Rh6BG258400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0012429
Physical Location & Seq
Forward (+)
47184999 .. 47185952
954 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG258400.1

Sequence Viewer

Length: 954 bp
ATGCCATCGTTTACGAAGCACATCTTCTCCACAATTTCCAACCCTATTGGCCATTCATCTCAGGCCTCCATTTCCGCTAGCTCGTTGATTAAACTACGTCGTTTTAGCTCCGGTACTGATCGTGGCCGTGAAATGGAAGCGCCGGAGAAACAACCGCCGGAGCCGATACCCAATAGGCCCTTAAGAGGGCAGAGACCATCGAATCCCCGGACCAATGCTGATAGAAGGAGAGAGAGCCATCCCAATTTAGAAAGGAGGAGGGAGAACCCTAATCCGCCATTGCAGGACAGCAGTTTTCTTGAGAAGCTCAAGATGGGTCTTGACAAGTCGAAGAGAGAGAAGCCCCAGGAACCGGCGGAGGAGCCGCCGCCGCAGCAGCAGCAGCCGCCGGAGGAGGCCAATGAGATATTCAAGAAGATGAAGGAGACGGGTCTGATTCCCAATGCAGTGGCCATGCTTGATGGGCTCTGCAAAGATGGGCTGGTCCAGGAGGCAATGAAGCTTTTCGGGTCGATGCGCGAAAAGGGTACTATTCCTGAGGTGGTGATATACACTGCTGTGGTGGAAGGGTTTTGCAAAGCCCAGAAGCCTGAAGATGCTAAGAGGATTTTCAGGAAGATGCAGAGCAATGGGATTGTTCCGAATGCGTTTAGTTACAATGTGTTGGTGCAGGGGTTGTGTAGGTGTGATAAGCTGGAGGATGCTGCTATGTTCTGTGGCGAAATGTTGGAAGCCGGTCACTCGCCGAATGTGACTACTTTTGTGGGGTTGGTTGATGGGGTATGCAAGGAAAGTGGCGTGGAAGGAGCTGAAAGTGTGATTGGGAAGTTGAAGCAGAAGGGATATATGGTTAATGAGAAGGCTGTTAGAGAGTTTTTGGATAAAAGGGCAACGTTTTCGCCAGTGGTTTGGGAAGCTATCTTTGGGAAGAACCACCCAAAGAAACCTTTTTGA

Protein Analysis

317

Amino Acids

35.4

Weight (kDa)

9.12

Isoelectric Point (pI)

54.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 151 - 176 1.3e-06 PPR repeat
PPR_3 PF13812 168 - 223 5.6e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 178 - 208 2.4e-06 PPR repeat
PPR_2 PF13041 179 - 228 1.9e-15 PPR repeat family
PPR PF01535 182 - 212 1.8e-06 PPR repeat
PPR_1 PF12854 210 - 242 5.1e-08 PPR repeat
PPR_2 PF13041 214 - 263 6.4e-12 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: OG0012429)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G38150 AT4G38150 AT4G38150
fragaria_vesca FvH4_2g17180
malus_domestica MD05G1145100.v1.1
prunus_persica Prupe.8G183200_v2.0.a1
pyrus_communis pycom05g14030 pycom07g10800 pycom10g12460
rosa_chinensis RchiOBHm_Chr6g0281671
rosa_laevigata RLG00000012952
rosa_multiflora Rmu_co8238379.1_g000001 Rmu_sc0019758.1_g000001
rosa_rugosa Rorug06G0142300
rosa_samantha Rh6AG255000 Rh6BG258400 Rh6CG257200 Rh6DG249400
rosa_wichuraiana Rw6G022130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 519
AciI CCGC 8 cut(s) 75, 155, 275, 356, 365, 368, 371, 386
AclI AACGTT 1 cut(s) 893
AcoI YGGCCR 3 cut(s) 49, 124, 450
AcuI CTGAAG 1 cut(s) 612
AfaI GTAC 2 cut(s) 115, 529
AfiI CCNNNNNNNGG 4 cut(s) 133, 185, 186, 352
AflII CTTAAG 1 cut(s) 181
AgsI TTSAA 2 cut(s) 412, 832
AjnI CCWGG 2 cut(s) 345, 486
AjuI GAANNNNNNNTTGG 6 cut(s) 392, 424, 804, 836, 906, 938
AleI CACNNNNGTG 1 cut(s) 557
AluBI AGCT 7 cut(s) 81, 108, 307, 502, 694, 809, 917
AluI AGCT 7 cut(s) 81, 108, 307, 502, 694, 809, 917
Alw26I GTCTC 2 cut(s) 187, 419
AoxI GGCC 6 cut(s) 49, 63, 124, 176, 396, 450
ApeKI GCWGC 5 cut(s) 373, 376, 379, 382, 704
Asp700I GAANNNNTTC 1 cut(s) 503
AspLEI GCGC 2 cut(s) 142, 519
AspS9I GGNCC 3 cut(s) 177, 210, 484
AsuC2I CCSGG 1 cut(s) 208
AsuHPI GGTGA 1 cut(s) 556
AsuNHI GCTAGC 1 cut(s) 77
AvaII GGWCC 2 cut(s) 210, 484
AxyI CCTNAGG 1 cut(s) 537
BalI TGGCCA 2 cut(s) 51, 452
BanII GRGCYC 1 cut(s) 468
BbvI GCAGC 5 cut(s) 385, 388, 391, 394, 691
BccI CCATC 7 cut(s) 13, 205, 246, 307, 455, 470, 770
BceAI ACGGC 1 cut(s) 111
BcgI CGANNNNNNTGC 2 cut(s) 879, 913
BciT130I CCWGG 2 cut(s) 347, 488
BcnI CCSGG 1 cut(s) 208
BcoDI GTCTC 2 cut(s) 187, 419
BfaI CTAG 1 cut(s) 78
BfoI RGCGCY 1 cut(s) 143
BfrI CTTAAG 1 cut(s) 181
BisI GCNGC 9 cut(s) 365, 368, 371, 374, 377, 380, 383, 386, 705
BlsI GCNGC 9 cut(s) 366, 369, 372, 375, 378, 381, 384, 387, 706
Bme1390I CCNGG 3 cut(s) 208, 347, 488
Bme18I GGWCC 2 cut(s) 210, 484
BmgT120I GGNCC 3 cut(s) 177, 210, 484
BmiI GGNNCC 3 cut(s) 162, 351, 363
BmrFI CCNGG 3 cut(s) 208, 347, 488
BmsI GCATC 4 cut(s) 504, 586, 609, 691
BmtI GCTAGC 1 cut(s) 81
BpmI CTGGAG 1 cut(s) 716
BpuEI CTTGAG 2 cut(s) 293, 320
BpuMI CCSGG 1 cut(s) 208
BsaI GGTCTC 1 cut(s) 187
BsaJI CCNNGG 2 cut(s) 206, 345
BsaWI WCCGGW 1 cut(s) 110
BsaXI ACNNNNNCTCC 2 cut(s) 11, 41
Bsc4I CCNNNNNNNGG 4 cut(s) 133, 185, 186, 352
Bse118I RCCGGY 2 cut(s) 352, 734
Bse1I ACTGG 1 cut(s) 902
Bse21I CCTNAGG 1 cut(s) 537
Bse3DI GCAATG 3 cut(s) 278, 501, 634
BseBI CCWGG 2 cut(s) 347, 488
BseDI CCNNGG 2 cut(s) 206, 345
BseGI GGATG 2 cut(s) 238, 706
BseLI CCNNNNNNNGG 4 cut(s) 133, 185, 186, 352
BseMI GCAATG 3 cut(s) 278, 501, 634
BseMII CTCAG 2 cut(s) 74, 528
BseNI ACTGG 1 cut(s) 902
BseRI GAGGAG 3 cut(s) 271, 374, 407
BseXI GCAGC 5 cut(s) 385, 388, 391, 394, 691
BsgI GTGCAG 1 cut(s) 689
Bsh1236I CGCG 1 cut(s) 519
BshFI GGCC 6 cut(s) 51, 65, 126, 178, 398, 452
BsiSI CCGG 7 cut(s) 111, 143, 158, 208, 353, 389, 735
BslI CCNNNNNNNGG 4 cut(s) 133, 185, 186, 352
BsmAI GTCTC 2 cut(s) 187, 419
BsmBI CGTCTC 1 cut(s) 419
BsmI GAATGC 1 cut(s) 649
BsnI GGCC 6 cut(s) 51, 65, 126, 178, 398, 452
Bso31I GGTCTC 1 cut(s) 187
Bsp1286I GDGCHC 1 cut(s) 468
Bsp143I GATC 1 cut(s) 118
BspACI CCGC 8 cut(s) 75, 155, 275, 356, 365, 368, 371, 386
BspANI GGCC 6 cut(s) 51, 65, 126, 178, 398, 452
BspCNI CTCAG 2 cut(s) 73, 529
BspFNI CGCG 1 cut(s) 519
BspLI GGNNCC 3 cut(s) 162, 351, 363
BspOI GCTAGC 1 cut(s) 81
BspTI CTTAAG 1 cut(s) 181
BspTNI GGTCTC 1 cut(s) 187
BsrDI GCAATG 3 cut(s) 278, 501, 634
BsrFI RCCGGY 2 cut(s) 352, 734
BsrI ACTGG 1 cut(s) 902
BssAI RCCGGY 2 cut(s) 352, 734
BssECI CCNNGG 2 cut(s) 206, 345
BssMI GATC 1 cut(s) 118
Bst2UI CCWGG 2 cut(s) 347, 488
Bst6I CTCTTC 1 cut(s) 326
BstAFI CTTAAG 1 cut(s) 181
BstC8I GCNNGC 1 cut(s) 79
BstDEI CTNAG 3 cut(s) 60, 537, 600
BstF5I GGATG 2 cut(s) 238, 706
BstFNI CGCG 1 cut(s) 519
BstH2I RGCGCY 1 cut(s) 143
BstHHI GCGC 2 cut(s) 142, 519
BstKTI GATC 1 cut(s) 121
BstMAI GTCTC 2 cut(s) 187, 419
BstMBI GATC 1 cut(s) 118
BstMWI GCNNNNNNNGC 7 cut(s) 370, 373, 376, 379, 382, 385, 463
BstNI CCWGG 2 cut(s) 347, 488
BstSCI CCNGG 3 cut(s) 206, 345, 486
BstUI CGCG 1 cut(s) 519
BstV1I GCAGC 5 cut(s) 385, 388, 391, 394, 691
BstXI CCANNNNNNTGG 2 cut(s) 448, 909
Bsu36I CCTNAGG 1 cut(s) 537
BsuRI GGCC 6 cut(s) 51, 65, 126, 178, 398, 452
BtsCI GGATG 2 cut(s) 238, 706
BtsI GCAGTG 2 cut(s) 453, 552
BtsIMutI CAGTG 3 cut(s) 453, 552, 909
Cac8I GCNNGC 1 cut(s) 79
CfoI GCGC 2 cut(s) 142, 519
Cfr10I RCCGGY 2 cut(s) 352, 734
Cfr13I GGNCC 3 cut(s) 177, 210, 484
Csp6I GTAC 2 cut(s) 114, 528
CspCI CAANNNNNGTGG 2 cut(s) 775, 810
CviAII CATG 1 cut(s) 454
CviQI GTAC 2 cut(s) 114, 528
DdeI CTNAG 3 cut(s) 60, 537, 600
DpnI GATC 1 cut(s) 120
DpnII GATC 1 cut(s) 118
EaeI YGGCCR 3 cut(s) 49, 124, 450
Eam1104I CTCTTC 1 cut(s) 326
EarI CTCTTC 1 cut(s) 326
EciI GGCGGA 2 cut(s) 264, 371
Eco147I AGGCCT 1 cut(s) 65
Eco24I GRGCYC 1 cut(s) 468
Eco31I GGTCTC 1 cut(s) 187
Eco47I GGWCC 2 cut(s) 210, 484
Eco57I CTGAAG 1 cut(s) 612
Eco81I CCTNAGG 1 cut(s) 537
EcoO109I RGGNCCY 1 cut(s) 177
EcoRII CCWGG 2 cut(s) 345, 486
EcoT38I GRGCYC 1 cut(s) 468
Esp3I CGTCTC 1 cut(s) 419
FaeI CATG 1 cut(s) 457
FaiI YATR 6 cut(s) 455, 550, 710, 784, 846, 848
FalI AAGNNNNNCTT 2 cut(s) 8, 40
FatI CATG 1 cut(s) 453
Fnu4HI GCNGC 9 cut(s) 365, 368, 371, 374, 377, 380, 383, 386, 705
FokI GGATG 2 cut(s) 225, 713
FriOI GRGCYC 1 cut(s) 468
Fsp4HI GCNGC 9 cut(s) 365, 368, 371, 374, 377, 380, 383, 386, 705
FspBI CTAG 1 cut(s) 78
GlaI GCGC 2 cut(s) 141, 518
GluI GCNGC 9 cut(s) 365, 368, 371, 374, 377, 380, 383, 386, 705
GsuI CTGGAG 1 cut(s) 716
HaeII RGCGCY 1 cut(s) 143
HaeIII GGCC 6 cut(s) 51, 65, 126, 178, 398, 452
HapII CCGG 7 cut(s) 111, 143, 158, 208, 353, 389, 735
HhaI GCGC 2 cut(s) 142, 519
Hin1II CATG 1 cut(s) 457
Hin6I GCGC 2 cut(s) 140, 517
HinP1I GCGC 2 cut(s) 140, 517
HindIII AAGCTT 1 cut(s) 500
HinfI GANTC 2 cut(s) 202, 436
HpaII CCGG 7 cut(s) 111, 143, 158, 208, 353, 389, 735
HphI GGTGA 1 cut(s) 556
Hpy166II GTNNAC 1 cut(s) 12
Hpy188I TCNGA 2 cut(s) 435, 642
Hpy188III TCNNGA 6 cut(s) 299, 310, 320, 412, 536, 613
Hpy8I GTNNAC 1 cut(s) 12
Hpy99I CGWCG 1 cut(s) 102
HpyAV CCTTC 6 cut(s) 219, 415, 560, 797, 832, 853
HpyCH4IV ACGT 2 cut(s) 97, 893
HpyCH4V TGCA 7 cut(s) 283, 446, 471, 576, 622, 670, 786
HpyF10VI GCNNNNNNNGC 7 cut(s) 370, 373, 376, 379, 382, 385, 463
HpyF3I CTNAG 3 cut(s) 60, 537, 600
HpySE526I ACGT 2 cut(s) 97, 893
Hsp92II CATG 1 cut(s) 457
HspAI GCGC 2 cut(s) 140, 517
Kzo9I GATC 1 cut(s) 118
LmnI GCTCC 4 cut(s) 113, 160, 361, 806
Lsp1109I GCAGC 5 cut(s) 385, 388, 391, 394, 691
LweI GCATC 4 cut(s) 504, 586, 609, 691
MaeI CTAG 1 cut(s) 78
MaeII ACGT 2 cut(s) 97, 893
MaeIII GTNAC 3 cut(s) 653, 737, 751
MalI GATC 1 cut(s) 120
MboI GATC 1 cut(s) 118
MboII GAAGA 6 cut(s) 16, 343, 427, 605, 628, 940
MhlI GDGCHC 1 cut(s) 468
MlsI TGGCCA 2 cut(s) 51, 452
MluCI AATT 2 cut(s) 33, 244
MluNI TGGCCA 2 cut(s) 51, 452
MmeI TCCRAC 2 cut(s) 63, 708
Mox20I TGGCCA 2 cut(s) 51, 452
MroXI GAANNNNTTC 1 cut(s) 503
MscI TGGCCA 2 cut(s) 51, 452
MseI TTAA 3 cut(s) 90, 182, 852
MslI CAYNNNNRTG 1 cut(s) 557
Msp20I TGGCCA 2 cut(s) 51, 452
MspCI CTTAAG 1 cut(s) 181
MspI CCGG 7 cut(s) 111, 143, 158, 208, 353, 389, 735
MspR9I CCNGG 3 cut(s) 208, 347, 488
Mva1269I GAATGC 1 cut(s) 649
MvaI CCWGG 2 cut(s) 347, 488
MvnI CGCG 1 cut(s) 519
MwoI GCNNNNNNNGC 7 cut(s) 370, 373, 376, 379, 382, 385, 463
NciI CCSGG 1 cut(s) 208
NdeII GATC 1 cut(s) 118
NheI GCTAGC 1 cut(s) 77
NlaIII CATG 1 cut(s) 457
NlaIV GGNNCC 3 cut(s) 162, 351, 363
NmuCI GTSAC 2 cut(s) 737, 751
OliI CACNNNNGTG 1 cut(s) 557
PceI AGGCCT 1 cut(s) 65
PctI GAATGC 1 cut(s) 649
PdmI GAANNNNTTC 1 cut(s) 503
PfeI GAWTC 2 cut(s) 202, 436
PfoI TCCNGGA 1 cut(s) 486
PkrI GCNGC 9 cut(s) 366, 369, 372, 375, 378, 381, 384, 387, 706
Psp1406I AACGTT 1 cut(s) 893
Psp6I CCWGG 2 cut(s) 345, 486
PspGI CCWGG 2 cut(s) 345, 486
PspN4I GGNNCC 3 cut(s) 162, 351, 363
PspPI GGNCC 3 cut(s) 177, 210, 484
RsaI GTAC 2 cut(s) 115, 529
RsaNI GTAC 2 cut(s) 114, 528
RseI CAYNNNNRTG 1 cut(s) 557
SaqAI TTAA 3 cut(s) 90, 182, 852
SatI GCNGC 9 cut(s) 365, 368, 371, 374, 377, 380, 383, 386, 705
Sau3AI GATC 1 cut(s) 118
Sau96I GGNCC 3 cut(s) 177, 210, 484
ScrFI CCNGG 3 cut(s) 208, 347, 488
SduI GDGCHC 1 cut(s) 468
SfaNI GCATC 4 cut(s) 504, 586, 609, 691
SinI GGWCC 2 cut(s) 210, 484
SmiMI CAYNNNNRTG 1 cut(s) 557
SmlI CTYRAG 3 cut(s) 181, 299, 308
SmoI CTYRAG 3 cut(s) 181, 299, 308
Sse9I AATT 2 cut(s) 33, 244
SseBI AGGCCT 1 cut(s) 65
SsiI CCGC 8 cut(s) 75, 155, 275, 356, 365, 368, 371, 386
SspMI CTAG 1 cut(s) 78
StuI AGGCCT 1 cut(s) 65
StyD4I CCNGG 3 cut(s) 206, 345, 486
TaiI ACGT 2 cut(s) 100, 896
TaqI TCGA 3 cut(s) 200, 329, 512
TasI AATT 2 cut(s) 33, 244
TauI GCSGC 4 cut(s) 367, 370, 373, 388
TfiI GAWTC 2 cut(s) 202, 436
Tru1I TTAA 3 cut(s) 90, 182, 852
Tru9I TTAA 3 cut(s) 90, 182, 852
TscAI CASTG 3 cut(s) 453, 559, 909
TseFI GTSAC 2 cut(s) 737, 751
TseI GCWGC 5 cut(s) 373, 376, 379, 382, 704
Tsp45I GTSAC 2 cut(s) 737, 751
TspDTI ATGAA 3 cut(s) 45, 434, 512
TspRI CASTG 3 cut(s) 453, 559, 909
Vha464I CTTAAG 1 cut(s) 181
VpaK11BI GGWCC 2 cut(s) 210, 484
XmnI GAANNNNTTC 1 cut(s) 503
XspI CTAG 1 cut(s) 78
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.