RchiOBHm_Chr5g0062521

Pentatricopeptide repeat-containing protein At1g07740

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0013851
Physical Location & Seq
Reverse (-)
68093362 .. 68095431
2070 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1323 bp
ATGTTCCATTCAAGAGCCAAAGCTTTAAATCAAGCACAATCAAACCTTCTCCTCCATTGGAGCAATCGCACAAAACTCCAACCATACCACACTCTCCGTCGACCCAACAAACCGAAGACCAAGCCTCGCCGCGAACGGCCTCACAGAGACGCCGCAAAGCCTCGCAAGCCCATACCATTCGTCTCCGATGTCAAAGAAGTTCAGGGCCCAGAAGATGCCTTGTCTCTCTTCCGAGAGTACCACGAAATGGGCTTCAAACACGACTACCCCTCTTACTCTGCTCTCATCTATAAGCTGGCTCGTAATCGAAACTTCGAAGCCGTTGAGACCATTCTTGGCCATGTACGAGACAGAAACATTCACTGCAAAGATACCCTTTTCATTGCTCTAATTCAACATTATGGGAAGGCCAAGTTGGTAGAGAAAGCCATTGAGCTTTTCCACCAAATCAATTCTTTTAATTGCGTCCGTACATTGCAGTCTTTCAATTCACTGCTTAATGTGCTTGTTGATAGTGATAGGTTTGCCGATGCCGATGAGATTTTCGGTCGGTGTAATCAAATGGGTTTTCGGCCGAATTCGATTTCGTATAACATAATGATAAAGGGGTGGCTCAAGAAAGGTGAATTGGATGAAGCACGCAAGGGTGAGTTGGAGGAAGCTACTGGTTTGCTCGAGGATATGAGACAGAAAGGGAAGTACCCGAACGCTGTAACATATGCATTATTGATGGAAGGTTTGTGCATAGTAGGAAAGTATGAGGAAGCAAAGAAGATGATGTTTGATATGGAGTATCGGGGTTGTAAACCACGGCTTGTGAATTATGGTGTTTTGATAAGTGATCTTGGAAGAAGAGGGAAGATTGAGGCGGCAAAATATTTACTGCAGGAAATGAAGAAAAGGCGGTTTAAGCCAGATGTTGTGATTTATAACATATTGATTAATTTTCTGTGCAAGGAAGGTAGGGCTATAGAGGCTTATAAAGTCTTGATTGAAATGCAAGTTGGAGGTTTCGAGCCTAATGCGGCCACATACAGGATGATGGTTGATGGGTTTTGTCAGATTAAAGATTTTGAGGGAGGGCTGAAGGTTTTGATTGCCATGTTGAAAAGTAAACACTGTCCTCGGTTGAAAACATTTGAGTGCTTGGTTACAGGACTATTGAAGTGTGGGAATGTTGATGGTACTTGTTTTGTCTTGGAGGAGATGGAAAACAGAAATATGCAATTATGTTGCGAAGCTTGGGAAGCACCAGTTGTTGATGCTTGTGGTAAGGACATTGTTGCAGGTGAGAAAATGACTGAAGTCATATCTGCCGACTAA

Protein Analysis

440

Amino Acids

50.54

Weight (kDa)

9.0

Isoelectric Point (pI)

32.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 161 - 203 5.8e-07 PPR repeat family
PPR_2 PF13041 214 - 248 2.5e-07 PPR repeat family
PPR_3 PF13812 224 - 283 3.3e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 272 - 308 9.3e-06 PPR repeat family
PPR_long PF17177 284 - 410 1.6e-07 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 303 - 334 2.8e-10 PPR repeat
PPR_2 PF13041 305 - 354 2.1e-16 PPR repeat family
PPR PF01535 308 - 337 7.2e-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: OG0013851)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07740
fragaria_vesca FvH4_3g34780
malus_domestica MD04G1036700.v1.1 MD11G1115700.v1.1 MD12G1096600.v1.1
prunus_persica Prupe.6G007300_v2.0.a1
pyrus_communis pycom03g08320
rosa_chinensis RchiOBHm_Chr5g0062521
rosa_laevigata RLG00000035563
rosa_multiflora Rmu_sc0004988.1_g000027
rosa_roxburghii Rroxscaffold_1G00018090
rosa_rugosa Rorug05G0350400
rosa_samantha Rh5AG410400 Rh5BG424400 Rh5CG448100 Rh5DG438700
rosa_wichuraiana Rw5G038640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 930, 981
AarI CACCTGC 1 cut(s) 1277
Acc36I ACCTGC 1 cut(s) 1277
AccB7I CCANNNNNTGG 1 cut(s) 247
AccI GTMKAC 1 cut(s) 100
AccII CGCG 1 cut(s) 132
AciI CCGC 5 cut(s) 130, 153, 869, 904, 1025
AcoI YGGCCR 3 cut(s) 337, 572, 1026
AcsI RAATTY 1 cut(s) 577
AcuI CTGAAG 2 cut(s) 1106, 1323
AcyI GRCGYC 1 cut(s) 150
AfaI GTAC 5 cut(s) 239, 345, 472, 701, 1186
AfiI CCNNNNNNNGG 2 cut(s) 247, 1035
AgsI TTSAA 8 cut(s) 12, 256, 395, 487, 995, 1108, 1132, 1165
AjuI GAANNNNNNNTTGG 6 cut(s) 398, 430, 611, 643, 987, 1019
AluBI AGCT 5 cut(s) 23, 295, 436, 662, 1241
AluI AGCT 5 cut(s) 23, 295, 436, 662, 1241
Alw26I GTCTC 6 cut(s) 141, 187, 228, 320, 342, 679
Ama87I CYCGRG 1 cut(s) 674
AoxI GGCC 6 cut(s) 137, 205, 337, 408, 572, 1026
ApaI GGGCCC 1 cut(s) 209
ApoI RAATTY 1 cut(s) 577
AseI ATTAAT 1 cut(s) 942
AspS9I GGNCC 2 cut(s) 205, 206
AsuHPI GGTGA 3 cut(s) 635, 659, 1301
AsuII TTCGAA 1 cut(s) 315
AvaI CYCGRG 1 cut(s) 674
BaeGI GKGCMC 1 cut(s) 209
BalI TGGCCA 1 cut(s) 339
BanII GRGCYC 1 cut(s) 209
BbsI GAAGAC 1 cut(s) 122
BccI CCATC 5 cut(s) 724, 1036, 1043, 1175, 1201
BceAI ACGGC 3 cut(s) 152, 305, 827
BcgI CGANNNNNNTGC 2 cut(s) 1004, 1038
BcoDI GTCTC 6 cut(s) 141, 187, 228, 320, 342, 679
BfmI CTRYAG 2 cut(s) 884, 969
BfuAI ACCTGC 1 cut(s) 1277
BisI GCNGC 4 cut(s) 130, 153, 870, 1026
BlsI GCNGC 4 cut(s) 131, 154, 871, 1027
BmeT110I CYCGRG 1 cut(s) 674
BmgT120I GGNCC 2 cut(s) 205, 206
BmiI GGNNCC 1 cut(s) 207
BmsI GCATC 3 cut(s) 205, 520, 1252
BoxI GACNNNNGTC 1 cut(s) 1304
BpiI GAAGAC 1 cut(s) 122
Bpu14I TTCGAA 1 cut(s) 315
BpuEI CTTGAG 1 cut(s) 599
BsaHI GRCGYC 1 cut(s) 150
BsaI GGTCTC 1 cut(s) 320
BsaJI CCNNGG 2 cut(s) 809, 1124
Bsc4I CCNNNNNNNGG 2 cut(s) 247, 1035
Bse1I ACTGG 2 cut(s) 670, 1253
Bse3DI GCAATG 2 cut(s) 381, 473
BseDI CCNNGG 2 cut(s) 809, 1124
BseGI GGATG 2 cut(s) 637, 1044
BseLI CCNNNNNNNGG 2 cut(s) 247, 1035
BseMI GCAATG 2 cut(s) 381, 473
BseNI ACTGG 2 cut(s) 670, 1253
BseRI GAGGAG 2 cut(s) 41, 1217
BseSI GKGCMC 1 cut(s) 209
BseX3I CGGCCG 1 cut(s) 572
Bsh1236I CGCG 1 cut(s) 132
Bsh1285I CGRYCG 2 cut(s) 550, 575
BshFI GGCC 6 cut(s) 139, 207, 339, 410, 574, 1028
BsiEI CGRYCG 2 cut(s) 550, 575
BsiHKCI CYCGRG 1 cut(s) 674
BslI CCNNNNNNNGG 2 cut(s) 247, 1035
BsmAI GTCTC 6 cut(s) 141, 187, 228, 320, 342, 679
BsmBI CGTCTC 2 cut(s) 141, 187
BsnI GGCC 6 cut(s) 139, 207, 339, 410, 574, 1028
Bso31I GGTCTC 1 cut(s) 320
BsoBI CYCGRG 1 cut(s) 674
Bsp119I TTCGAA 1 cut(s) 315
Bsp120I GGGCCC 1 cut(s) 205
Bsp1286I GDGCHC 1 cut(s) 209
Bsp143I GATC 1 cut(s) 841
BspACI CCGC 5 cut(s) 130, 153, 869, 904, 1025
BspANI GGCC 6 cut(s) 139, 207, 339, 410, 574, 1028
BspFNI CGCG 1 cut(s) 132
BspLI GGNNCC 1 cut(s) 207
BspMAI CTGCAG 1 cut(s) 888
BspMI ACCTGC 1 cut(s) 1277
BspT104I TTCGAA 1 cut(s) 315
BspTNI GGTCTC 1 cut(s) 320
BsrDI GCAATG 2 cut(s) 381, 473
BsrI ACTGG 2 cut(s) 670, 1253
BssECI CCNNGG 2 cut(s) 809, 1124
BssMI GATC 1 cut(s) 841
BssNI GRCGYC 1 cut(s) 150
Bst4CI ACNGT 1 cut(s) 1121
Bst6I CTCTTC 2 cut(s) 233, 847
BstACI GRCGYC 1 cut(s) 150
BstBI TTCGAA 1 cut(s) 315
BstC8I GCNNGC 3 cut(s) 167, 297, 640
BstDSI CCRYGG 1 cut(s) 809
BstF5I GGATG 2 cut(s) 637, 1044
BstFNI CGCG 1 cut(s) 132
BstKTI GATC 1 cut(s) 844
BstMAI GTCTC 6 cut(s) 141, 187, 228, 320, 342, 679
BstMBI GATC 1 cut(s) 841
BstMCI CGRYCG 2 cut(s) 550, 575
BstMWI GCNNNNNNNGC 5 cut(s) 166, 502, 910, 974, 1247
BstPAI GACNNNNGTC 1 cut(s) 1304
BstSFI CTRYAG 2 cut(s) 884, 969
BstSLI GKGCMC 1 cut(s) 209
BstUI CGCG 1 cut(s) 132
BstV2I GAAGAC 1 cut(s) 122
BstZI CGGCCG 1 cut(s) 572
BsuRI GGCC 6 cut(s) 139, 207, 339, 410, 574, 1028
BtgI CCRYGG 1 cut(s) 809
BtsCI GGATG 2 cut(s) 637, 1044
BtsI GCAGTG 2 cut(s) 361, 491
BtsIMutI CAGTG 3 cut(s) 361, 491, 1117
BveI ACCTGC 1 cut(s) 1277
Cac8I GCNNGC 3 cut(s) 167, 297, 640
Cfr13I GGNCC 2 cut(s) 205, 206
CseI GACGC 2 cut(s) 158, 454
Csp6I GTAC 5 cut(s) 238, 344, 471, 700, 1185
CviAII CATG 2 cut(s) 341, 1102
CviQI GTAC 5 cut(s) 238, 344, 471, 700, 1185
DpnI GATC 1 cut(s) 843
DpnII GATC 1 cut(s) 841
DraI TTTAAA 1 cut(s) 27
EaeI YGGCCR 3 cut(s) 337, 572, 1026
EagI CGGCCG 1 cut(s) 572
Eam1104I CTCTTC 2 cut(s) 233, 847
EarI CTCTTC 2 cut(s) 233, 847
EclXI CGGCCG 1 cut(s) 572
Eco24I GRGCYC 1 cut(s) 209
Eco31I GGTCTC 1 cut(s) 320
Eco52I CGGCCG 1 cut(s) 572
Eco57I CTGAAG 2 cut(s) 1106, 1323
Eco88I CYCGRG 1 cut(s) 674
EcoO109I RGGNCCY 1 cut(s) 205
EcoRI GAATTC 1 cut(s) 577
EcoT22I ATGCAT 1 cut(s) 724
EcoT38I GRGCYC 1 cut(s) 209
Esp3I CGTCTC 2 cut(s) 141, 187
FaeI CATG 2 cut(s) 344, 1105
FalI AAGNNNNNCTT 2 cut(s) 360, 392
FatI CATG 2 cut(s) 340, 1101
FauNDI CATATG 1 cut(s) 718
FblI GTMKAC 1 cut(s) 100
Fnu4HI GCNGC 4 cut(s) 130, 153, 870, 1026
FokI GGATG 2 cut(s) 644, 1051
FriOI GRGCYC 1 cut(s) 209
Fsp4HI GCNGC 4 cut(s) 130, 153, 870, 1026
GluI GCNGC 4 cut(s) 130, 153, 870, 1026
HaeIII GGCC 6 cut(s) 139, 207, 339, 410, 574, 1028
HgaI GACGC 2 cut(s) 158, 454
Hin1I GRCGYC 1 cut(s) 150
Hin1II CATG 2 cut(s) 344, 1105
HincII GTYRAC 1 cut(s) 101
HindII GTYRAC 1 cut(s) 101
HindIII AAGCTT 2 cut(s) 21, 1239
HphI GGTGA 3 cut(s) 635, 659, 1301
Hpy166II GTNNAC 3 cut(s) 101, 806, 1115
Hpy188I TCNGA 3 cut(s) 187, 233, 1062
Hpy188III TCNNGA 3 cut(s) 12, 616, 988
Hpy8I GTNNAC 3 cut(s) 101, 806, 1115
Hpy99I CGWCG 1 cut(s) 102
HpyAV CCTTC 5 cut(s) 56, 400, 728, 953, 1081
HpyCH4III ACNGT 1 cut(s) 1121
HpyCH4V TGCA 9 cut(s) 366, 478, 722, 744, 886, 954, 1000, 1225, 1286
HpyF10VI GCNNNNNNNGC 5 cut(s) 166, 502, 910, 974, 1247
Hsp92I GRCGYC 1 cut(s) 150
Hsp92II CATG 2 cut(s) 344, 1105
Kzo9I GATC 1 cut(s) 841
LmnI GCTCC 1 cut(s) 60
LweI GCATC 3 cut(s) 205, 520, 1252
MaeIII GTNAC 2 cut(s) 712, 1150
MalI GATC 1 cut(s) 843
MboI GATC 1 cut(s) 841
MboII GAAGA 8 cut(s) 127, 220, 224, 784, 861, 864, 871, 907
MhlI GDGCHC 1 cut(s) 209
MlsI TGGCCA 1 cut(s) 339
MluCI AATT 9 cut(s) 390, 451, 460, 487, 577, 626, 820, 943, 1226
MluNI TGGCCA 1 cut(s) 339
MmeI TCCRAC 3 cut(s) 103, 633, 985
Mox20I TGGCCA 1 cut(s) 339
Mph1103I ATGCAT 1 cut(s) 724
MscI TGGCCA 1 cut(s) 339
MseI TTAA 6 cut(s) 26, 459, 498, 909, 942, 1065
MslI CAYNNNNRTG 1 cut(s) 1141
Msp20I TGGCCA 1 cut(s) 339
MvnI CGCG 1 cut(s) 132
MwoI GCNNNNNNNGC 5 cut(s) 166, 502, 910, 974, 1247
NdeI CATATG 1 cut(s) 718
NdeII GATC 1 cut(s) 841
NlaIII CATG 2 cut(s) 344, 1105
NlaIV GGNNCC 1 cut(s) 207
NsiI ATGCAT 1 cut(s) 724
NspV TTCGAA 1 cut(s) 315
PaeR7I CTCGAG 1 cut(s) 674
PaqCI CACCTGC 1 cut(s) 1277
PflMI CCANNNNNTGG 1 cut(s) 247
PkrI GCNGC 4 cut(s) 131, 154, 871, 1027
PshAI GACNNNNGTC 1 cut(s) 1304
PshBI ATTAAT 1 cut(s) 942
PsiI TTATAA 2 cut(s) 930, 981
PspN4I GGNNCC 1 cut(s) 207
PspOMI GGGCCC 1 cut(s) 205
PspPI GGNCC 2 cut(s) 205, 206
PspXI VCTCGAGB 1 cut(s) 674
PstI CTGCAG 1 cut(s) 888
RsaI GTAC 5 cut(s) 239, 345, 472, 701, 1186
RsaNI GTAC 5 cut(s) 238, 344, 471, 700, 1185
RseI CAYNNNNRTG 1 cut(s) 1141
SalI GTCGAC 1 cut(s) 99
SaqAI TTAA 6 cut(s) 26, 459, 498, 909, 942, 1065
SatI GCNGC 4 cut(s) 130, 153, 870, 1026
Sau3AI GATC 1 cut(s) 841
Sau96I GGNCC 2 cut(s) 205, 206
SduI GDGCHC 1 cut(s) 209
SfaNI GCATC 3 cut(s) 205, 520, 1252
SfcI CTRYAG 2 cut(s) 884, 969
Sfr274I CTCGAG 1 cut(s) 674
SfuI TTCGAA 1 cut(s) 315
SlaI CTCGAG 1 cut(s) 674
SmiMI CAYNNNNRTG 1 cut(s) 1141
SmlI CTYRAG 2 cut(s) 614, 674
SmoI CTYRAG 2 cut(s) 614, 674
Sse9I AATT 9 cut(s) 390, 451, 460, 487, 577, 626, 820, 943, 1226
SsiI CCGC 5 cut(s) 130, 153, 869, 904, 1025
SspI AATATT 1 cut(s) 878
TaaI ACNGT 1 cut(s) 1121
TaqI TCGA 6 cut(s) 100, 307, 315, 581, 675, 1014
TaqII GACCGA 1 cut(s) 536
TasI AATT 9 cut(s) 390, 451, 460, 487, 577, 626, 820, 943, 1226
TauI GCSGC 4 cut(s) 132, 155, 872, 1028
Tru1I TTAA 6 cut(s) 26, 459, 498, 909, 942, 1065
Tru9I TTAA 6 cut(s) 26, 459, 498, 909, 942, 1065
TscAI CASTG 3 cut(s) 368, 498, 1124
TspDTI ATGAA 3 cut(s) 370, 648, 908
TspGWI ACGGA 2 cut(s) 86, 458
TspRI CASTG 3 cut(s) 368, 498, 1124
Van91I CCANNNNNTGG 1 cut(s) 247
VspI ATTAAT 1 cut(s) 942
XapI RAATTY 1 cut(s) 577
XhoI CTCGAG 1 cut(s) 674
XmiI GTMKAC 1 cut(s) 100
Zsp2I ATGCAT 1 cut(s) 724
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.