Rroxscaffold_4G00308760

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0012948
Physical Location & Seq
Reverse (-)
30404027 .. 30416378
12352 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00308760.1

Sequence Viewer

Length: 1044 bp
ATGTCGAAAGTACAAAGCAATAGGAATGGTTCTGCCAAGCAACTTCATGCTCCGACACCGGGGAAGGCAACAGTTCTTGCATTGGGTAAGGCCTTCCCGAGCCAAATCATCCCTCAGGATTGCTTGGTCGAGGGATACATTCGTGACACGAAATGTGCAGATGTTGCCATCAAGGAGAAACTGGAGCGGCTCTGCAAAACCACAACTGTGAAGACTAGATACACAGTGATGTCAAAGGAGATCCTAGACAAATACCCTGAACTAGCAACTGAGGGCACAGCCACTATCAGACAAAGGCTTGAAGTCACAAACCCTGCAGTGGTAGAGATGGCCTTGGAAGCAAGCCTTGCTTGCATCAAGGAATGGGGCAGACCAGTTGAAGACATTACTCATGTTGTCTATGTCTCCTCAAGTGAAATAAGACTCCCTGGAGGTGACCTCTACCTTGCCAGCAAGCTCGGCCTGAGGAACGATGTAGGCCGTGTCATGCTCTATTTCTTAGGCTGCTATGGTGGCCCCCCAACAAGGCGCGCCCTTTACGACCTTGTTGGGGCTGCACTTTTTGGGGATGGAGCCGCGGCTGTGATCATTGGAAGCAACCCAGTTTGTGGTCAAGAGTCTCCTTTCATGGAGCTCAACTATGCTGTCCAGCAATTCCTCCCTGACACACACAATGTGATCGATGGAAGGCTCTCCGAGGAAGGCATCAACTTCAAGCTGGGAAGGGACCTTCCTCAGAAGATTGATGAGAACATTGAAGTGTTTTGCAAGAAACTCATGGCAAAAGCTAATCTCAAGGACTTCAATGAGTTGTTCTGGGCTGTGCATCCTGGTGGGCCTGCAATCCTTAACAAGCTAGAGGGGACACTGAAGCTCACAAGTGACAAGCTCGAGTGTAGCAGACAGGCCTTGATGGACTATGGCAATGTTAGCAGCAACACCATTTTCTATGTGATGGAGAAGATGAGAGAGGAGTTGAGGAAAGAAAGAAGGGAGGGAAGAATGGGGACTTGCTTTGGCTTTTGGACCGGGGATCACATTTGA

Protein Analysis

347

Amino Acids

38.5

Weight (kDa)

7.52

Isoelectric Point (pI)

41.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chal_sti_synt_N PF00195 19 - 174 3.9e-69 Chalcone and stilbene synthases, N-terminal domain
Chal_sti_synt_N PF00195 173 - 201 3.3e-08 Chalcone and stilbene synthases, N-terminal domain
Chal_sti_synt_C PF02797 211 - 340 8.2e-55 Chalcone and stilbene synthases, C-terminal domain
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: OG0012948)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02050 AT4G00040
fragaria_vesca FvH4_7g09471
malus_domestica MD07G1098500.v1.1
prunus_persica Prupe.2G122600_v2.0.a1
pyrus_communis pycom07g08120
rosa_chinensis RchiOBHm_Chr1g0346291
rosa_laevigata RLG00000028808
rosa_multiflora Rmu_co8385307.1_g000001 Rmu_sc0003363.1_g000039 Rmu_sc0003809.1_g000039
rosa_roxburghii Rroxscaffold_4G00308760
rosa_rugosa Rorug01G0178800
rosa_samantha Rh1AG198200 Rh1BG164300 Rh1CG183500 Rh1DG195000
rosa_wichuraiana Rw1G016660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 608
AccBSI CCGCTC 1 cut(s) 187
AccII CGCG 2 cut(s) 531, 578
AciI CCGC 3 cut(s) 187, 576, 578
AclWI GGATC 2 cut(s) 235, 1041
AcuI CTGAAG 1 cut(s) 890
AdeI CACNNNGTG 1 cut(s) 676
AfaI GTAC 1 cut(s) 12
AfiI CCNNNNNNNGG 5 cut(s) 59, 319, 525, 550, 608
AgsI TTSAA 5 cut(s) 302, 380, 715, 758, 805
AjnI CCWGG 2 cut(s) 427, 829
AleI CACNNNNGTG 1 cut(s) 206
AluBI AGCT 7 cut(s) 457, 634, 718, 788, 856, 874, 889
AluI AGCT 7 cut(s) 457, 634, 718, 788, 856, 874, 889
Alw21I GWGCWC 1 cut(s) 636
Alw26I GTCTC 2 cut(s) 409, 624
AlwI GGATC 2 cut(s) 235, 1041
Ama87I CYCGRG 2 cut(s) 97, 890
AoxI GGCC 7 cut(s) 90, 330, 460, 478, 514, 836, 906
ApeKI GCWGC 3 cut(s) 504, 554, 933
AscI GGCGCGCC 1 cut(s) 529
AspLEI GCGC 2 cut(s) 531, 533
AspS9I GGNCC 4 cut(s) 515, 727, 836, 1026
AsuC2I CCSGG 2 cut(s) 60, 1030
AsuHPI GGTGA 1 cut(s) 446
AvaI CYCGRG 2 cut(s) 97, 890
AvaII GGWCC 2 cut(s) 727, 1026
AxyI CCTNAGG 2 cut(s) 114, 464
BaeGI GKGCMC 1 cut(s) 278
BaeI ACNNNNGTAYC 2 cut(s) 127, 160
BanII GRGCYC 1 cut(s) 636
BarI GAAGNNNNNNTAC 2 cut(s) 203, 235
BbsI GAAGAC 2 cut(s) 218, 387
Bbv12I GWGCWC 1 cut(s) 636
BbvI GCAGC 3 cut(s) 491, 541, 945
BccI CCATC 6 cut(s) 176, 322, 563, 677, 907, 949
BceAI ACGGC 1 cut(s) 465
BciT130I CCWGG 2 cut(s) 429, 831
BciVI GTATCC 1 cut(s) 128
BclI TGATCA 1 cut(s) 585
BcnI CCSGG 2 cut(s) 60, 1030
BcoDI GTCTC 2 cut(s) 409, 624
BfaI CTAG 4 cut(s) 216, 245, 263, 857
BfmI CTRYAG 1 cut(s) 315
BfuI GTATCC 1 cut(s) 128
BisI GCNGC 6 cut(s) 188, 505, 555, 576, 579, 934
BlsI GCNGC 6 cut(s) 189, 506, 556, 577, 580, 935
Bme1390I CCNGG 4 cut(s) 60, 429, 831, 1030
Bme18I GGWCC 2 cut(s) 727, 1026
BmeT110I CYCGRG 2 cut(s) 97, 890
BmgT120I GGNCC 4 cut(s) 515, 727, 836, 1026
BmiI GGNNCC 3 cut(s) 517, 574, 728
BmrFI CCNGG 4 cut(s) 60, 429, 831, 1030
BmrI ACTGGG 1 cut(s) 596
BmsI GCATC 3 cut(s) 363, 714, 835
BmuI ACTGGG 1 cut(s) 596
BpiI GAAGAC 2 cut(s) 218, 387
BplI GAGNNNNNCTC 2 cut(s) 423, 455
BpmI CTGGAG 2 cut(s) 203, 450
BpuEI CTTGAG 2 cut(s) 394, 779
BpuMI CCSGG 2 cut(s) 60, 1030
Bsa29I ATCGAT 1 cut(s) 681
BsaJI CCNNGG 6 cut(s) 59, 333, 427, 576, 696, 1029
Bsc4I CCNNNNNNNGG 5 cut(s) 59, 319, 525, 550, 608
Bse1I ACTGG 3 cut(s) 186, 374, 602
Bse21I CCTNAGG 2 cut(s) 114, 464
Bse3DI GCAATG 1 cut(s) 931
BseBI CCWGG 2 cut(s) 429, 831
BseCI ATCGAT 1 cut(s) 681
BseDI CCNNGG 6 cut(s) 59, 333, 427, 576, 696, 1029
BseGI GGATG 3 cut(s) 108, 574, 826
BseLI CCNNNNNNNGG 5 cut(s) 59, 319, 525, 550, 608
BseMI GCAATG 1 cut(s) 931
BseMII CTCAG 4 cut(s) 128, 261, 455, 749
BseNI ACTGG 3 cut(s) 186, 374, 602
BsePI GCGCGC 1 cut(s) 529
BseRI GAGGAG 2 cut(s) 397, 986
BseSI GKGCMC 1 cut(s) 278
BseXI GCAGC 3 cut(s) 491, 541, 945
BseYI CCCAGC 1 cut(s) 718
BsgI GTGCAG 2 cut(s) 177, 540
Bsh1236I CGCG 2 cut(s) 531, 578
BshFI GGCC 7 cut(s) 92, 332, 462, 480, 516, 838, 908
BshVI ATCGAT 1 cut(s) 681
BsiHKAI GWGCWC 1 cut(s) 636
BsiHKCI CYCGRG 2 cut(s) 97, 890
BsiSI CCGG 2 cut(s) 59, 1029
BslFI GGGAC 3 cut(s) 740, 877, 1021
BslI CCNNNNNNNGG 5 cut(s) 59, 319, 525, 550, 608
BsmAI GTCTC 2 cut(s) 409, 624
BsmFI GGGAC 3 cut(s) 740, 877, 1021
BsnI GGCC 7 cut(s) 92, 332, 462, 480, 516, 838, 908
BsoBI CYCGRG 2 cut(s) 97, 890
Bsp1286I GDGCHC 2 cut(s) 278, 636
Bsp143I GATC 4 cut(s) 240, 585, 678, 1033
BspACI CCGC 3 cut(s) 187, 576, 578
BspANI GGCC 7 cut(s) 92, 332, 462, 480, 516, 838, 908
BspCNI CTCAG 4 cut(s) 127, 262, 456, 748
BspDI ATCGAT 1 cut(s) 681
BspFNI CGCG 2 cut(s) 531, 578
BspLI GGNNCC 3 cut(s) 517, 574, 728
BspMAI CTGCAG 1 cut(s) 319
BspPI GGATC 2 cut(s) 235, 1041
BsrBI CCGCTC 1 cut(s) 187
BsrDI GCAATG 1 cut(s) 931
BsrI ACTGG 3 cut(s) 186, 374, 602
BssECI CCNNGG 6 cut(s) 59, 333, 427, 576, 696, 1029
BssHII GCGCGC 1 cut(s) 529
BssMI GATC 4 cut(s) 240, 585, 678, 1033
BssT1I CCWWGG 1 cut(s) 333
Bst2UI CCWGG 2 cut(s) 429, 831
Bst4CI ACNGT 3 cut(s) 73, 208, 226
BstAPI GCANNNNNTGC 2 cut(s) 164, 347
BstC8I GCNNGC 6 cut(s) 343, 352, 451, 455, 531, 840
BstDEI CTNAG 5 cut(s) 114, 270, 464, 499, 735
BstDSI CCRYGG 1 cut(s) 576
BstEII GGTNACC 1 cut(s) 434
BstF5I GGATG 3 cut(s) 108, 574, 826
BstFNI CGCG 2 cut(s) 531, 578
BstHHI GCGC 2 cut(s) 531, 533
BstKTI GATC 4 cut(s) 243, 588, 681, 1036
BstMAI GTCTC 2 cut(s) 409, 624
BstMBI GATC 4 cut(s) 240, 585, 678, 1033
BstMWI GCNNNNNNNGC 7 cut(s) 164, 338, 347, 351, 459, 513, 930
BstNI CCWGG 2 cut(s) 429, 831
BstPI GGTNACC 1 cut(s) 434
BstSCI CCNGG 4 cut(s) 58, 427, 829, 1028
BstSFI CTRYAG 1 cut(s) 315
BstSLI GKGCMC 1 cut(s) 278
BstUI CGCG 2 cut(s) 531, 578
BstV1I GCAGC 3 cut(s) 491, 541, 945
BstV2I GAAGAC 2 cut(s) 218, 387
BstX2I RGATCY 1 cut(s) 240
BstYI RGATCY 1 cut(s) 240
Bsu15I ATCGAT 1 cut(s) 681
Bsu36I CCTNAGG 2 cut(s) 114, 464
BsuI GTATCC 1 cut(s) 128
BsuRI GGCC 7 cut(s) 92, 332, 462, 480, 516, 838, 908
BsuTUI ATCGAT 1 cut(s) 681
BtgI CCRYGG 1 cut(s) 576
BtsCI GGATG 3 cut(s) 108, 574, 826
BtsI GCAGTG 1 cut(s) 324
BtsIMutI CAGTG 3 cut(s) 231, 324, 866
Cac8I GCNNGC 6 cut(s) 343, 352, 451, 455, 531, 840
CfoI GCGC 2 cut(s) 531, 533
Cfr13I GGNCC 4 cut(s) 515, 727, 836, 1026
Cfr42I CCGCGG 1 cut(s) 579
ClaI ATCGAT 1 cut(s) 681
Csp6I GTAC 1 cut(s) 11
CviAII CATG 5 cut(s) 47, 392, 487, 628, 778
CviQI GTAC 1 cut(s) 11
DdeI CTNAG 5 cut(s) 114, 270, 464, 499, 735
DpnI GATC 4 cut(s) 242, 587, 680, 1035
DpnII GATC 4 cut(s) 240, 585, 678, 1033
DraIII CACNNNGTG 1 cut(s) 676
Ecl136II GAGCTC 1 cut(s) 634
Eco130I CCWWGG 1 cut(s) 333
Eco147I AGGCCT 2 cut(s) 92, 908
Eco24I GRGCYC 1 cut(s) 636
Eco47I GGWCC 2 cut(s) 727, 1026
Eco53kI GAGCTC 1 cut(s) 634
Eco57I CTGAAG 1 cut(s) 890
Eco81I CCTNAGG 2 cut(s) 114, 464
Eco88I CYCGRG 2 cut(s) 97, 890
Eco91I GGTNACC 1 cut(s) 434
EcoICRI GAGCTC 1 cut(s) 634
EcoO109I RGGNCCY 1 cut(s) 727
EcoO65I GGTNACC 1 cut(s) 434
EcoRII CCWGG 2 cut(s) 427, 829
EcoT14I CCWWGG 1 cut(s) 333
EcoT38I GRGCYC 1 cut(s) 636
ErhI CCWWGG 1 cut(s) 333
FaeI CATG 5 cut(s) 50, 395, 490, 631, 781
FalI AAGNNNNNCTT 4 cut(s) 330, 362, 334, 366
FaqI GGGAC 3 cut(s) 740, 877, 1021
FatI CATG 5 cut(s) 46, 391, 486, 627, 777
FbaI TGATCA 1 cut(s) 585
Fnu4HI GCNGC 6 cut(s) 188, 505, 555, 576, 579, 934
FokI GGATG 3 cut(s) 95, 581, 813
FriOI GRGCYC 1 cut(s) 636
Fsp4HI GCNGC 6 cut(s) 188, 505, 555, 576, 579, 934
FspBI CTAG 4 cut(s) 216, 245, 263, 857
GlaI GCGC 2 cut(s) 530, 532
GluI GCNGC 6 cut(s) 188, 505, 555, 576, 579, 934
GsaI CCCAGC 1 cut(s) 722
GsuI CTGGAG 2 cut(s) 203, 450
HaeIII GGCC 7 cut(s) 92, 332, 462, 480, 516, 838, 908
HapII CCGG 2 cut(s) 59, 1029
HhaI GCGC 2 cut(s) 531, 533
Hin1II CATG 5 cut(s) 50, 395, 490, 631, 781
Hin6I GCGC 2 cut(s) 529, 531
HinP1I GCGC 2 cut(s) 529, 531
HinfI GANTC 2 cut(s) 423, 617
HpaII CCGG 2 cut(s) 59, 1029
HphI GGTGA 1 cut(s) 446
Hpy188I TCNGA 4 cut(s) 54, 290, 697, 738
Hpy188III TCNNGA 4 cut(s) 97, 116, 143, 614
HpyAV CCTTC 7 cut(s) 58, 103, 681, 695, 717, 740, 984
HpyCH4III ACNGT 3 cut(s) 73, 208, 226
HpyCH4V TGCA 9 cut(s) 80, 158, 195, 317, 354, 557, 768, 826, 842
HpyF10VI GCNNNNNNNGC 7 cut(s) 164, 338, 347, 351, 459, 513, 930
HpyF3I CTNAG 5 cut(s) 114, 270, 464, 499, 735
Hsp92II CATG 5 cut(s) 50, 395, 490, 631, 781
HspAI GCGC 2 cut(s) 529, 531
Ksp22I TGATCA 1 cut(s) 585
KspI CCGCGG 1 cut(s) 579
Kzo9I GATC 4 cut(s) 240, 585, 678, 1033
LmnI GCTCC 4 cut(s) 55, 184, 572, 631
Lsp1109I GCAGC 3 cut(s) 491, 541, 945
LweI GCATC 3 cut(s) 363, 714, 835
MaeI CTAG 4 cut(s) 216, 245, 263, 857
MaeIII GTNAC 4 cut(s) 143, 304, 434, 881
MalI GATC 4 cut(s) 242, 587, 680, 1035
MbiI CCGCTC 1 cut(s) 187
MboI GATC 4 cut(s) 240, 585, 678, 1033
MboII GAAGA 5 cut(s) 223, 392, 751, 973, 1011
MflI RGATCY 1 cut(s) 240
MhlI GDGCHC 2 cut(s) 278, 636
MluCI AATT 1 cut(s) 653
MlyI GAGTC 2 cut(s) 417, 626
MmeI TCCRAC 1 cut(s) 77
MseI TTAA 1 cut(s) 849
MslI CAYNNNNRTG 4 cut(s) 206, 227, 758, 831
MspA1I CMGCKG 1 cut(s) 578
MspI CCGG 2 cut(s) 59, 1029
MspR9I CCNGG 4 cut(s) 60, 429, 831, 1030
MvaI CCWGG 2 cut(s) 429, 831
MvnI CGCG 2 cut(s) 531, 578
MwoI GCNNNNNNNGC 7 cut(s) 164, 338, 347, 351, 459, 513, 930
NciI CCSGG 2 cut(s) 60, 1030
NdeII GATC 4 cut(s) 240, 585, 678, 1033
NlaIII CATG 5 cut(s) 50, 395, 490, 631, 781
NlaIV GGNNCC 3 cut(s) 517, 574, 728
NmeAIII GCCGAG 1 cut(s) 438
NmuCI GTSAC 4 cut(s) 143, 304, 434, 881
OliI CACNNNNGTG 1 cut(s) 206
PaeR7I CTCGAG 1 cut(s) 890
PalAI GGCGCGCC 1 cut(s) 529
PauI GCGCGC 1 cut(s) 529
PceI AGGCCT 2 cut(s) 92, 908
PflMI CCANNNNNTGG 1 cut(s) 608
PkrI GCNGC 6 cut(s) 189, 506, 556, 577, 580, 935
PleI GAGTC 2 cut(s) 417, 625
PpsI GAGTC 2 cut(s) 417, 625
PpuMI RGGWCCY 1 cut(s) 727
Psp124BI GAGCTC 1 cut(s) 636
Psp5II RGGWCCY 1 cut(s) 727
Psp6I CCWGG 2 cut(s) 427, 829
PspEI GGTNACC 1 cut(s) 434
PspFI CCCAGC 1 cut(s) 718
PspGI CCWGG 2 cut(s) 427, 829
PspN4I GGNNCC 3 cut(s) 517, 574, 728
PspPI GGNCC 4 cut(s) 515, 727, 836, 1026
PspPPI RGGWCCY 1 cut(s) 727
PspXI VCTCGAGB 1 cut(s) 890
PstI CTGCAG 1 cut(s) 319
PsuI RGATCY 1 cut(s) 240
PteI GCGCGC 1 cut(s) 529
RsaI GTAC 1 cut(s) 12
RsaNI GTAC 1 cut(s) 11
RseI CAYNNNNRTG 4 cut(s) 206, 227, 758, 831
SacI GAGCTC 1 cut(s) 636
SacII CCGCGG 1 cut(s) 579
SaqAI TTAA 1 cut(s) 849
SatI GCNGC 6 cut(s) 188, 505, 555, 576, 579, 934
Sau3AI GATC 4 cut(s) 240, 585, 678, 1033
Sau96I GGNCC 4 cut(s) 515, 727, 836, 1026
SchI GAGTC 2 cut(s) 417, 626
ScrFI CCNGG 4 cut(s) 60, 429, 831, 1030
SduI GDGCHC 2 cut(s) 278, 636
SfaNI GCATC 3 cut(s) 363, 714, 835
SfcI CTRYAG 1 cut(s) 315
Sfr274I CTCGAG 1 cut(s) 890
Sfr303I CCGCGG 1 cut(s) 579
SgrBI CCGCGG 1 cut(s) 579
SgsI GGCGCGCC 1 cut(s) 529
SinI GGWCC 2 cut(s) 727, 1026
SlaI CTCGAG 1 cut(s) 890
SmiMI CAYNNNNRTG 4 cut(s) 206, 227, 758, 831
SmlI CTYRAG 3 cut(s) 409, 794, 890
SmoI CTYRAG 3 cut(s) 409, 794, 890
Sse9I AATT 1 cut(s) 653
SseBI AGGCCT 2 cut(s) 92, 908
SsiI CCGC 3 cut(s) 187, 576, 578
SspMI CTAG 4 cut(s) 216, 245, 263, 857
SstI GAGCTC 1 cut(s) 636
StuI AGGCCT 2 cut(s) 92, 908
StyD4I CCNGG 4 cut(s) 58, 427, 829, 1028
StyI CCWWGG 1 cut(s) 333
TaaI ACNGT 3 cut(s) 73, 208, 226
TaqI TCGA 4 cut(s) 5, 129, 681, 891
TasI AATT 1 cut(s) 653
TatI WGTACW 1 cut(s) 10
TauI GCSGC 3 cut(s) 190, 578, 581
Tru1I TTAA 1 cut(s) 849
Tru9I TTAA 1 cut(s) 849
TscAI CASTG 3 cut(s) 231, 324, 873
TseFI GTSAC 4 cut(s) 143, 304, 434, 881
TseI GCWGC 3 cut(s) 504, 554, 933
Tsp45I GTSAC 4 cut(s) 143, 304, 434, 881
TspDTI ATGAA 2 cut(s) 35, 616
TspRI CASTG 3 cut(s) 231, 324, 873
Van91I CCANNNNNTGG 1 cut(s) 608
VpaK11BI GGWCC 2 cut(s) 727, 1026
XhoI CTCGAG 1 cut(s) 890
XspI CTAG 4 cut(s) 216, 245, 263, 857
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.