RchiOBHm_Chr5g0028281

Pentatricopeptide repeat-containing protein At3g14580

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0016716
Physical Location & Seq
Forward (+)
22125470 .. 22126741
1272 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ30773

Sequence Viewer

Length: 1176 bp
ATGATTTCACGTTCTACCAAATTTGTCACCCACCCAATCCTTCAATCGCTAACCCAAACCCCATCTTTCTCCACACTCCCATCTTCCTTCTCCCAAATCCCAAAAAAGCTCCACCACAAAGACTGGCTATCCCCAAACGAAGTTCTCCAAGTCTTCACAGCCCTCCAAGACCCCAACTCAGTCCTCACAGCCCTCGACCACTACTCCAAGCGCAAGGACTACAAGCCCAATGAAGCCCTCTACACCTTGATCATCGACAAGCTCGCCCGAGCCCACCTCTTCGACGCCGTGGACAATGTCATGAACAGAATCAAATCCGAAAGGAAATGCCGGCTATCCGATGACTTCTTCCGCGGTGTTATCAAGAATTACGGCAATGTGGGTGGTCATATCAAGAAGGCGATACAGACCCTTTACGATATGCCCCGTTTCGGGTGCTGGCCCAGTGTGAAGACCTTCAATTTAGTTCTGCATTTGCTGGTCTCGACCAAGATGTTTGATGTTGTTCATCAGGTTTATTTGATGTCGCCGCAATTGGGTGTCGAGATTGATGCTTGCTGTTTGAATATAATCATCAAAGGGCTGTGCGAAAGTGGGAAGCTGGATAGCGCACTCCAGGTGCTCGACGAATTTCCCCAGCAGAAATGTGAGCCGAATGCGCTGACGTTTTCGACGCTGATGCATGGGCTCTGTGTCAATGGGAAAGTGGATGAGGCTTTTGGGTTGCTCAAGAGGATGGAAAATGAGGGCATTGAGCCGGATTCGGTCACGTTTAATATATTGATAGCAGGGCTTAGGAAACAGAAGAGATATGATGAGGGCATTGAGCTTTTGGAGCAAATGAAGCTCAAGGGGTGTGCTCCAAATCCAGCTTCCTATCAGGAGGTTTTGTATTGTTTGCTTGATGCACAGAGGTTCGCTGAGGCGAAACAGTTCATGATTCGGATGGTTTCAAAGCGTGTTGGTCCGAGTTTCGTGTCGTACAAGCAACTGATTCAGGGGTTGTGTAAAGAAAATAGGGTGGAGGATCTGGATTGGGTTTTGAGGCAGATGATGCGACAAGGTTTTGTGCCAAAGATGGGTATGTGGAGGCAGATTATCAGAAGTGTGTTTTCAAAGAAGAGCAACCATTATTGTGTTTCTTGTGAAGAGACTATAGATGATTTGATCACTTGA

Protein Analysis

391

Amino Acids

44.73

Weight (kDa)

8.79

Isoelectric Point (pI)

51.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 179 - 228 1e-05 Pentatricopeptide repeat domain
PPR_1 PF12854 180 - 210 8.3e-08 PPR repeat
PPR_2 PF13041 184 - 231 7.5e-13 PPR repeat family
TPR_24 PF23276 185 - 304 2.5e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 216 - 247 2e-11 PPR repeat
PPR PF01535 222 - 251 7.7e-08 PPR repeat
PPR_3 PF13812 222 - 262 3.4e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 225 - 266 1.9e-13 PPR repeat family
PPR_3 PF13812 242 - 295 1.7e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 250 - 282 9.6e-08 PPR repeat
PPR_2 PF13041 254 - 294 1e-09 PPR repeat family
PPR PF01535 256 - 286 5e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016716)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G14580
fragaria_vesca FvH4_3g16970
malus_domestica MD11G1276100.v1.1
prunus_persica Prupe.4G152100_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0028281
rosa_laevigata RLG00000033079
rosa_multiflora Rmu_sc0001571.1_g000002
rosa_roxburghii Rroxscaffold_1G00051440
rosa_rugosa Rorug05G0105500
rosa_samantha Rh5AG199000 Rh5BG197500 Rh5CG217300 Rh5DG199200
rosa_wichuraiana Rw5G018150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 354
AciI CCGC 3 cut(s) 352, 354, 530
AclWI GGATC 1 cut(s) 1035
AcsI RAATTY 2 cut(s) 20, 629
AcyI GRCGYC 1 cut(s) 285
AfaI GTAC 1 cut(s) 983
AfiI CCNNNNNNNGG 4 cut(s) 431, 432, 536, 1079
AgsI TTSAA 5 cut(s) 44, 460, 565, 954, 1116
AjnI CCWGG 1 cut(s) 615
AjuI GAANNNNNNNTTGG 2 cut(s) 856, 888
AluBI AGCT 6 cut(s) 109, 262, 601, 829, 847, 872
AluI AGCT 6 cut(s) 109, 262, 601, 829, 847, 872
Alw21I GWGCWC 2 cut(s) 624, 862
Alw26I GTCTC 2 cut(s) 487, 1145
AlwI GGATC 1 cut(s) 1035
Ama87I CYCGRG 1 cut(s) 267
AoxI GGCC 1 cut(s) 440
ApoI RAATTY 2 cut(s) 20, 629
Asp700I GAANNNNTTC 2 cut(s) 455, 932
AspLEI GCGC 3 cut(s) 213, 611, 661
AspS9I GGNCC 2 cut(s) 441, 965
AsuHPI GGTGA 1 cut(s) 19
AvaI CYCGRG 1 cut(s) 267
AvaII GGWCC 1 cut(s) 965
BanII GRGCYC 2 cut(s) 274, 690
BbsI GAAGAC 2 cut(s) 145, 458
Bbv12I GWGCWC 2 cut(s) 624, 862
BbvCI CCTCAGC 1 cut(s) 921
BccI CCATC 5 cut(s) 70, 88, 730, 940, 1072
BceAI ACGGC 2 cut(s) 272, 388
BcgI CGANNNNNNTGC 4 cut(s) 533, 567, 661, 695
BciT130I CCWGG 1 cut(s) 617
BclI TGATCA 2 cut(s) 249, 1167
BcoDI GTCTC 2 cut(s) 487, 1145
BfmI CTRYAG 1 cut(s) 1155
BisI GCNGC 1 cut(s) 530
BlsI GCNGC 1 cut(s) 531
Bme1390I CCNGG 1 cut(s) 617
Bme18I GGWCC 1 cut(s) 965
BmeT110I CYCGRG 1 cut(s) 267
BmgT120I GGNCC 2 cut(s) 441, 965
BmrFI CCNGG 1 cut(s) 617
BmrI ACTGGG 1 cut(s) 438
BmsI GCATC 4 cut(s) 541, 669, 895, 1044
BmuI ACTGGG 1 cut(s) 438
BpiI GAAGAC 2 cut(s) 145, 458
BplI GAGNNNNNCTC 2 cut(s) 261, 293
BpmI CTGGAG 1 cut(s) 599
Bpu10I CCTNAGC 2 cut(s) 794, 921
BpuEI CTTGAG 2 cut(s) 713, 833
BsaHI GRCGYC 1 cut(s) 285
BsaI GGTCTC 1 cut(s) 487
BsaJI CCNNGG 2 cut(s) 288, 352
BsaXI ACNNNNNCTCC 4 cut(s) 188, 218, 875, 905
Bsc4I CCNNNNNNNGG 4 cut(s) 431, 432, 536, 1079
Bse118I RCCGGY 1 cut(s) 330
Bse1I ACTGG 2 cut(s) 128, 444
Bse3DI GCAATG 1 cut(s) 382
BseBI CCWGG 1 cut(s) 617
BseDI CCNNGG 2 cut(s) 288, 352
BseGI GGATG 3 cut(s) 715, 741, 951
BseLI CCNNNNNNNGG 4 cut(s) 431, 432, 536, 1079
BseMI GCAATG 1 cut(s) 382
BseMII CTCAG 2 cut(s) 192, 912
BseNI ACTGG 2 cut(s) 128, 444
BseYI CCCAGC 1 cut(s) 636
Bsh1236I CGCG 1 cut(s) 354
BshFI GGCC 1 cut(s) 442
BsiHKAI GWGCWC 2 cut(s) 624, 862
BsiHKCI CYCGRG 1 cut(s) 267
BsiSI CCGG 2 cut(s) 331, 758
BslI CCNNNNNNNGG 4 cut(s) 431, 432, 536, 1079
BsmAI GTCTC 2 cut(s) 487, 1145
BsmI GAATGC 1 cut(s) 661
BsnI GGCC 1 cut(s) 442
Bso31I GGTCTC 1 cut(s) 487
BsoBI CYCGRG 1 cut(s) 267
Bsp1286I GDGCHC 4 cut(s) 274, 624, 690, 862
Bsp143I GATC 3 cut(s) 249, 1027, 1167
BspACI CCGC 3 cut(s) 352, 354, 530
BspANI GGCC 1 cut(s) 442
BspCNI CTCAG 2 cut(s) 191, 913
BspFNI CGCG 1 cut(s) 354
BspHI TCATGA 2 cut(s) 300, 936
BspPI GGATC 1 cut(s) 1035
BspQI GCTCTTC 1 cut(s) 1115
BspTNI GGTCTC 1 cut(s) 487
BsrDI GCAATG 1 cut(s) 382
BsrFI RCCGGY 1 cut(s) 330
BsrI ACTGG 2 cut(s) 128, 444
BssAI RCCGGY 1 cut(s) 330
BssECI CCNNGG 2 cut(s) 288, 352
BssMI GATC 3 cut(s) 249, 1027, 1167
BssNI GRCGYC 1 cut(s) 285
Bst2UI CCWGG 1 cut(s) 617
Bst4CI ACNGT 1 cut(s) 933
Bst6I CTCTTC 4 cut(s) 284, 800, 1115, 1143
BstACI GRCGYC 1 cut(s) 285
BstAPI GCANNNNNTGC 1 cut(s) 1054
BstC8I GCNNGC 4 cut(s) 264, 332, 440, 556
BstDEI CTNAG 3 cut(s) 178, 794, 921
BstDSI CCRYGG 2 cut(s) 288, 352
BstF5I GGATG 3 cut(s) 715, 741, 951
BstFNI CGCG 1 cut(s) 354
BstHHI GCGC 3 cut(s) 213, 611, 661
BstKTI GATC 3 cut(s) 252, 1030, 1170
BstMAI GTCTC 2 cut(s) 487, 1145
BstMBI GATC 3 cut(s) 249, 1027, 1167
BstMWI GCNNNNNNNGC 4 cut(s) 658, 835, 844, 1054
BstNI CCWGG 1 cut(s) 617
BstSCI CCNGG 1 cut(s) 615
BstSFI CTRYAG 1 cut(s) 1155
BstUI CGCG 1 cut(s) 354
BstV2I GAAGAC 2 cut(s) 145, 458
BstX2I RGATCY 1 cut(s) 1027
BstYI RGATCY 1 cut(s) 1027
BsuRI GGCC 1 cut(s) 442
BtgI CCRYGG 2 cut(s) 288, 352
BtsCI GGATG 3 cut(s) 715, 741, 951
BtsIMutI CAGTG 1 cut(s) 451
Cac8I GCNNGC 4 cut(s) 264, 332, 440, 556
CciI TCATGA 2 cut(s) 300, 936
CfoI GCGC 3 cut(s) 213, 611, 661
Cfr10I RCCGGY 1 cut(s) 330
Cfr13I GGNCC 2 cut(s) 441, 965
Cfr42I CCGCGG 1 cut(s) 355
CseI GACGC 2 cut(s) 293, 682
Csp6I GTAC 1 cut(s) 982
CspCI CAANNNNNGTGG 2 cut(s) 364, 399
CviAII CATG 3 cut(s) 301, 683, 937
CviQI GTAC 1 cut(s) 982
DdeI CTNAG 3 cut(s) 178, 794, 921
DpnI GATC 3 cut(s) 251, 1029, 1169
DpnII GATC 3 cut(s) 249, 1027, 1167
Eam1104I CTCTTC 4 cut(s) 284, 800, 1115, 1143
EarI CTCTTC 4 cut(s) 284, 800, 1115, 1143
Eco24I GRGCYC 2 cut(s) 274, 690
Eco31I GGTCTC 1 cut(s) 487
Eco47I GGWCC 1 cut(s) 965
Eco88I CYCGRG 1 cut(s) 267
EcoRII CCWGG 1 cut(s) 615
EcoT22I ATGCAT 1 cut(s) 684
EcoT38I GRGCYC 2 cut(s) 274, 690
FaeI CATG 3 cut(s) 304, 686, 940
FatI CATG 3 cut(s) 300, 682, 936
FbaI TGATCA 2 cut(s) 249, 1167
Fnu4HI GCNGC 1 cut(s) 530
FokI GGATG 3 cut(s) 722, 748, 958
FriOI GRGCYC 2 cut(s) 274, 690
Fsp4HI GCNGC 1 cut(s) 530
GlaI GCGC 3 cut(s) 212, 610, 660
GluI GCNGC 1 cut(s) 530
GsaI CCCAGC 1 cut(s) 640
GsuI CTGGAG 1 cut(s) 599
HaeIII GGCC 1 cut(s) 442
HapII CCGG 2 cut(s) 331, 758
HgaI GACGC 2 cut(s) 293, 682
HhaI GCGC 3 cut(s) 213, 611, 661
Hin1I GRCGYC 1 cut(s) 285
Hin1II CATG 3 cut(s) 304, 686, 940
Hin6I GCGC 3 cut(s) 211, 609, 659
HinP1I GCGC 3 cut(s) 211, 609, 659
HinfI GANTC 4 cut(s) 309, 761, 940, 994
HpaII CCGG 2 cut(s) 331, 758
HphI GGTGA 1 cut(s) 19
Hpy166II GTNNAC 1 cut(s) 292
Hpy188I TCNGA 5 cut(s) 319, 340, 945, 969, 1103
Hpy188III TCNNGA 9 cut(s) 301, 364, 394, 484, 544, 730, 881, 937, 1031
Hpy8I GTNNAC 1 cut(s) 292
Hpy99I CGWCG 3 cut(s) 287, 629, 676
HpyAV CCTTC 4 cut(s) 50, 97, 391, 466
HpyCH4III ACNGT 1 cut(s) 933
HpyCH4IV ACGT 3 cut(s) 10, 665, 770
HpyCH4V TGCA 3 cut(s) 472, 682, 908
HpyF10VI GCNNNNNNNGC 4 cut(s) 658, 835, 844, 1054
HpyF3I CTNAG 3 cut(s) 178, 794, 921
HpySE526I ACGT 3 cut(s) 10, 665, 770
Hsp92I GRCGYC 1 cut(s) 285
Hsp92II CATG 3 cut(s) 304, 686, 940
HspAI GCGC 3 cut(s) 211, 609, 659
KroI GCCGGC 1 cut(s) 330
KroNI GCCGGC 1 cut(s) 332
Ksp22I TGATCA 2 cut(s) 249, 1167
KspI CCGCGG 1 cut(s) 355
Kzo9I GATC 3 cut(s) 249, 1027, 1167
LguI GCTCTTC 1 cut(s) 1115
LmnI GCTCC 3 cut(s) 114, 835, 865
LweI GCATC 4 cut(s) 541, 669, 895, 1044
MaeII ACGT 3 cut(s) 10, 665, 770
MaeIII GTNAC 2 cut(s) 25, 766
MalI GATC 3 cut(s) 251, 1029, 1169
MboI GATC 3 cut(s) 249, 1027, 1167
MboII GAAGA 8 cut(s) 75, 145, 271, 340, 463, 817, 1132, 1160
MfeI CAATTG 1 cut(s) 533
MflI RGATCY 1 cut(s) 1027
MhlI GDGCHC 4 cut(s) 274, 624, 690, 862
MluCI AATT 5 cut(s) 20, 367, 460, 533, 629
Mph1103I ATGCAT 1 cut(s) 684
MroNI GCCGGC 1 cut(s) 330
MroXI GAANNNNTTC 2 cut(s) 455, 932
MseI TTAA 1 cut(s) 774
MslI CAYNNNNRTG 1 cut(s) 1134
MspA1I CMGCKG 1 cut(s) 354
MspI CCGG 2 cut(s) 331, 758
MspR9I CCNGG 1 cut(s) 617
MunI CAATTG 1 cut(s) 533
Mva1269I GAATGC 1 cut(s) 661
MvaI CCWGG 1 cut(s) 617
MvnI CGCG 1 cut(s) 354
MwoI GCNNNNNNNGC 4 cut(s) 658, 835, 844, 1054
NaeI GCCGGC 1 cut(s) 332
NdeII GATC 3 cut(s) 249, 1027, 1167
NgoMIV GCCGGC 1 cut(s) 330
NlaIII CATG 3 cut(s) 304, 686, 940
NmuCI GTSAC 2 cut(s) 25, 766
NsiI ATGCAT 1 cut(s) 684
PagI TCATGA 2 cut(s) 300, 936
PciSI GCTCTTC 1 cut(s) 1115
PctI GAATGC 1 cut(s) 661
PdiI GCCGGC 1 cut(s) 332
PdmI GAANNNNTTC 2 cut(s) 455, 932
PfeI GAWTC 4 cut(s) 309, 761, 940, 994
PflFI GACNNNGTC 1 cut(s) 296
PkrI GCNGC 1 cut(s) 531
Psp6I CCWGG 1 cut(s) 615
PspFI CCCAGC 1 cut(s) 636
PspGI CCWGG 1 cut(s) 615
PspPI GGNCC 2 cut(s) 441, 965
PsuI RGATCY 1 cut(s) 1027
PsyI GACNNNGTC 1 cut(s) 296
RsaI GTAC 1 cut(s) 983
RsaNI GTAC 1 cut(s) 982
RseI CAYNNNNRTG 1 cut(s) 1134
SacII CCGCGG 1 cut(s) 355
SapI GCTCTTC 1 cut(s) 1115
SaqAI TTAA 1 cut(s) 774
SatI GCNGC 1 cut(s) 530
Sau3AI GATC 3 cut(s) 249, 1027, 1167
Sau96I GGNCC 2 cut(s) 441, 965
ScrFI CCNGG 1 cut(s) 617
SduI GDGCHC 4 cut(s) 274, 624, 690, 862
SfaNI GCATC 4 cut(s) 541, 669, 895, 1044
SfcI CTRYAG 1 cut(s) 1155
Sfr303I CCGCGG 1 cut(s) 355
SgrBI CCGCGG 1 cut(s) 355
SinI GGWCC 1 cut(s) 965
SmiMI CAYNNNNRTG 1 cut(s) 1134
SmlI CTYRAG 2 cut(s) 728, 848
SmoI CTYRAG 2 cut(s) 728, 848
Sse9I AATT 5 cut(s) 20, 367, 460, 533, 629
SsiI CCGC 3 cut(s) 352, 354, 530
StyD4I CCNGG 1 cut(s) 615
TaaI ACNGT 1 cut(s) 933
TaiI ACGT 3 cut(s) 13, 668, 773
TaqI TCGA 7 cut(s) 195, 255, 282, 485, 543, 624, 671
TaqII GACCGA 1 cut(s) 754
TasI AATT 5 cut(s) 20, 367, 460, 533, 629
TauI GCSGC 1 cut(s) 532
TfiI GAWTC 4 cut(s) 309, 761, 940, 994
Tru1I TTAA 1 cut(s) 774
Tru9I TTAA 1 cut(s) 774
TscAI CASTG 1 cut(s) 451
TseFI GTSAC 2 cut(s) 25, 766
Tsp45I GTSAC 2 cut(s) 25, 766
TspDTI ATGAA 5 cut(s) 246, 317, 497, 857, 925
TspRI CASTG 1 cut(s) 451
Tth111I GACNNNGTC 1 cut(s) 296
VpaK11BI GGWCC 1 cut(s) 965
XapI RAATTY 2 cut(s) 20, 629
XmnI GAANNNNTTC 2 cut(s) 455, 932
Zsp2I ATGCAT 1 cut(s) 684
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.