Rh6AG454900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0016771
Physical Location & Seq
Forward (+)
63999625 .. 64000999
1375 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG454900.1

Sequence Viewer

Length: 1236 bp
ATGGCATCAGTCTTAAGAGTTCTATCAGCGACGAGAAGAGTTTTAGAAATTCCGAGTAGCTCTCAGTCTCAGCGTTGTTGGCTAAGTAACCAAGCGTGCTTGCTTCGGAGGTTGATGGAGGAACCCAAATCGCGAATCAAAACCCTTCTTGCTTCTGCGGCGGAGAAAGACTCTGCCTCTGATTTTTCTTGGGAATCACTCGTTAGTTCTCTCGCTTCTTCTTCCTCTCCTGACAAAACCCACTTGGTTCTGGAATGGAAATTGGAGAAGTTGCTAAAGGAGAATGAGAGAGATCATGATCGTTACTGTGAGCTGATATCTCTATGTGGAAAAGTTCGGAATCTTCCACTTGCAATGCAAGTCTTTTCTTCTATGGAGGCTAATGGAGTTCAACCCACTTCTGCAGTTTTCAATTCCCTTATTCATGTTTGCTTCTCTTCCGGGAATTTGTTCACTGCTATCAGCTTGTTTGAGATTATGGAGAGCTCAGAGGGATTTAAACCTGATTCCGACACTTACGATGCATTCATGTCTGCTTTCTTAAAGTCGGGCAAAACTGATTTGATGCAAGCTTGGTACTCTGCCAAGAAAGCTGCTGGCTTTGATTCTGATATTCAAACCTATCAGTCTCTGATTTCGGGTTGTATCAAATTGAAAAAGTATGAGCTTGCTGATATGTTCTACAAAGAAATGGTATTATCGGGAATCTGGCCCAACTTACCCATATTGGAGTATATGCTGGAAGGGCTTTGCAAGAGGAGAAGCTCTGGCCAAGTCAAAGAATTTTTGGCGATGGTGTGTGGTTATGGGTGGAAGATGAGTGAAAAAATGGCTGAGATGGTTGTGGGGTTGCATATCGAACTTGGGAAGGTGGAGCGATTGGAGGAGCTACTCGAGACTTTAATGGAGAGTGATCAGACTTCGGAAGTTTTGTTGCCGGTCCACTATGGGATTATAAGGATGTACGCCATGTTGGATAGATTAGATGATGTAGAGTACTCTGTGGGTAGAATGTTGAAACAAGGATTGTCATTTAAACATCCAGATGATGTAGAAAGGGTGATATGCTCGTACTTCAGGCTCTCCGAGTATGAGAGGCTGGAGTTGTTCTTGGAATGTATCAAGGGTTCTTATGAACTTACAGGATCGACTTATGATTTATTGGTTGCTGGCTATCGAAGAGCCGGGTTATCTGACAAGTTGAGTGATATGAAACTAGATGGTGGATCTTCATAG
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

411

Amino Acids

46.46

Weight (kDa)

5.42

Isoelectric Point (pI)

44.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 101 - 144 4.7e-08 Pentatricopeptide repeat domain
TPR_24 PF23276 106 - 231 6.9e-08 Fungal tetratrico peptide repeats
PPR_long PF17177 115 - 187 5.6e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 132 - 181 2.9e-07 PPR repeat family
PPR_2 PF13041 204 - 252 7.3e-06 PPR repeat family
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: OG0016771)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g36160
malus_domestica MD08G1118800.v1.1
prunus_persica Prupe.1G453000_v2.0.a1
pyrus_communis pycom08g09920
rosa_chinensis RchiOBHm_Chr6g0305711
rosa_laevigata RLG00000010866
rosa_multiflora Rmu_sc0001809.1_g000036
rosa_roxburghii Rroxscaffold_7G00162420
rosa_rugosa Rorug06G0343400
rosa_samantha Rh6AG454900 Rh6BG446600 Rh6CG468800 Rh6DG455400
rosa_wichuraiana Rw6G039670

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 956
AccII CGCG 1 cut(s) 133
AciI CCGC 2 cut(s) 158, 161
AclWI GGATC 2 cut(s) 1153, 1234
AcoI YGGCCR 1 cut(s) 769
AcsI RAATTY 3 cut(s) 48, 445, 782
AcuI CTGAAG 1 cut(s) 1060
AfaI GTAC 4 cut(s) 578, 965, 998, 1073
AflII CTTAAG 1 cut(s) 13
AgsI TTSAA 5 cut(s) 392, 412, 617, 655, 1018
AluBI AGCT 9 cut(s) 60, 313, 465, 486, 572, 593, 667, 765, 889
AluI AGCT 9 cut(s) 60, 313, 465, 486, 572, 593, 667, 765, 889
Alw21I GWGCWC 1 cut(s) 488
Alw26I GTCTC 3 cut(s) 72, 633, 890
AlwI GGATC 2 cut(s) 1153, 1234
AlwNI CAGNNNCTG 1 cut(s) 631
Ama87I CYCGRG 1 cut(s) 893
AoxI GGCC 2 cut(s) 710, 769
ApeKI GCWGC 1 cut(s) 593
ApoI RAATTY 3 cut(s) 48, 445, 782
Asp700I GAANNNNTTC 1 cut(s) 449
AspS9I GGNCC 2 cut(s) 711, 940
AsuC2I CCSGG 2 cut(s) 442, 1186
AsuHPI GGTGA 1 cut(s) 1072
AvaI CYCGRG 1 cut(s) 893
AvaII GGWCC 1 cut(s) 940
BalI TGGCCA 1 cut(s) 771
BanII GRGCYC 1 cut(s) 488
Bbv12I GWGCWC 1 cut(s) 488
BbvI GCAGC 1 cut(s) 580
BccI CCATC 4 cut(s) 109, 787, 832, 1214
BclI TGATCA 1 cut(s) 913
BcnI CCSGG 2 cut(s) 442, 1186
BcoDI GTCTC 3 cut(s) 72, 633, 890
BfaI CTAG 1 cut(s) 1217
BfmI CTRYAG 1 cut(s) 402
BfrI CTTAAG 1 cut(s) 13
BisI GCNGC 2 cut(s) 159, 594
BlsI GCNGC 2 cut(s) 160, 595
BmcAI AGTACT 1 cut(s) 998
Bme1390I CCNGG 2 cut(s) 442, 1186
Bme18I GGWCC 1 cut(s) 940
BmeT110I CYCGRG 1 cut(s) 893
BmgT120I GGNCC 2 cut(s) 711, 940
BmiI GGNNCC 1 cut(s) 123
BmrFI CCNGG 2 cut(s) 442, 1186
BmsI GCATC 3 cut(s) 14, 511, 555
BplI GAGNNNNNCTC 4 cut(s) 46, 78, 155, 187
BpmI CTGGAG 1 cut(s) 1121
BpuMI CCSGG 2 cut(s) 442, 1186
BsaBI GATNNNNATC 1 cut(s) 297
Bse118I RCCGGY 1 cut(s) 937
Bse3DI GCAATG 1 cut(s) 360
Bse8I GATNNNNATC 1 cut(s) 297
BseGI GGATG 2 cut(s) 966, 1039
BseJI GATNNNNATC 1 cut(s) 297
BseMI GCAATG 1 cut(s) 360
BseMII CTCAG 4 cut(s) 77, 83, 501, 825
BseRI GAGGAG 2 cut(s) 772, 899
BseXI GCAGC 1 cut(s) 580
Bsh1236I CGCG 1 cut(s) 133
BshFI GGCC 2 cut(s) 712, 771
BsiHKAI GWGCWC 1 cut(s) 488
BsiHKCI CYCGRG 1 cut(s) 893
BsiSI CCGG 3 cut(s) 441, 938, 1185
BsmAI GTCTC 3 cut(s) 72, 633, 890
BsmI GAATGC 1 cut(s) 524
BsnI GGCC 2 cut(s) 712, 771
BsoBI CYCGRG 1 cut(s) 893
Bsp1286I GDGCHC 1 cut(s) 488
Bsp143I GATC 5 cut(s) 292, 298, 913, 1145, 1226
Bsp68I TCGCGA 1 cut(s) 133
BspACI CCGC 2 cut(s) 158, 161
BspANI GGCC 2 cut(s) 712, 771
BspCNI CTCAG 4 cut(s) 76, 82, 500, 826
BspFNI CGCG 1 cut(s) 133
BspHI TCATGA 1 cut(s) 295
BspLI GGNNCC 1 cut(s) 123
BspMAI CTGCAG 1 cut(s) 406
BspPI GGATC 2 cut(s) 1153, 1234
BspQI GCTCTTC 1 cut(s) 1174
BspTI CTTAAG 1 cut(s) 13
BsrDI GCAATG 1 cut(s) 360
BsrFI RCCGGY 1 cut(s) 937
BssAI RCCGGY 1 cut(s) 937
BssMI GATC 5 cut(s) 292, 298, 913, 1145, 1226
Bst4CI ACNGT 1 cut(s) 308
Bst6I CTCTTC 3 cut(s) 31, 442, 1174
BstAFI CTTAAG 1 cut(s) 13
BstC8I GCNNGC 6 cut(s) 97, 101, 570, 598, 669, 1171
BstDEI CTNAG 5 cut(s) 63, 69, 83, 487, 834
BstF5I GGATG 2 cut(s) 966, 1039
BstFNI CGCG 1 cut(s) 133
BstKTI GATC 5 cut(s) 295, 301, 916, 1148, 1229
BstMAI GTCTC 3 cut(s) 72, 633, 890
BstMBI GATC 5 cut(s) 292, 298, 913, 1145, 1226
BstMWI GCNNNNNNNGC 4 cut(s) 79, 158, 590, 745
BstSCI CCNGG 2 cut(s) 440, 1184
BstSFI CTRYAG 1 cut(s) 402
BstUI CGCG 1 cut(s) 133
BstV1I GCAGC 1 cut(s) 580
BstX2I RGATCY 1 cut(s) 1226
BstYI RGATCY 1 cut(s) 1226
BsuRI GGCC 2 cut(s) 712, 771
BtgZI GCGATG 1 cut(s) 806
BtsCI GGATG 2 cut(s) 966, 1039
BtsI GCAGTG 1 cut(s) 453
BtsIMutI CAGTG 1 cut(s) 453
BtuMI TCGCGA 1 cut(s) 133
Cac8I GCNNGC 6 cut(s) 97, 101, 570, 598, 669, 1171
CaiI CAGNNNCTG 1 cut(s) 631
CciI TCATGA 1 cut(s) 295
Cfr10I RCCGGY 1 cut(s) 937
Cfr13I GGNCC 2 cut(s) 711, 940
Csp6I GTAC 4 cut(s) 577, 964, 997, 1072
CviAII CATG 4 cut(s) 296, 425, 529, 970
CviQI GTAC 4 cut(s) 577, 964, 997, 1072
DdeI CTNAG 5 cut(s) 63, 69, 83, 487, 834
DpnI GATC 5 cut(s) 294, 300, 915, 1147, 1228
DpnII GATC 5 cut(s) 292, 298, 913, 1145, 1226
DraI TTTAAA 2 cut(s) 499, 1036
EaeI YGGCCR 1 cut(s) 769
Eam1104I CTCTTC 3 cut(s) 31, 442, 1174
EarI CTCTTC 3 cut(s) 31, 442, 1174
EciI GGCGGA 1 cut(s) 176
Ecl136II GAGCTC 1 cut(s) 486
Eco24I GRGCYC 1 cut(s) 488
Eco32I GATATC 1 cut(s) 318
Eco47I GGWCC 1 cut(s) 940
Eco53kI GAGCTC 1 cut(s) 486
Eco57I CTGAAG 1 cut(s) 1060
Eco88I CYCGRG 1 cut(s) 893
EcoICRI GAGCTC 1 cut(s) 486
EcoRV GATATC 1 cut(s) 318
EcoT22I ATGCAT 1 cut(s) 526
EcoT38I GRGCYC 1 cut(s) 488
FaeI CATG 4 cut(s) 299, 428, 532, 973
FatI CATG 4 cut(s) 295, 424, 528, 969
FbaI TGATCA 1 cut(s) 913
Fnu4HI GCNGC 2 cut(s) 159, 594
FokI GGATG 2 cut(s) 973, 1026
FriOI GRGCYC 1 cut(s) 488
Fsp4HI GCNGC 2 cut(s) 159, 594
FspBI CTAG 1 cut(s) 1217
GluI GCNGC 2 cut(s) 159, 594
GsuI CTGGAG 1 cut(s) 1121
HaeIII GGCC 2 cut(s) 712, 771
HapII CCGG 3 cut(s) 441, 938, 1185
Hin1II CATG 4 cut(s) 299, 428, 532, 973
HindIII AAGCTT 1 cut(s) 570
HinfI GANTC 7 cut(s) 135, 170, 194, 340, 506, 605, 705
HpaII CCGG 3 cut(s) 441, 938, 1185
HphI GGTGA 1 cut(s) 1072
Hpy166II GTNNAC 2 cut(s) 453, 943
Hpy188III TCNNGA 7 cut(s) 132, 230, 251, 296, 702, 895, 1043
Hpy8I GTNNAC 2 cut(s) 453, 943
Hpy99I CGWCG 1 cut(s) 34
HpyAV CCTTC 3 cut(s) 155, 737, 862
HpyCH4III ACNGT 1 cut(s) 308
HpyCH4V TGCA 7 cut(s) 353, 358, 404, 524, 568, 753, 853
HpyF10VI GCNNNNNNNGC 4 cut(s) 79, 158, 590, 745
HpyF3I CTNAG 5 cut(s) 63, 69, 83, 487, 834
Hsp92II CATG 4 cut(s) 299, 428, 532, 973
Ksp22I TGATCA 1 cut(s) 913
Kzo9I GATC 5 cut(s) 292, 298, 913, 1145, 1226
LguI GCTCTTC 1 cut(s) 1174
LmnI GCTCC 2 cut(s) 874, 886
Lsp1109I GCAGC 1 cut(s) 580
LweI GCATC 3 cut(s) 14, 511, 555
MaeI CTAG 1 cut(s) 1217
MaeIII GTNAC 2 cut(s) 86, 302
MalI GATC 5 cut(s) 294, 300, 915, 1147, 1228
MboI GATC 5 cut(s) 292, 298, 913, 1145, 1226
MboII GAAGA 9 cut(s) 48, 210, 213, 335, 360, 429, 826, 1191, 1221
MflI RGATCY 1 cut(s) 1226
MhlI GDGCHC 1 cut(s) 488
MlsI TGGCCA 1 cut(s) 771
MluCI AATT 6 cut(s) 48, 260, 412, 445, 650, 782
MluNI TGGCCA 1 cut(s) 771
MlyI GAGTC 1 cut(s) 164
MmeI TCCRAC 2 cut(s) 534, 954
MnlI CCTC 9 cut(s) 102, 112, 187, 235, 370, 484, 750, 877, 1089
Mox20I TGGCCA 1 cut(s) 771
Mph1103I ATGCAT 1 cut(s) 526
MroXI GAANNNNTTC 1 cut(s) 449
MscI TGGCCA 1 cut(s) 771
MseI TTAA 5 cut(s) 14, 498, 542, 902, 1035
MslI CAYNNNNRTG 1 cut(s) 1044
Msp20I TGGCCA 1 cut(s) 771
MspCI CTTAAG 1 cut(s) 13
MspI CCGG 3 cut(s) 441, 938, 1185
MspR9I CCNGG 2 cut(s) 442, 1186
Mva1269I GAATGC 1 cut(s) 524
MvnI CGCG 1 cut(s) 133
MwoI GCNNNNNNNGC 4 cut(s) 79, 158, 590, 745
NciI CCSGG 2 cut(s) 442, 1186
NdeII GATC 5 cut(s) 292, 298, 913, 1145, 1226
NlaIII CATG 4 cut(s) 299, 428, 532, 973
NlaIV GGNNCC 1 cut(s) 123
NruI TCGCGA 1 cut(s) 133
NsiI ATGCAT 1 cut(s) 526
PaeR7I CTCGAG 1 cut(s) 893
PagI TCATGA 1 cut(s) 295
PciSI GCTCTTC 1 cut(s) 1174
PctI GAATGC 1 cut(s) 524
PdmI GAANNNNTTC 1 cut(s) 449
PfeI GAWTC 6 cut(s) 135, 194, 340, 506, 605, 705
PfoI TCCNGGA 1 cut(s) 440
PkrI GCNGC 2 cut(s) 160, 595
PleI GAGTC 1 cut(s) 164
PpsI GAGTC 1 cut(s) 164
PsiI TTATAA 1 cut(s) 956
Psp124BI GAGCTC 1 cut(s) 488
PspN4I GGNNCC 1 cut(s) 123
PspPI GGNCC 2 cut(s) 711, 940
PsrI GAACNNNNNNTAC 2 cut(s) 1111, 1143
PstI CTGCAG 1 cut(s) 406
PstNI CAGNNNCTG 1 cut(s) 631
PsuI RGATCY 1 cut(s) 1226
RruI TCGCGA 1 cut(s) 133
RsaI GTAC 4 cut(s) 578, 965, 998, 1073
RsaNI GTAC 4 cut(s) 577, 964, 997, 1072
RseI CAYNNNNRTG 1 cut(s) 1044
SacI GAGCTC 1 cut(s) 488
SapI GCTCTTC 1 cut(s) 1174
SaqAI TTAA 5 cut(s) 14, 498, 542, 902, 1035
SatI GCNGC 2 cut(s) 159, 594
Sau3AI GATC 5 cut(s) 292, 298, 913, 1145, 1226
Sau96I GGNCC 2 cut(s) 711, 940
ScaI AGTACT 1 cut(s) 998
SchI GAGTC 1 cut(s) 164
ScrFI CCNGG 2 cut(s) 442, 1186
SduI GDGCHC 1 cut(s) 488
SfaNI GCATC 3 cut(s) 14, 511, 555
SfcI CTRYAG 1 cut(s) 402
Sfr274I CTCGAG 1 cut(s) 893
SinI GGWCC 1 cut(s) 940
SlaI CTCGAG 1 cut(s) 893
SmiMI CAYNNNNRTG 1 cut(s) 1044
SmlI CTYRAG 2 cut(s) 13, 893
SmoI CTYRAG 2 cut(s) 13, 893
Sse9I AATT 6 cut(s) 48, 260, 412, 445, 650, 782
SsiI CCGC 2 cut(s) 158, 161
SspMI CTAG 1 cut(s) 1217
SstI GAGCTC 1 cut(s) 488
StyD4I CCNGG 2 cut(s) 440, 1184
TaaI ACNGT 1 cut(s) 308
TaqI TCGA 4 cut(s) 858, 894, 1148, 1177
TasI AATT 6 cut(s) 48, 260, 412, 445, 650, 782
TatI WGTACW 1 cut(s) 996
TauI GCSGC 1 cut(s) 161
TfiI GAWTC 6 cut(s) 135, 194, 340, 506, 605, 705
Tru1I TTAA 5 cut(s) 14, 498, 542, 902, 1035
Tru9I TTAA 5 cut(s) 14, 498, 542, 902, 1035
TscAI CASTG 1 cut(s) 460
TseI GCWGC 1 cut(s) 593
TspDTI ATGAA 5 cut(s) 413, 517, 1149, 1221, 1226
TspRI CASTG 1 cut(s) 460
Vha464I CTTAAG 1 cut(s) 13
VpaK11BI GGWCC 1 cut(s) 940
XapI RAATTY 3 cut(s) 48, 445, 782
XhoI CTCGAG 1 cut(s) 893
XmnI GAANNNNTTC 1 cut(s) 449
XspI CTAG 1 cut(s) 1217
ZrmI AGTACT 1 cut(s) 998
Zsp2I ATGCAT 1 cut(s) 526
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.