RchiOBHm_Chr6g0277371

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0015465
Physical Location & Seq
Reverse (-)
39832828 .. 39834509
1682 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1557 bp
ATGATACTAGAAATCCTGGCTCTGCCTGTGCTTATTCGGAATCACCTCTCTCAAGGATCACCTACACAAGCTCTCCTCGTCTACACCCAAATTCGTCGGCAAGGCATCTACAGTTGGGGTGTGCTCCCCTTGATTCTCAAGGCTTGTGCTGCTCTTTCCTCAATAAACCACGGGAAATCGGTGCACGCAGAGTGTGTCAAGGCTGGTGTGCATTGTGATGTATTGGTTGGCACCTCATTGGTTGACATGTATGCGAAATGCGGGGACGTTTCTGAGTCCCGGAAAGTGTTTGATTATATGCCTCAGAGAAATGTGGTAAGTTGGAATGCCATGATTGGTGGGTACTGGAGAAATGGGGATGCAGCATCTGCGTTGGTTTTGTTTGAGGAGATGTCAGTGCGGACGTATGTGACTTGGGCTGAGATGATCACCGGGTTTGCAAGGACTGGAGATACTGTTAGCGCTAGGCGGTTTTTTGATCAGGTTCCACTGGAGTTGAAGAATGTGATTACGTGGACTGTGATGGTTGATGGGTATTGTAGCAACGGGCAGATGGAGATGGCGAGGCAAGTTTTCGAGGCAATGCCCCGGCGCAATCACTTTGTTTGGTCGTCAATGATTTCTGGGTATTGCAAGTTAGGTGATGTTGAGGAGGCTAGGATCGTTTTCGATAGAATCCCAGTCCGGAACTTGGTGAATTGGAATTCGATGATATCTGGATATGCGCAAAATGGGTTTTGCGGGGAAGCTTTGAAAGCGTTTGAGAACATGCAAGCCCAAGGCTTTGAGCCAGATGAATTCACTGTTGTGAGTGTGTTATCTGCATGTGCTCAGTCTGGGCTATTAGATGTTGGCAAGGATATACACAACATGTTGAGTCATAAAAGGATAAAGCTCAATCAGATTGTTCTCAATGCACTTGTAGACATGTATGCAAAATGTGGCGACTTGATCAATGCAAGGTTGGTCTTTGATGAGATGGCTGAGAGGAACAGTGCTTGTTGGAATGCTATGATTTCAAGCATGGCTATTCATGGACAGTGCAAGGAGGCTCTTGAATTGTTTAGCAGAATGGAGGATTCAAATGAAAAGCCTGATGAGATAACCTTTCTTTCTGTTCTGTCAGCTTGTGCGCATGGAGGTTTAGTAGATGAAGGCATGGAACTTTTCTCCAAGATGCAGAAGAAATATGGTTTGGAAGCAGGAATTAAGCATTATGGGTGCTTAGTTGACCTTTTGGGACGGGCTGGAAGGTTAAGAGAAGCTTACGCTTTAGTGAAAAGTATGCCCATGAAACCCAATGACATGGTTTGGGGGGCTGTGCTTGGAGCTTGCCGGATTTATATGGATATGGAAATGACAGAACAGGTAGCCAAGGATATTAGCACCCAAAATTCAGACAATCAGTCGGGCGATAATTCACATTATGTGCTTCTGTCAAATATTTATGCTGCTTCTGATAGATGGGAGAAGGCTGAGAGGACGAGAATGGACTTGGTAAACGTAGGCTTTCAAAAGACACCTGCTCACAGTGCATTTATGCCCTGCGGCGCATAG

Protein Analysis

518

Amino Acids

57.69

Weight (kDa)

5.99

Isoelectric Point (pI)

39.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 103 - 133 2.4e-06 PPR repeat family
PPR PF01535 106 - 132 4.6e-06 PPR repeat
PPR_2 PF13041 167 - 199 6.8e-08 PPR repeat family
PPR_1 PF12854 168 - 195 3.5e-06 PPR repeat
PPR PF01535 170 - 199 4.6e-08 PPR repeat
PPR PF01535 202 - 229 3.8e-07 PPR repeat
PPR_2 PF13041 230 - 277 3.4e-10 PPR repeat family
PPR PF01535 233 - 262 2.7e-07 PPR repeat
TPR_24 PF23276 268 - 331 5.7e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 331 - 379 2e-10 PPR repeat family
PPR PF01535 334 - 361 1.4e-06 PPR repeat
E_motif PF20431 469 - 510 5e-07 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: OG0015465)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G21470
fragaria_vesca FvH4_2g14800 FvH4_7g25011
malus_domestica MD05G1012400.v1.1
prunus_persica Prupe.8G017700_v2.0.a1
pyrus_communis pycom05g00720
rosa_chinensis RchiOBHm_Chr6g0277371
rosa_laevigata RLG00000013306 RLG00000029733
rosa_multiflora Rmu_co8197674.1_g000001 Rmu_sc0000030.1_g000011
rosa_roxburghii Rroxscaffold_7G00191390
rosa_rugosa Rorug01G0093200 Rorug06G0107700
rosa_samantha Rh6AG218600 Rh6DG215300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1531
Acc16I TGCGCA 2 cut(s) 726, 1134
Acc36I ACCTGC 1 cut(s) 1531
AccB1I GGYRCC 1 cut(s) 230
AccI GTMKAC 2 cut(s) 81, 924
AccIII TCCGGA 1 cut(s) 684
AciI CCGC 5 cut(s) 261, 400, 469, 741, 1548
AclWI GGATC 2 cut(s) 64, 668
AcsI RAATTY 4 cut(s) 90, 703, 797, 1393
AfaI GTAC 1 cut(s) 344
AfeI AGCGCT 1 cut(s) 463
AfiI CCNNNNNNNGG 1 cut(s) 691
AflIII ACRYGT 3 cut(s) 246, 870, 927
AgsI TTSAA 6 cut(s) 499, 754, 1020, 1058, 1083, 1514
AhdI GACNNNNNGTC 1 cut(s) 1405
AjnI CCWGG 1 cut(s) 15
AjuI GAANNNNNNNTTGG 2 cut(s) 1178, 1210
AleI CACNNNNGTG 1 cut(s) 806
AluBI AGCT 6 cut(s) 71, 749, 895, 1127, 1265, 1331
AluI AGCT 6 cut(s) 71, 749, 895, 1127, 1265, 1331
Alw21I GWGCWC 3 cut(s) 126, 186, 832
Alw44I GTGCAC 1 cut(s) 182
AlwI GGATC 2 cut(s) 64, 668
AlwNI CAGNNNCTG 1 cut(s) 368
Aor13HI TCCGGA 1 cut(s) 684
Aor51HI AGCGCT 1 cut(s) 463
ApaLI GTGCAC 1 cut(s) 182
ApeKI GCWGC 3 cut(s) 149, 362, 1451
ApoI RAATTY 4 cut(s) 90, 703, 797, 1393
AspLEI GCGC 5 cut(s) 464, 594, 727, 1135, 1553
AsuC2I CCSGG 3 cut(s) 280, 433, 589
AsuHPI GGTGA 5 cut(s) 35, 51, 421, 653, 706
BaeGI GKGCMC 1 cut(s) 186
BanI GGYRCC 1 cut(s) 230
Bbv12I GWGCWC 3 cut(s) 126, 186, 832
BbvI GCAGC 3 cut(s) 136, 374, 1438
BccI CCATC 6 cut(s) 517, 524, 547, 553, 973, 1458
BciT130I CCWGG 1 cut(s) 17
BclI TGATCA 3 cut(s) 426, 478, 951
BcnI CCSGG 3 cut(s) 280, 433, 589
BfaI CTAG 3 cut(s) 8, 465, 657
BfmI CTRYAG 1 cut(s) 109
BfoI RGCGCY 1 cut(s) 465
BfuAI ACCTGC 1 cut(s) 1531
BisI GCNGC 4 cut(s) 150, 363, 1452, 1549
BlsI GCNGC 4 cut(s) 151, 364, 1453, 1550
Bme1390I CCNGG 4 cut(s) 17, 280, 433, 589
BmeRI GACNNNNNGTC 1 cut(s) 1405
BmiI GGNNCC 2 cut(s) 232, 486
BmrFI CCNGG 4 cut(s) 17, 280, 433, 589
BmrI ACTGGG 1 cut(s) 674
BmsI GCATC 4 cut(s) 114, 349, 374, 1167
BmuI ACTGGG 1 cut(s) 674
BpmI CTGGAG 3 cut(s) 367, 468, 512
BpuEI CTTGAG 2 cut(s) 36, 122
BpuMI CCSGG 3 cut(s) 280, 433, 589
BsaAI YACGTR 1 cut(s) 513
BsaJI CCNNGG 4 cut(s) 169, 587, 778, 1374
BsaWI WCCGGW 1 cut(s) 684
BsaXI ACNNNNNCTCC 6 cut(s) 57, 87, 441, 471, 1131, 1161
Bsc4I CCNNNNNNNGG 1 cut(s) 691
Bse1I ACTGG 4 cut(s) 350, 451, 495, 680
Bse3DI GCAATG 1 cut(s) 588
BseAI TCCGGA 1 cut(s) 684
BseBI CCWGG 1 cut(s) 17
BseDI CCNNGG 4 cut(s) 169, 587, 778, 1374
BseGI GGATG 1 cut(s) 364
BseLI CCNNNNNNNGG 1 cut(s) 691
BseMI GCAATG 1 cut(s) 588
BseMII CTCAG 6 cut(s) 264, 317, 411, 845, 975, 1467
BseNI ACTGG 4 cut(s) 350, 451, 495, 680
BseRI GAGGAG 3 cut(s) 65, 401, 665
BseSI GKGCMC 1 cut(s) 186
BseXI GCAGC 3 cut(s) 136, 374, 1438
BshNI GGYRCC 1 cut(s) 230
BsiHKAI GWGCWC 3 cut(s) 126, 186, 832
BsiSI CCGG 5 cut(s) 280, 432, 589, 685, 1336
BslFI GGGAC 3 cut(s) 262, 278, 1254
BslI CCNNNNNNNGG 1 cut(s) 691
BsmFI GGGAC 3 cut(s) 262, 278, 1254
BsmI GAATGC 2 cut(s) 331, 1012
Bsp1286I GDGCHC 3 cut(s) 126, 186, 832
Bsp13I TCCGGA 1 cut(s) 684
Bsp143I GATC 5 cut(s) 56, 426, 478, 660, 951
BspACI CCGC 5 cut(s) 261, 400, 469, 741, 1548
BspCNI CTCAG 6 cut(s) 265, 316, 412, 844, 976, 1468
BspEI TCCGGA 1 cut(s) 684
BspLI GGNNCC 2 cut(s) 232, 486
BspMI ACCTGC 1 cut(s) 1531
BspPI GGATC 2 cut(s) 64, 668
BspT107I GGYRCC 1 cut(s) 230
BsrDI GCAATG 1 cut(s) 588
BsrI ACTGG 4 cut(s) 350, 451, 495, 680
BssECI CCNNGG 4 cut(s) 169, 587, 778, 1374
BssMI GATC 5 cut(s) 56, 426, 478, 660, 951
BssT1I CCWWGG 2 cut(s) 778, 1374
Bst2UI CCWGG 1 cut(s) 17
Bst4CI ACNGT 7 cut(s) 113, 457, 520, 805, 995, 1041, 1532
BstAPI GCANNNNNTGC 1 cut(s) 368
BstBAI YACGTR 1 cut(s) 513
BstC8I GCNNGC 3 cut(s) 186, 774, 1333
BstDEI CTNAG 7 cut(s) 273, 303, 420, 831, 984, 1225, 1476
BstDSI CCRYGG 1 cut(s) 169
BstF5I GGATG 1 cut(s) 364
BstH2I RGCGCY 1 cut(s) 465
BstHHI GCGC 5 cut(s) 464, 594, 727, 1135, 1553
BstKTI GATC 5 cut(s) 59, 429, 481, 663, 954
BstMBI GATC 5 cut(s) 56, 426, 478, 660, 951
BstMWI GCNNNNNNNGC 4 cut(s) 149, 368, 755, 1532
BstNI CCWGG 1 cut(s) 17
BstNSI RCATGY 5 cut(s) 250, 772, 828, 874, 931
BstSCI CCNGG 4 cut(s) 15, 278, 431, 587
BstSFI CTRYAG 1 cut(s) 109
BstSLI GKGCMC 1 cut(s) 186
BstV1I GCAGC 3 cut(s) 136, 374, 1438
BstXI CCANNNNNNTGG 1 cut(s) 1306
BtgI CCRYGG 1 cut(s) 169
BtsCI GGATG 1 cut(s) 364
BtsIMutI CAGTG 6 cut(s) 402, 488, 801, 1000, 1046, 1537
BveI ACCTGC 1 cut(s) 1531
Cac8I GCNNGC 3 cut(s) 186, 774, 1333
CaiI CAGNNNCTG 1 cut(s) 368
CfoI GCGC 5 cut(s) 464, 594, 727, 1135, 1553
Csp6I GTAC 1 cut(s) 343
CspCI CAANNNNNGTGG 2 cut(s) 477, 512
CviQI GTAC 1 cut(s) 343
DdeI CTNAG 7 cut(s) 273, 303, 420, 831, 984, 1225, 1476
DpnI GATC 5 cut(s) 58, 428, 480, 662, 953
DpnII GATC 5 cut(s) 56, 426, 478, 660, 951
DriI GACNNNNNGTC 1 cut(s) 1405
Eam1105I GACNNNNNGTC 1 cut(s) 1405
Eco130I CCWWGG 2 cut(s) 778, 1374
Eco32I GATATC 1 cut(s) 714
Eco47III AGCGCT 1 cut(s) 463
EcoRI GAATTC 2 cut(s) 703, 797
EcoRII CCWGG 1 cut(s) 15
EcoRV GATATC 1 cut(s) 714
EcoT14I CCWWGG 2 cut(s) 778, 1374
ErhI CCWWGG 2 cut(s) 778, 1374
FalI AAGNNNNNCTT 2 cut(s) 1249, 1281
FaqI GGGAC 3 cut(s) 262, 278, 1254
FauI CCCGC 2 cut(s) 254, 734
FbaI TGATCA 3 cut(s) 426, 478, 951
FblI GTMKAC 2 cut(s) 81, 924
Fnu4HI GCNGC 4 cut(s) 150, 363, 1452, 1549
FokI GGATG 1 cut(s) 371
Fsp4HI GCNGC 4 cut(s) 150, 363, 1452, 1549
FspAI RTGCGCAY 1 cut(s) 1134
FspBI CTAG 3 cut(s) 8, 465, 657
FspI TGCGCA 2 cut(s) 726, 1134
GlaI GCGC 5 cut(s) 463, 593, 726, 1134, 1552
GluI GCNGC 4 cut(s) 150, 363, 1452, 1549
GsuI CTGGAG 3 cut(s) 367, 468, 512
HaeII RGCGCY 1 cut(s) 465
HapII CCGG 5 cut(s) 280, 432, 589, 685, 1336
HhaI GCGC 5 cut(s) 464, 594, 727, 1135, 1553
Hin6I GCGC 5 cut(s) 462, 592, 725, 1133, 1551
HinP1I GCGC 5 cut(s) 462, 592, 725, 1133, 1551
HincII GTYRAC 2 cut(s) 244, 1231
HindII GTYRAC 2 cut(s) 244, 1231
HindIII AAGCTT 2 cut(s) 747, 1263
HinfI GANTC 6 cut(s) 40, 133, 275, 675, 877, 1079
HpaII CCGG 5 cut(s) 280, 432, 589, 685, 1336
HphI GGTGA 5 cut(s) 35, 51, 421, 653, 706
Hpy166II GTNNAC 7 cut(s) 82, 184, 244, 516, 925, 1231, 1501
Hpy188I TCNGA 6 cut(s) 39, 274, 306, 903, 1399, 1459
Hpy188III TCNNGA 3 cut(s) 685, 717, 1055
Hpy8I GTNNAC 7 cut(s) 82, 184, 244, 516, 925, 1231, 1501
Hpy99I CGWCG 1 cut(s) 99
HpyAV CCTTC 3 cut(s) 1148, 1245, 1465
HpyCH4III ACNGT 7 cut(s) 113, 457, 520, 805, 995, 1041, 1532
HpyCH4IV ACGT 4 cut(s) 267, 404, 512, 1503
HpyF10VI GCNNNNNNNGC 4 cut(s) 149, 368, 755, 1532
HpyF3I CTNAG 7 cut(s) 273, 303, 420, 831, 984, 1225, 1476
HpySE526I ACGT 4 cut(s) 267, 404, 512, 1503
HspAI GCGC 5 cut(s) 462, 592, 725, 1133, 1551
Kpn2I TCCGGA 1 cut(s) 684
Ksp22I TGATCA 3 cut(s) 426, 478, 951
Kzo9I GATC 5 cut(s) 56, 426, 478, 660, 951
LmnI GCTCC 2 cut(s) 129, 1328
Lsp1109I GCAGC 3 cut(s) 136, 374, 1438
LweI GCATC 4 cut(s) 114, 349, 374, 1167
MaeI CTAG 3 cut(s) 8, 465, 657
MaeII ACGT 4 cut(s) 267, 404, 512, 1503
MaeIII GTNAC 1 cut(s) 409
MalI GATC 5 cut(s) 58, 428, 480, 662, 953
MboI GATC 5 cut(s) 56, 426, 478, 660, 951
MboII GAAGA 2 cut(s) 511, 1195
MhlI GDGCHC 3 cut(s) 126, 186, 832
MluCI AATT 8 cut(s) 90, 697, 703, 797, 1058, 1206, 1393, 1417
MlyI GAGTC 2 cut(s) 284, 886
MmeI TCCRAC 2 cut(s) 302, 983
MroI TCCGGA 1 cut(s) 684
MseI TTAA 2 cut(s) 1209, 1256
MslI CAYNNNNRTG 2 cut(s) 216, 806
MspI CCGG 5 cut(s) 280, 432, 589, 685, 1336
MspR9I CCNGG 4 cut(s) 17, 280, 433, 589
Mva1269I GAATGC 2 cut(s) 331, 1012
MvaI CCWGG 1 cut(s) 17
MwoI GCNNNNNNNGC 4 cut(s) 149, 368, 755, 1532
NciI CCSGG 3 cut(s) 280, 433, 589
NdeII GATC 5 cut(s) 56, 426, 478, 660, 951
NlaIV GGNNCC 2 cut(s) 232, 486
NmuCI GTSAC 1 cut(s) 409
NsbI TGCGCA 2 cut(s) 726, 1134
NspI RCATGY 5 cut(s) 250, 772, 828, 874, 931
OliI CACNNNNGTG 1 cut(s) 806
PaqCI CACCTGC 1 cut(s) 1531
PciI ACATGT 3 cut(s) 246, 870, 927
PctI GAATGC 2 cut(s) 331, 1012
PfeI GAWTC 4 cut(s) 40, 133, 675, 1079
PfoI TCCNGGA 1 cut(s) 278
PkrI GCNGC 4 cut(s) 151, 364, 1453, 1550
PleI GAGTC 2 cut(s) 283, 885
PpsI GAGTC 2 cut(s) 283, 885
Ppu21I YACGTR 1 cut(s) 513
PscI ACATGT 3 cut(s) 246, 870, 927
Psp6I CCWGG 1 cut(s) 15
PspGI CCWGG 1 cut(s) 15
PspN4I GGNNCC 2 cut(s) 232, 486
PstNI CAGNNNCTG 1 cut(s) 368
RsaI GTAC 1 cut(s) 344
RsaNI GTAC 1 cut(s) 343
RseI CAYNNNNRTG 2 cut(s) 216, 806
SaqAI TTAA 2 cut(s) 1209, 1256
SatI GCNGC 4 cut(s) 150, 363, 1452, 1549
Sau3AI GATC 5 cut(s) 56, 426, 478, 660, 951
SchI GAGTC 2 cut(s) 284, 886
ScrFI CCNGG 4 cut(s) 17, 280, 433, 589
SduI GDGCHC 3 cut(s) 126, 186, 832
SfaNI GCATC 4 cut(s) 114, 349, 374, 1167
SfcI CTRYAG 1 cut(s) 109
SmiMI CAYNNNNRTG 2 cut(s) 216, 806
SmlI CTYRAG 2 cut(s) 51, 137
SmoI CTYRAG 2 cut(s) 51, 137
Sse9I AATT 8 cut(s) 90, 697, 703, 797, 1058, 1206, 1393, 1417
SsiI CCGC 5 cut(s) 261, 400, 469, 741, 1548
SspI AATATT 1 cut(s) 1444
SspMI CTAG 3 cut(s) 8, 465, 657
StyD4I CCNGG 4 cut(s) 15, 278, 431, 587
StyI CCWWGG 2 cut(s) 778, 1374
TaaI ACNGT 7 cut(s) 113, 457, 520, 805, 995, 1041, 1532
TaiI ACGT 4 cut(s) 270, 407, 515, 1506
TaqI TCGA 3 cut(s) 576, 669, 707
TasI AATT 8 cut(s) 90, 697, 703, 797, 1058, 1206, 1393, 1417
TauI GCSGC 1 cut(s) 1551
TfiI GAWTC 4 cut(s) 40, 133, 675, 1079
Tru1I TTAA 2 cut(s) 1209, 1256
Tru9I TTAA 2 cut(s) 1209, 1256
TscAI CASTG 6 cut(s) 402, 495, 808, 1000, 1046, 1537
TseFI GTSAC 1 cut(s) 409
TseI GCWGC 3 cut(s) 149, 362, 1451
Tsp45I GTSAC 1 cut(s) 409
TspDTI ATGAA 5 cut(s) 810, 1022, 1101, 1167, 1307
TspRI CASTG 6 cut(s) 402, 495, 808, 1000, 1046, 1537
VneI GTGCAC 1 cut(s) 182
XapI RAATTY 4 cut(s) 90, 703, 797, 1393
XceI RCATGY 5 cut(s) 250, 772, 828, 874, 931
XmiI GTMKAC 2 cut(s) 81, 924
XspI CTAG 3 cut(s) 8, 465, 657
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.