RchiOBHm_Chr5g0003911

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0016541
Physical Location & Seq
Reverse (-)
2448068 .. 2449385
1318 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1140 bp
ATGCTTCTTCTTCGCAAAGCTTATTCAACGACTTCCAGTACTTCCCTAACTTGGAGAACCCAAATCAAACAAGCTCACTTAGCATCCCAAATCTCCTCGATTCTCTTACAGAGACGCAACTGGGTTCCATTCCTCCAAAACCTCAACCTCCCCAAACTAAACCCTCCTCTGTTTCTCCAGATCATCCACAAAACCCAGTGCAACCCACAACTCTCTTTGGATTTCTTCAACTGGGCCAAGTCCAATTTACGTTTCGAACCAGACCTCAAATCCCACTGCCAAATCATCCAACTCTCACTCGGGTCTGGCCTCACCCGACCCGCCAAACCCATCTTGGACACACTAATCCAGACCCATCATGTTTCCAAGCTTGTACAGTCCATGTCTCAGGCTTGTAAAGGTACAGATTCTCTATCCAATGTGTTAAGTTTTGTGCTTGGTTGCTACGCAAGAGAGGGTTTGGTTAGAGGAGGCATAGAAGTTTATAGAGAAATGAGTGTTCTTGGTTGTGTGCCTTCAGTTTTAGCCTGCAATGCATTGCTTAATGCTATGAGGCAAGGAAGTGAAACTAGATTGGGTTGGTGTTTTTATGGGGTTATGCTCAGAAATGGGGTTTTACCAGACCAGTTTACATGGTCTCTGGTTGCTCAGTTTCTTTGTAAAGATGGGAAATTTGAAAGGATTCTTAGACTTTTGGATTTGGGTGTTTGTGATTCTATGTTTTATAGTCTTCTTGTGGATGGTTATAGCAAAAGTGGGAATTTTGATGCTGCATTTTGCTACTTGGAGAAAATGAGTGATGGGAAATTGGAACCTGGTTTTAGTACTTATAGTTCTGTTCTTGATGGGGCATGTAAACTTGGGGATGTGGAAGTGGTTGAAAGGGTAATGAGGATTATGGTGGAGAAGAAATTGCTTTCGGCGAGTCCTGTTTTTGAGTATGATTCAATTGTTAAGAAGCTTTGTGCTTTGGACAAAACTTATGCGGCAGAGATGTTCTTTAAGAAAGCGTGTGATGAGAAAATTGAATTGCAAGGTGCTACTTATGGATGTATGCTGCAGGCATTGACTAAAGAAATGAGAATAGTGGAAGCTATTCGGGTTTATCGGGTGGTTTGTGAGAGGGGAAGAGCGATCTGA

Protein Analysis

379

Amino Acids

42.61

Weight (kDa)

8.95

Isoelectric Point (pI)

39.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 239 - 286 1e-07 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: OG0016541)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G21170
fragaria_vesca FvH4_3g02620
malus_domestica MD00G1180200.v1.1
prunus_persica Prupe.4G025500_v2.0.a1
pyrus_communis pycom05g31090
rosa_chinensis RchiOBHm_Chr5g0003911
rosa_laevigata RLG00000031187
rosa_multiflora Rmu_sc0011733.1_g000003 Rmu_sc0019391.1_g000005
rosa_roxburghii Rroxscaffold_1G00072060
rosa_rugosa Rorug04G0407800
rosa_samantha Rh5CG037900 Rh5DG034100
rosa_wichuraiana Rw5G003240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 321, 986
AcsI RAATTY 2 cut(s) 671, 760
AcuI CTGAAG 1 cut(s) 501
AfaI GTAC 4 cut(s) 40, 375, 403, 826
AfiI CCNNNNNNNGG 1 cut(s) 51
AgsI TTSAA 6 cut(s) 27, 229, 677, 881, 948, 1028
AjnI CCWGG 1 cut(s) 814
AjuI GAANNNNNNNTTGG 2 cut(s) 236, 268
AluBI AGCT 5 cut(s) 20, 74, 370, 961, 1094
AluI AGCT 5 cut(s) 20, 74, 370, 961, 1094
Alw26I GTCTC 3 cut(s) 106, 390, 642
Ama87I CYCGRG 1 cut(s) 299
AoxI GGCC 2 cut(s) 234, 307
ApeKI GCWGC 2 cut(s) 770, 1057
ApoI RAATTY 2 cut(s) 671, 760
Asp700I GAANNNNTTC 2 cut(s) 681, 1095
AspS9I GGNCC 1 cut(s) 234
AsuHPI GGTGA 1 cut(s) 304
AsuII TTCGAA 1 cut(s) 255
AvaI CYCGRG 1 cut(s) 299
BbsI GAAGAC 1 cut(s) 722
BbvI GCAGC 2 cut(s) 757, 1044
BccI CCATC 6 cut(s) 338, 363, 659, 734, 794, 839
BciT130I CCWGG 1 cut(s) 816
BcoDI GTCTC 3 cut(s) 106, 390, 642
BfaI CTAG 1 cut(s) 570
BfmI CTRYAG 1 cut(s) 1058
BisI GCNGC 3 cut(s) 771, 987, 1058
BlsI GCNGC 3 cut(s) 772, 988, 1059
BmcAI AGTACT 2 cut(s) 40, 826
Bme1390I CCNGG 1 cut(s) 816
BmeT110I CYCGRG 1 cut(s) 299
BmgT120I GGNCC 1 cut(s) 234
BmiI GGNNCC 2 cut(s) 126, 813
BmrFI CCNGG 1 cut(s) 816
BmrI ACTGGG 3 cut(s) 130, 190, 241
BmsI GCATC 2 cut(s) 92, 757
BmuI ACTGGG 3 cut(s) 130, 190, 241
BpiI GAAGAC 1 cut(s) 722
BpmI CTGGAG 1 cut(s) 161
Bpu14I TTCGAA 1 cut(s) 255
BsaI GGTCTC 1 cut(s) 642
Bsc4I CCNNNNNNNGG 1 cut(s) 51
Bse1I ACTGG 5 cut(s) 36, 125, 196, 236, 625
Bse3DI GCAATG 2 cut(s) 536, 538
BseBI CCWGG 1 cut(s) 816
BseGI GGATG 6 cut(s) 83, 183, 285, 745, 871, 1055
BseLI CCNNNNNNNGG 1 cut(s) 51
BseMI GCAATG 2 cut(s) 536, 538
BseMII CTCAG 3 cut(s) 401, 616, 662
BseNI ACTGG 5 cut(s) 36, 125, 196, 236, 625
BseRI GAGGAG 3 cut(s) 85, 156, 483
BseXI GCAGC 2 cut(s) 757, 1044
BshFI GGCC 2 cut(s) 236, 309
BsiHKCI CYCGRG 1 cut(s) 299
BslI CCNNNNNNNGG 1 cut(s) 51
BsmAI GTCTC 3 cut(s) 106, 390, 642
BsmBI CGTCTC 1 cut(s) 106
BsnI GGCC 2 cut(s) 236, 309
Bso31I GGTCTC 1 cut(s) 642
BsoBI CYCGRG 1 cut(s) 299
Bsp119I TTCGAA 1 cut(s) 255
Bsp1407I TGTACA 1 cut(s) 373
Bsp143I GATC 2 cut(s) 180, 1134
BspACI CCGC 2 cut(s) 321, 986
BspANI GGCC 2 cut(s) 236, 309
BspCNI CTCAG 3 cut(s) 400, 615, 661
BspLI GGNNCC 2 cut(s) 126, 813
BspMAI CTGCAG 1 cut(s) 1062
BspQI GCTCTTC 1 cut(s) 1123
BspT104I TTCGAA 1 cut(s) 255
BspTNI GGTCTC 1 cut(s) 642
BsrDI GCAATG 2 cut(s) 536, 538
BsrGI TGTACA 1 cut(s) 373
BsrI ACTGG 5 cut(s) 36, 125, 196, 236, 625
BssMI GATC 2 cut(s) 180, 1134
Bst2UI CCWGG 1 cut(s) 816
Bst4CI ACNGT 1 cut(s) 378
Bst6I CTCTTC 1 cut(s) 1123
BstAUI TGTACA 1 cut(s) 373
BstBI TTCGAA 1 cut(s) 255
BstC8I GCNNGC 2 cut(s) 529, 1062
BstDEI CTNAG 5 cut(s) 79, 387, 602, 648, 686
BstF5I GGATG 6 cut(s) 83, 183, 285, 745, 871, 1055
BstKTI GATC 2 cut(s) 183, 1137
BstMAI GTCTC 3 cut(s) 106, 390, 642
BstMBI GATC 2 cut(s) 180, 1134
BstMWI GCNNNNNNNGC 2 cut(s) 80, 533
BstNI CCWGG 1 cut(s) 816
BstNSI RCATGY 1 cut(s) 855
BstSCI CCNGG 1 cut(s) 814
BstSFI CTRYAG 1 cut(s) 1058
BstV1I GCAGC 2 cut(s) 757, 1044
BstV2I GAAGAC 1 cut(s) 722
BsuRI GGCC 2 cut(s) 236, 309
BtsCI GGATG 6 cut(s) 83, 183, 285, 745, 871, 1055
BtsI GCAGTG 1 cut(s) 274
BtsIMutI CAGTG 2 cut(s) 203, 274
Cac8I GCNNGC 2 cut(s) 529, 1062
Cfr13I GGNCC 1 cut(s) 234
CseI GACGC 1 cut(s) 123
CsiI ACCWGGT 1 cut(s) 814
Csp6I GTAC 4 cut(s) 39, 374, 402, 825
CviAII CATG 4 cut(s) 359, 382, 633, 852
CviJI RGCY 9 cut(s) 20, 74, 236, 309, 370, 392, 527, 961, 1094
CviKI_1 RGCY 9 cut(s) 20, 74, 236, 309, 370, 392, 527, 961, 1094
CviQI GTAC 4 cut(s) 39, 374, 402, 825
DdeI CTNAG 5 cut(s) 79, 387, 602, 648, 686
DpnI GATC 2 cut(s) 182, 1136
DpnII GATC 2 cut(s) 180, 1134
Eam1104I CTCTTC 1 cut(s) 1123
EarI CTCTTC 1 cut(s) 1123
Eco31I GGTCTC 1 cut(s) 642
Eco57I CTGAAG 1 cut(s) 501
Eco88I CYCGRG 1 cut(s) 299
EcoRII CCWGG 1 cut(s) 814
EcoT22I ATGCAT 1 cut(s) 538
Esp3I CGTCTC 1 cut(s) 106
FaeI CATG 4 cut(s) 362, 385, 636, 855
FatI CATG 4 cut(s) 358, 381, 632, 851
FauI CCCGC 1 cut(s) 328
Fnu4HI GCNGC 3 cut(s) 771, 987, 1058
FokI GGATG 6 cut(s) 70, 170, 272, 752, 878, 1062
Fsp4HI GCNGC 3 cut(s) 771, 987, 1058
FspBI CTAG 1 cut(s) 570
GluI GCNGC 3 cut(s) 771, 987, 1058
GsuI CTGGAG 1 cut(s) 161
HaeIII GGCC 2 cut(s) 236, 309
HgaI GACGC 1 cut(s) 123
Hin1II CATG 4 cut(s) 362, 385, 636, 855
HindIII AAGCTT 3 cut(s) 18, 368, 959
HinfI GANTC 6 cut(s) 100, 407, 682, 713, 925, 944
HphI GGTGA 1 cut(s) 304
Hpy166II GTNNAC 2 cut(s) 630, 857
Hpy188I TCNGA 2 cut(s) 605, 1139
Hpy188III TCNNGA 3 cut(s) 178, 349, 842
Hpy8I GTNNAC 2 cut(s) 630, 857
HpyAV CCTTC 1 cut(s) 525
HpyCH4III ACNGT 1 cut(s) 378
HpyCH4IV ACGT 1 cut(s) 250
HpyCH4V TGCA 6 cut(s) 201, 531, 536, 773, 1033, 1060
HpyF10VI GCNNNNNNNGC 2 cut(s) 80, 533
HpyF3I CTNAG 5 cut(s) 79, 387, 602, 648, 686
HpySE526I ACGT 1 cut(s) 250
Hsp92II CATG 4 cut(s) 362, 385, 636, 855
Kzo9I GATC 2 cut(s) 180, 1134
LguI GCTCTTC 1 cut(s) 1123
Lsp1109I GCAGC 2 cut(s) 757, 1044
LweI GCATC 2 cut(s) 92, 757
MabI ACCWGGT 1 cut(s) 814
MaeI CTAG 1 cut(s) 570
MaeII ACGT 1 cut(s) 250
MalI GATC 2 cut(s) 182, 1136
MboI GATC 2 cut(s) 180, 1134
MboII GAAGA 4 cut(s) 217, 722, 919, 1140
MfeI CAATTG 1 cut(s) 948
MluCI AATT 8 cut(s) 244, 671, 760, 806, 911, 948, 1023, 1028
MlyI GAGTC 1 cut(s) 934
MmeI TCCRAC 1 cut(s) 313
Mph1103I ATGCAT 1 cut(s) 538
MroXI GAANNNNTTC 2 cut(s) 681, 1095
MseI TTAA 4 cut(s) 425, 543, 954, 1002
MspR9I CCNGG 1 cut(s) 816
MunI CAATTG 1 cut(s) 948
MvaI CCWGG 1 cut(s) 816
MwoI GCNNNNNNNGC 2 cut(s) 80, 533
NdeII GATC 2 cut(s) 180, 1134
NlaIII CATG 4 cut(s) 362, 385, 636, 855
NlaIV GGNNCC 2 cut(s) 126, 813
NsiI ATGCAT 1 cut(s) 538
NspI RCATGY 1 cut(s) 855
NspV TTCGAA 1 cut(s) 255
PciSI GCTCTTC 1 cut(s) 1123
PdmI GAANNNNTTC 2 cut(s) 681, 1095
PfeI GAWTC 5 cut(s) 100, 407, 682, 713, 944
PkrI GCNGC 3 cut(s) 772, 988, 1059
PleI GAGTC 1 cut(s) 933
PpsI GAGTC 1 cut(s) 933
Psp6I CCWGG 1 cut(s) 814
PspGI CCWGG 1 cut(s) 814
PspN4I GGNNCC 2 cut(s) 126, 813
PspPI GGNCC 1 cut(s) 234
PsrI GAACNNNNNNTAC 2 cut(s) 817, 849
PstI CTGCAG 1 cut(s) 1062
RsaI GTAC 4 cut(s) 40, 375, 403, 826
RsaNI GTAC 4 cut(s) 39, 374, 402, 825
SapI GCTCTTC 1 cut(s) 1123
SaqAI TTAA 4 cut(s) 425, 543, 954, 1002
SatI GCNGC 3 cut(s) 771, 987, 1058
Sau3AI GATC 2 cut(s) 180, 1134
Sau96I GGNCC 1 cut(s) 234
ScaI AGTACT 2 cut(s) 40, 826
SchI GAGTC 1 cut(s) 934
ScrFI CCNGG 1 cut(s) 816
SexAI ACCWGGT 1 cut(s) 814
SfaNI GCATC 2 cut(s) 92, 757
SfcI CTRYAG 1 cut(s) 1058
SfuI TTCGAA 1 cut(s) 255
Sse9I AATT 8 cut(s) 244, 671, 760, 806, 911, 948, 1023, 1028
SsiI CCGC 2 cut(s) 321, 986
SspMI CTAG 1 cut(s) 570
StyD4I CCNGG 1 cut(s) 814
TaaI ACNGT 1 cut(s) 378
TaiI ACGT 1 cut(s) 253
TaqI TCGA 2 cut(s) 98, 255
TasI AATT 8 cut(s) 244, 671, 760, 806, 911, 948, 1023, 1028
TatI WGTACW 3 cut(s) 38, 373, 824
TauI GCSGC 1 cut(s) 989
TfiI GAWTC 5 cut(s) 100, 407, 682, 713, 944
Tru1I TTAA 4 cut(s) 425, 543, 954, 1002
Tru9I TTAA 4 cut(s) 425, 543, 954, 1002
TscAI CASTG 2 cut(s) 203, 281
TseI GCWGC 2 cut(s) 770, 1057
TspRI CASTG 2 cut(s) 203, 281
XapI RAATTY 2 cut(s) 671, 760
XceI RCATGY 1 cut(s) 855
XcmI CCANNNNNNNNNTGG 1 cut(s) 331
XmnI GAANNNNTTC 2 cut(s) 681, 1095
XspI CTAG 1 cut(s) 570
ZrmI AGTACT 2 cut(s) 40, 826
Zsp2I ATGCAT 1 cut(s) 538
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.