCTAGC 1 cut(s) 1052
BspT104I TTCGAA 1 cut(s) 1186
BspT107I GGYRCC 1 cut(s) 205
BspTNI GGTCTC 1 cut(s) 1269
BsrDI GCAATG 4 cut(s) 453, 737, 1143, 1327
BsrI ACTGG 2 cut(s) 442, 1334
BssECI CCNNGG 1 cut(s) 1171
BssMI GATC 3 cut(s) 36, 649, 1072
BssNI GRCGYC 1 cut(s) 206
Bst2UI CCWGG 2 cut(s) 930, 1173
Bst4CI ACNGT 3 cut(s) 503, 888, 1220
Bst6I CTCTTC 1 cut(s) 1095
BstACI GRCGYC 1 cut(s) 206
BstBI TTCGAA 1 cut(s) 1186
BstC8I GCNNGC 4 cut(s) 244, 459, 1050, 1140
BstDEI CTNAG 6 cut(s) 162, 656, 816, 896, 996, 1031
BstF5I GGATG 5 cut(s) 207, 312, 415, 991, 1117
BstFNI CGCG 1 cut(s) 1229
BstH2I RGCGCY 1 cut(s) 209
BstHHI GCGC 3 cut(s) 145, 208, 248
BstKTI GATC 3 cut(s) 39, 652, 1075
BstMAI GTCTC 1 cut(s) 1269
BstMBI GATC 3 cut(s) 36, 649, 1072
BstMWI GCNNNNNNNGC 4 cut(s) 131, 140, 467, 712
BstNI CCWGG 2 cut(s) 930, 1173
BstNSI RCATGY 3 cut(s) 400, 461, 549
BstPAI GACNNNNGTC 1 cut(s) 1281
BstSCI CCNGG 2 cut(s) 928, 1171
BstSFI CTRYAG 1 cut(s) 934
BstSLI GKGCMC 1 cut(s) 262
BstUI CGCG 1 cut(s) 1229
BstV1I GCAGC 3 cut(s) 350, 893, 920
BstX2I RGATCY 1 cut(s) 1072
BstYI RGATCY 1 cut(s) 1072
BsuI GTATCC 1 cut(s) 1049
BsuRI GGCC 1 cut(s) 1142
BtgZI GCGATG 1 cut(s) 140
BtsCI GGATG 5 cut(s) 207, 312, 415, 991, 1117
BtsIMutI CAGTG 2 cut(s) 46, 893
Cac8I GCNNGC 4 cut(s) 244, 459, 1050, 1140
CciI TCATGA 2 cut(s) 964, 1222
CfoI GCGC 3 cut(s) 145, 208, 248
CseI GACGC 1 cut(s) 1235
Csp6I GTAC 4 cut(s) 486, 549, 1164, 1271
CviAII CATG 9 cut(s) 397, 401, 458, 546, 554, 703, 965, 976, 1223
CviQI GTAC 4 cut(s) 486, 549, 1164, 1271
DdeI CTNAG 6 cut(s) 162, 656, 816, 896, 996, 1031
DinI GGCGCC 1 cut(s) 207
DpnI GATC 3 cut(s) 38, 651, 1074
DpnII GATC 3 cut(s) 36, 649, 1072
EaeI YGGCCR 1 cut(s) 1140
Eam1104I CTCTTC 1 cut(s) 1095
EarI CTCTTC 1 cut(s) 1095
Eco31I GGTCTC 1 cut(s) 1269
Eco32I GATATC 1 cut(s) 417
EcoRI GAATTC 1 cut(s) 968
EcoRII CCWGG 2 cut(s) 928, 1171
EcoRV GATATC 1 cut(s) 417
EcoT22I ATGCAT 1 cut(s) 402
EgeI GGCGCC 1 cut(s) 207
EheI GGCGCC 1 cut(s) 207
FaeI CATG 9 cut(s) 400, 404, 461, 549, 557, 706, 968, 979, 1226
FatI CATG 9 cut(s) 396, 400, 457, 545, 553, 702, 964, 975, 1222
FauI CCCGC 1 cut(s) 296
FauNDI CATATG 1 cut(s) 607
FbaI TGATCA 1 cut(s) 36
FblI GTMKAC 2 cut(s) 29, 892
Fnu4HI GCNGC 5 cut(s) 80, 98, 364, 882, 934
FokI GGATG 5 cut(s) 214, 319, 422, 978, 1124
Fsp4HI GCNGC 5 cut(s) 80, 98, 364, 882, 934
FspBI CTAG 4 cut(s) 378, 809, 1049, 1167
FspI TGCGCA 1 cut(s) 144
GlaI GCGC 3 cut(s) 144, 207, 247
GluI GCNGC 5 cut(s) 80, 98, 364, 882, 934
GsaI CCCAGC 1 cut(s) 138
HaeII RGCGCY 1 cut(s) 209
HaeIII GGCC 1 cut(s) 1142
HapII CCGG 1 cut(s) 1053
HgaI GACGC 1 cut(s) 1235
HhaI GCGC 3 cut(s) 145, 208, 248
Hin1I GRCGYC 1 cut(s) 206
Hin1II CATG 9 cut(s) 400, 404, 461, 549, 557, 706, 968, 979, 1226
Hin6I GCGC 3 cut(s) 143, 206, 246
HinP1I GCGC 3 cut(s) 143, 206, 246
HincII GTYRAC 1 cut(s) 30
HindII GTYRAC 1 cut(s) 30
HindIII AAGCTT 1 cut(s) 468
HinfI GANTC 2 cut(s) 799, 812
HpaII CCGG 1 cut(s) 1053
HphI GGTGA 1 cut(s) 71
Hpy166II GTNNAC 3 cut(s) 30, 568, 893
Hpy188I TCNGA 2 cut(s) 756, 817
Hpy188III TCNNGA 4 cut(s) 803, 825, 965, 1223
Hpy8I GTNNAC 3 cut(s) 30, 568, 893
HpyAV CCTTC 1 cut(s) 861
HpyCH4III ACNGT 3 cut(s) 503, 888, 1220
HpyCH4IV ACGT 1 cut(s) 524
HpyCH4V TGCA 9 cut(s) 190, 366, 400, 737, 845, 881, 936, 1148, 1320
HpyF10VI GCNNNNNNNGC 4 cut(s) 131, 140, 467, 712
HpyF3I CTNAG 6 cut(s) 162, 656, 816, 896, 996, 1031
HpySE526I ACGT 1 cut(s) 524
Hsp92I GRCGYC 1 cut(s) 206
Hsp92II CATG 9 cut(s) 400, 404, 461, 549, 557, 706, 968, 979, 1226
HspAI GCGC 3 cut(s) 143, 206, 246
KasI GGCGCC 1 cut(s) 205
Ksp22I TGATCA 1 cut(s) 36
Kzo9I GATC 3 cut(s) 36, 649, 1072
LmnI GCTCC 1 cut(s) 781
Lsp1109I GCAGC 3 cut(s) 350, 893, 920
LweI GCATC 4 cut(s) 84, 868, 1000, 1102
MaeI CTAG 4 cut(s) 378, 809, 1049, 1167
MaeII ACGT 1 cut(s) 524
MaeIII GTNAC 3 cut(s) 217, 916, 1214
MalI GATC 3 cut(s) 38, 651, 1074
MboI GATC 3 cut(s) 36, 649, 1072
MboII GAAGA 4 cut(s) 644, 964, 1109, 1112
MflI RGATCY 1 cut(s) 1072
MhlI GDGCHC 3 cut(s) 262, 633, 822
MlsI TGGCCA 1 cut(s) 1142
MluCI AATT 6 cut(s) 519, 968, 1182, 1188, 1235, 1248
MluNI TGGCCA 1 cut(s) 1142
Mly113I GGCGCC 1 cut(s) 206
MmeI TCCRAC 4 cut(s) 45, 734, 920, 981
Mox20I TGGCCA 1 cut(s) 1142
Mph1103I ATGCAT 1 cut(s) 402
MscI TGGCCA 1 cut(s) 1142
MseI TTAA 4 cut(s) 87, 696, 1023, 1238
MslI CAYNNNNRTG 2 cut(s) 462, 707
Msp20I TGGCCA 1 cut(s) 1142
MspI CCGG 1 cut(s) 1053
MspR9I CCNGG 2 cut(s) 930, 1173
Mva1269I GAATGC 3 cut(s) 127, 337, 906
MvaI CCWGG 2 cut(s) 930, 1173
MvnI CGCG 1 cut(s) 1229
MwoI GCNNNNNNNGC 4 cut(s) 131, 140, 467, 712
NarI GGCGCC 1 cut(s) 206
NdeI CATATG 1 cut(s) 607
NdeII GATC 3 cut(s) 36, 649, 1072
NheI GCTAGC 1 cut(s) 1048
NlaIII CATG 9 cut(s) 400, 404, 461, 549, 557, 706, 968, 979, 1226
NlaIV GGNNCC 1 cut(s) 207
NmuCI GTSAC 1 cut(s) 1214
NsbI TGCGCA 1 cut(s) 144
NsiI ATGCAT 1 cut(s) 402
NspI RCATGY 3 cut(s) 400, 461, 549
NspV TTCGAA 1 cut(s) 1186
PaeI GCATGC 1 cut(s) 461
PagI TCATGA 2 cut(s) 964, 1222
PcsI WCGNNNNNNNCGW 1 cut(s) 122
PctI GAATGC 3 cut(s) 127, 337, 906
PfeI GAWTC 2 cut(s) 799, 812
Pfl23II CGTACG 1 cut(s) 1270
PkrI GCNGC 5 cut(s) 81, 99, 365, 883, 935
PluTI GGCGCC 1 cut(s) 209
PshAI GACNNNNGTC 1 cut(s) 1281
PshBI ATTAAT 1 cut(s) 1238
PsiI TTATAA 2 cut(s) 293, 762
Psp6I CCWGG 2 cut(s) 928, 1171
PspFI CCCAGC 1 cut(s) 134
PspGI CCWGG 2 cut(s) 928, 1171
PspLI CGTACG 1 cut(s) 1270
PspN4I GGNNCC 1 cut(s) 207
PstI CTGCAG 1 cut(s) 938
PsuI RGATCY 1 cut(s) 1072
RsaI GTAC 4 cut(s) 487, 550, 1165, 1272
RsaNI GTAC 4 cut(s) 486, 549, 1164, 1271
RseI CAYNNNNRTG 2 cut(s) 462, 707
SalI GTCGAC 1 cut(s) 28
SaqAI TTAA 4 cut(s) 87, 696, 1023, 1238
SatI GCNGC 5 cut(s) 80, 98, 364, 882, 934
Sau3AI GATC 3 cut(s) 36, 649, 1072
ScaI AGTACT 1 cut(s) 1165
ScrFI CCNGG 2 cut(s) 930, 1173
SduI GDGCHC 3 cut(s) 262, 633, 822
SfaNI GCATC 4 cut(s) 84, 868, 1000, 1102
SfcI CTRYAG 1 cut(s) 934
SfoI GGCGCC 1 cut(s) 207
SfuI TTCGAA 1 cut(s) 1186
SmiMI CAYNNNNRTG 2 cut(s) 462, 707
SmlI CTYRAG 1 cut(s) 578
SmoI CTYRAG 1 cut(s) 578
SphI GCATGC 1 cut(s) 461
Sse9I AATT 6 cut(s) 519, 968, 1182, 1188, 1235, 1248
SsiI CCGC 5 cut(s) 79, 98, 240, 303, 341
SspDI GGCGCC 1 cut(s) 205
SspMI CTAG 4 cut(s) 378, 809, 1049, 1167
StyD4I CCNGG 2 cut(s) 928, 1171
TaaI ACNGT 3 cut(s) 503, 888, 1220
TaiI ACGT 1 cut(s) 527
TaqI TCGA 3 cut(s) 29, 860, 1186
TaqII GACCGA 1 cut(s) 1293
TasI AATT 6 cut(s) 519, 968, 1182, 1188, 1235, 1248
TatI WGTACW 2 cut(s) 548, 1163
TauI GCSGC 2 cut(s) 82, 100
TfiI GAWTC 2 cut(s) 799, 812
Tru1I TTAA 4 cut(s) 87, 696, 1023, 1238
Tru9I TTAA 4 cut(s) 87, 696, 1023, 1238
TscAI CASTG 2 cut(s) 46, 893
TseFI GTSAC 1 cut(s) 1214
TseI GCWGC 3 cut(s) 363, 881, 933
Tsp45I GTSAC 1 cut(s) 1214
TspRI CASTG 2 cut(s) 46, 893
VspI ATTAAT 1 cut(s) 1238
XapI RAATTY 1 cut(s) 968
XceI RCATGY 3 cut(s) 400, 461, 549
XmiI GTMKAC 2 cut(s) 29, 892
XspI CTAG 4 cut(s) 378, 809, 1049, 1167
ZrmI AGTACT 1 cut(s) 1165
Zsp2I ATGCAT 1 cut(s) 402
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.