Rw5G002230

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000591
Physical Location & Seq
Forward (+)
1872010 .. 1873176
1167 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G002230.1

Sequence Viewer

Length: 996 bp
ATGTGGAATGCCACCCTCTTATCAGAACTGTTTCCTCTTCACATTGTTCAGAAAATCCTTTCTATTCCCCTTAGTCCCCGAAATCATGAGGATAGGTGGATTTGGGGTGGTGATAAAAGAGGTCGGTTCACGGTTAAATCAGCCTATCATATTGCTCGGGATCGGATTCTTGAAGATTCATCCACACCTAACCCAAGTGTTGCACTTTGGCGTCAGTTGTGGAAAGCGCCAGTCCCAGGTAGTGTAAAGATCTGTGCATGGAAAGCAGCCTCCAATGTTCTTCCTACTCGGAGTAGGCTACGTGATCGTGGTATTGATTTAGATACCCAATGCCCTCTCTGTGATGAAGAAATAGAGACTCCTTTGCATGCGGTTCGAGATTGTCCCCATGCTACTAGTTTGTTTCAGGGGGCCAACCTCCCATTATACACGACCCCTAAAAGTGTTGCAAACTGGCTATTGTTAGCCTCTTCGTCGAGTCCTCGGTCTTTTGACTATTATTTGATGATTTTGTGGGCTATTTGGAGAAATAGAAACGCTAAAGTTTGGGAGGGTGATTTTAAACAAGCGTCTCAGATTGTTCCAGTGACTCTGGGTTGGTTGGAAGAATTTAAAGCTGCTCGTTCTTCTAACCAGTCGGGTTTGGCTGCTAGGCCGGTTAAGAGGTGGACGAAACCTCCTTTGGGCTTCGTTAAACTGAATGTTGATGCTGCCTTTGATCAAGGCTCAGATTGTTTGGATTTGGTGTCCGGAATAGCGTCTGCTGCACTAGATGGGTCGGAACTCGGTTTTTTGTTGGAAGATTTGCGGGTTTTGTTGCTTGAGGCGTTGGGAGCTCGTGTCCTCAAGGTTGGAAGACAGGCCAATGGTGTGGCTCATGTCTTGGCTCAGGAGGCTAAGAATGTTGATTTTCAAATAGATTTCTTCTCATATCTTCCTCCGTCTGTGGAGGCTATATTAATCTCTGATTGTAATGATTCTCAATCAATGAATTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2 PfkB TB2_DP1_HVA22

Protein Analysis

331

Amino Acids

36.89

Weight (kDa)

7.63

Isoelectric Point (pI)

51.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 43 - 133 4.7e-16 zinc-binding in reverse transcriptase
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: OG0000591)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G03566
fragaria_vesca FvH4_2g12622 FvH4_2g12642 FvH4_2g13902 FvH4_3g05011 FvH4_3g18961 FvH4_3g31940 FvH4_4g08421 FvH4_4g21351 FvH4_5g28071 FvH4_5g34871 FvH4_6g21812 FvH4_6g30441 FvH4_6g33631
rosa_chinensis RchiOBHm_Chr1g0320221 RchiOBHm_Chr1g0356521 RchiOBHm_Chr4g0389021 RchiOBHm_Chr5g0020651 RchiOBHm_Chr5g0027511
rosa_laevigata RLG00000002966 RLG00000019504
rosa_multiflora Rmu_co7963640.1_g000001 Rmu_co7988458.1_g000001 Rmu_co8109512.1_g000001 Rmu_co8136160.1_g000001 Rmu_co8253655.1_g000001 Rmu_sc0000388.1_g000040 Rmu_sc0000540.1_g000056 Rmu_sc0000574.1_g000013 Rmu_sc0000623.1_g000001 Rmu_sc0000795.1_g000005 Rmu_sc0000795.1_g000006 Rmu_sc0001063.1_g000001 Rmu_sc0002116.1_g000001 Rmu_sc0002192.1_g000012 Rmu_sc0002640.1_g000015 Rmu_sc0003337.1_g000039 Rmu_sc0004298.1_g000003 Rmu_sc0004771.1_g000001 Rmu_sc0006119.1_g000010 Rmu_sc0006633.1_g000007 Rmu_sc0007025.1_g000016 Rmu_sc0007221.1_g000002 Rmu_sc0007222.1_g000002 Rmu_sc0007806.1_g000016 Rmu_sc0008241.1_g000018 Rmu_sc0008348.1_g000001 Rmu_sc0009034.1_g000001 Rmu_sc0009955.1_g000004 Rmu_sc0018325.1_g000009 Rmu_sc0028328.1_g000002 Rmu_sc0030178.1_g000001 Rmu_sc0034381.1_g000001 Rmu_sc0041085.1_g000001 Rmu_sc0041085.1_g000002
rosa_roxburghii Rroxscaffold_3G00233230 Rroxscaffold_7G00193120 Rroxscaffold_7G00194820
rosa_rugosa Rorug01G0017000 Rorug01G0036400 Rorug01G0062600 Rorug01G0118500 Rorug02G0351500 Rorug02G0497600 Rorug03G0233200 Rorug03G0279500 Rorug03G0347600 Rorug04G0077100 Rorug04G0077200 Rorug04G0210900 Rorug05G0206900 Rorug07G0202900 Rorug07G0334000
rosa_samantha Rh2CG195700 Rh4DG035800
rosa_wichuraiana Rw0G005080 Rw0G013600 Rw2G020080 Rw2G024380 Rw5G002230 Rw5G036790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 749
AciI CCGC 2 cut(s) 371, 808
AclWI GGATC 1 cut(s) 168
AcsI RAATTY 1 cut(s) 608
AcyI GRCGYC 1 cut(s) 211
AfiI CCNNNNNNNGG 2 cut(s) 236, 683
AgsI TTSAA 2 cut(s) 173, 914
AhlI ACTAGT 1 cut(s) 395
AjnI CCWGG 1 cut(s) 235
AjuI GAANNNNNNNTTGG 2 cut(s) 665, 697
AluBI AGCT 2 cut(s) 617, 836
AluI AGCT 2 cut(s) 617, 836
Alw21I GWGCWC 1 cut(s) 838
Alw26I GTCTC 2 cut(s) 350, 576
AlwI GGATC 1 cut(s) 168
Ama87I CYCGRG 1 cut(s) 156
Aor13HI TCCGGA 1 cut(s) 749
AoxI GGCC 3 cut(s) 411, 653, 861
ApeKI GCWGC 5 cut(s) 266, 617, 647, 710, 764
ApoI RAATTY 1 cut(s) 608
AseI ATTAAT 1 cut(s) 959
Asp700I GAANNNNTTC 1 cut(s) 30
AspLEI GCGC 1 cut(s) 229
AspS9I GGNCC 1 cut(s) 411
AsuHPI GGTGA 2 cut(s) 122, 566
AvaI CYCGRG 1 cut(s) 156
BanII GRGCYC 1 cut(s) 838
BauI CACGAG 1 cut(s) 837
BbsI GAAGAC 1 cut(s) 862
Bbv12I GWGCWC 1 cut(s) 838
BbvI GCAGC 5 cut(s) 278, 604, 634, 697, 751
BccI CCATC 1 cut(s) 767
BcgI CGANNNNNNTGC 2 cut(s) 356, 390
BciT130I CCWGG 1 cut(s) 237
BclI TGATCA 1 cut(s) 718
BcoDI GTCTC 2 cut(s) 350, 576
BcuI ACTAGT 1 cut(s) 395
BfaI CTAG 3 cut(s) 396, 651, 770
BfoI RGCGCY 1 cut(s) 230
BglII AGATCT 1 cut(s) 249
BisI GCNGC 5 cut(s) 267, 618, 648, 711, 765
BlsI GCNGC 5 cut(s) 268, 619, 649, 712, 766
Bme1390I CCNGG 1 cut(s) 237
BmeT110I CYCGRG 1 cut(s) 156
BmgT120I GGNCC 1 cut(s) 411
BmiI GGNNCC 1 cut(s) 412
BmrFI CCNGG 1 cut(s) 237
BmsI GCATC 1 cut(s) 697
BpiI GAAGAC 1 cut(s) 862
Bpu10I CCTNAGC 1 cut(s) 888
BpuEI CTTGAG 2 cut(s) 830, 842
BsaAI YACGTR 1 cut(s) 302
BsaHI GRCGYC 1 cut(s) 211
BsaJI CCNNGG 2 cut(s) 235, 482
BsaWI WCCGGW 1 cut(s) 749
BsaXI ACNNNNNCTCC 4 cut(s) 661, 691, 825, 855
Bsc4I CCNNNNNNNGG 2 cut(s) 236, 683
Bse118I RCCGGY 1 cut(s) 655
Bse1I ACTGG 4 cut(s) 230, 458, 584, 634
BseAI TCCGGA 1 cut(s) 749
BseBI CCWGG 1 cut(s) 237
BseDI CCNNGG 2 cut(s) 235, 482
BseGI GGATG 1 cut(s) 179
BseLI CCNNNNNNNGG 2 cut(s) 236, 683
BseMII CTCAG 3 cut(s) 587, 741, 902
BseNI ACTGG 4 cut(s) 230, 458, 584, 634
BseXI GCAGC 5 cut(s) 278, 604, 634, 697, 751
BsgI GTGCAG 1 cut(s) 750
BshFI GGCC 3 cut(s) 413, 655, 863
BsiHKAI GWGCWC 1 cut(s) 838
BsiHKCI CYCGRG 1 cut(s) 156
BsiSI CCGG 2 cut(s) 656, 750
BslFI GGGAC 3 cut(s) 60, 218, 369
BslI CCNNNNNNNGG 2 cut(s) 236, 683
BsmAI GTCTC 2 cut(s) 350, 576
BsmBI CGTCTC 1 cut(s) 576
BsmFI GGGAC 3 cut(s) 60, 218, 369
BsmI GAATGC 1 cut(s) 13
BsnI GGCC 3 cut(s) 413, 655, 863
BsoBI CYCGRG 1 cut(s) 156
Bsp1286I GDGCHC 1 cut(s) 838
Bsp13I TCCGGA 1 cut(s) 749
Bsp143I GATC 4 cut(s) 160, 249, 304, 718
BspACI CCGC 2 cut(s) 371, 808
BspANI GGCC 3 cut(s) 413, 655, 863
BspCNI CTCAG 3 cut(s) 586, 740, 901
BspEI TCCGGA 1 cut(s) 749
BspHI TCATGA 1 cut(s) 85
BspLI GGNNCC 1 cut(s) 412
BspPI GGATC 1 cut(s) 168
BsrFI RCCGGY 1 cut(s) 655
BsrI ACTGG 4 cut(s) 230, 458, 584, 634
BssAI RCCGGY 1 cut(s) 655
BssECI CCNNGG 2 cut(s) 235, 482
BssMI GATC 4 cut(s) 160, 249, 304, 718
BssNI GRCGYC 1 cut(s) 211
BssSI CACGAG 1 cut(s) 837
Bst2BI CACGAG 1 cut(s) 837
Bst2UI CCWGG 1 cut(s) 237
Bst4CI ACNGT 2 cut(s) 30, 133
Bst6I CTCTTC 2 cut(s) 42, 475
BstACI GRCGYC 1 cut(s) 211
BstBAI YACGTR 1 cut(s) 302
BstC8I GCNNGC 1 cut(s) 369
BstDEI CTNAG 5 cut(s) 71, 573, 727, 888, 897
BstF5I GGATG 1 cut(s) 179
BstH2I RGCGCY 1 cut(s) 230
BstHHI GCGC 1 cut(s) 229
BstKTI GATC 4 cut(s) 163, 252, 307, 721
BstMAI GTCTC 2 cut(s) 350, 576
BstMBI GATC 4 cut(s) 160, 249, 304, 718
BstMWI GCNNNNNNNGC 4 cut(s) 263, 764, 833, 893
BstNI CCWGG 1 cut(s) 237
BstNSI RCATGY 1 cut(s) 371
BstSCI CCNGG 1 cut(s) 235
BstV1I GCAGC 5 cut(s) 278, 604, 634, 697, 751
BstV2I GAAGAC 1 cut(s) 862
BstX2I RGATCY 1 cut(s) 249
BstXI CCANNNNNNTGG 1 cut(s) 871
BstYI RGATCY 1 cut(s) 249
BsuRI GGCC 3 cut(s) 413, 655, 863
BtsCI GGATG 1 cut(s) 179
BtsIMutI CAGTG 1 cut(s) 591
Cac8I GCNNGC 1 cut(s) 369
CciI TCATGA 1 cut(s) 85
CfoI GCGC 1 cut(s) 229
Cfr10I RCCGGY 1 cut(s) 655
Cfr13I GGNCC 1 cut(s) 411
CseI GACGC 3 cut(s) 200, 558, 747
CviAII CATG 5 cut(s) 86, 258, 368, 389, 878
DdeI CTNAG 5 cut(s) 71, 573, 727, 888, 897
DpnI GATC 4 cut(s) 162, 251, 306, 720
DpnII GATC 4 cut(s) 160, 249, 304, 718
DraI TTTAAA 2 cut(s) 562, 613
Eam1104I CTCTTC 2 cut(s) 42, 475
EarI CTCTTC 2 cut(s) 42, 475
Ecl136II GAGCTC 1 cut(s) 836
Eco24I GRGCYC 1 cut(s) 838
Eco53kI GAGCTC 1 cut(s) 836
Eco88I CYCGRG 1 cut(s) 156
EcoICRI GAGCTC 1 cut(s) 836
EcoRII CCWGG 1 cut(s) 235
EcoT38I GRGCYC 1 cut(s) 838
Esp3I CGTCTC 1 cut(s) 576
FaeI CATG 5 cut(s) 89, 261, 371, 392, 881
FaiI YATR 9 cut(s) 87, 150, 259, 369, 390, 427, 879, 931, 956
FaqI GGGAC 3 cut(s) 60, 218, 369
FatI CATG 5 cut(s) 85, 257, 367, 388, 877
FauI CCCGC 1 cut(s) 801
FbaI TGATCA 1 cut(s) 718
Fnu4HI GCNGC 5 cut(s) 267, 618, 648, 711, 765
FokI GGATG 1 cut(s) 166
FriOI GRGCYC 1 cut(s) 838
Fsp4HI GCNGC 5 cut(s) 267, 618, 648, 711, 765
FspBI CTAG 3 cut(s) 396, 651, 770
GlaI GCGC 1 cut(s) 228
GluI GCNGC 5 cut(s) 267, 618, 648, 711, 765
HaeII RGCGCY 1 cut(s) 230
HaeIII GGCC 3 cut(s) 413, 655, 863
HapII CCGG 2 cut(s) 656, 750
HgaI GACGC 3 cut(s) 200, 558, 747
HhaI GCGC 1 cut(s) 229
Hin1I GRCGYC 1 cut(s) 211
Hin1II CATG 5 cut(s) 89, 261, 371, 392, 881
Hin6I GCGC 1 cut(s) 227
HinP1I GCGC 1 cut(s) 227
HinfI GANTC 6 cut(s) 166, 176, 358, 478, 589, 977
HpaII CCGG 2 cut(s) 656, 750
HphI GGTGA 2 cut(s) 122, 566
Hpy166II GTNNAC 2 cut(s) 129, 669
Hpy188I TCNGA 8 cut(s) 25, 51, 165, 291, 576, 730, 781, 967
Hpy188III TCNNGA 6 cut(s) 86, 158, 170, 377, 750, 890
Hpy8I GTNNAC 2 cut(s) 129, 669
Hpy99I CGWCG 1 cut(s) 478
HpyCH4III ACNGT 2 cut(s) 30, 133
HpyCH4IV ACGT 1 cut(s) 301
HpyCH4V TGCA 5 cut(s) 203, 257, 367, 449, 767
HpyF10VI GCNNNNNNNGC 4 cut(s) 263, 764, 833, 893
HpyF3I CTNAG 5 cut(s) 71, 573, 727, 888, 897
HpySE526I ACGT 1 cut(s) 301
Hsp92I GRCGYC 1 cut(s) 211
Hsp92II CATG 5 cut(s) 89, 261, 371, 392, 881
HspAI GCGC 1 cut(s) 227
Kpn2I TCCGGA 1 cut(s) 749
Ksp22I TGATCA 1 cut(s) 718
Kzo9I GATC 4 cut(s) 160, 249, 304, 718
LmnI GCTCC 1 cut(s) 833
Lsp1109I GCAGC 5 cut(s) 278, 604, 634, 697, 751
LweI GCATC 1 cut(s) 697
MaeI CTAG 3 cut(s) 396, 651, 770
MaeII ACGT 1 cut(s) 301
MaeIII GTNAC 1 cut(s) 586
MalI GATC 4 cut(s) 162, 251, 306, 720
MboI GATC 4 cut(s) 160, 249, 304, 718
MflI RGATCY 1 cut(s) 249
MhlI GDGCHC 1 cut(s) 838
MluCI AATT 2 cut(s) 608, 991
MlyI GAGTC 3 cut(s) 352, 487, 583
MmeI TCCRAC 4 cut(s) 582, 759, 777, 832
MroI TCCGGA 1 cut(s) 749
MroXI GAANNNNTTC 1 cut(s) 30
MseI TTAA 6 cut(s) 135, 561, 612, 660, 693, 959
MspI CCGG 2 cut(s) 656, 750
MspR9I CCNGG 1 cut(s) 237
Mva1269I GAATGC 1 cut(s) 13
MvaI CCWGG 1 cut(s) 237
MwoI GCNNNNNNNGC 4 cut(s) 263, 764, 833, 893
NdeII GATC 4 cut(s) 160, 249, 304, 718
NlaIII CATG 5 cut(s) 89, 261, 371, 392, 881
NlaIV GGNNCC 1 cut(s) 412
NmuCI GTSAC 1 cut(s) 586
NspI RCATGY 1 cut(s) 371
PaeI GCATGC 1 cut(s) 371
PagI TCATGA 1 cut(s) 85
PctI GAATGC 1 cut(s) 13
PdmI GAANNNNTTC 1 cut(s) 30
PfeI GAWTC 3 cut(s) 166, 176, 977
PkrI GCNGC 5 cut(s) 268, 619, 649, 712, 766
PleI GAGTC 3 cut(s) 352, 486, 583
PpsI GAGTC 3 cut(s) 352, 486, 583
Ppu21I YACGTR 1 cut(s) 302
PshBI ATTAAT 1 cut(s) 959
Psp124BI GAGCTC 1 cut(s) 838
Psp6I CCWGG 1 cut(s) 235
PspGI CCWGG 1 cut(s) 235
PspN4I GGNNCC 1 cut(s) 412
PspPI GGNCC 1 cut(s) 411
PsuI RGATCY 1 cut(s) 249
SacI GAGCTC 1 cut(s) 838
SaqAI TTAA 6 cut(s) 135, 561, 612, 660, 693, 959
SatI GCNGC 5 cut(s) 267, 618, 648, 711, 765
Sau3AI GATC 4 cut(s) 160, 249, 304, 718
Sau96I GGNCC 1 cut(s) 411
SchI GAGTC 3 cut(s) 352, 487, 583
ScrFI CCNGG 1 cut(s) 237
SduI GDGCHC 1 cut(s) 838
SfaNI GCATC 1 cut(s) 697
SmlI CTYRAG 2 cut(s) 821, 845
SmoI CTYRAG 2 cut(s) 821, 845
SpeI ACTAGT 1 cut(s) 395
SphI GCATGC 1 cut(s) 371
Sse9I AATT 2 cut(s) 608, 991
SsiI CCGC 2 cut(s) 371, 808
SspMI CTAG 3 cut(s) 396, 651, 770
SstI GAGCTC 1 cut(s) 838
StyD4I CCNGG 1 cut(s) 235
TaaI ACNGT 2 cut(s) 30, 133
TaiI ACGT 1 cut(s) 304
TaqI TCGA 2 cut(s) 376, 476
TaqII GACCGA 1 cut(s) 474
TasI AATT 2 cut(s) 608, 991
TfiI GAWTC 3 cut(s) 166, 176, 977
Tru1I TTAA 6 cut(s) 135, 561, 612, 660, 693, 959
Tru9I TTAA 6 cut(s) 135, 561, 612, 660, 693, 959
TscAI CASTG 1 cut(s) 591
TseFI GTSAC 1 cut(s) 586
TseI GCWGC 5 cut(s) 266, 617, 647, 710, 764
Tsp45I GTSAC 1 cut(s) 586
TspDTI ATGAA 2 cut(s) 168, 360
TspGWI ACGGA 1 cut(s) 930
TspRI CASTG 1 cut(s) 591
VspI ATTAAT 1 cut(s) 959
XapI RAATTY 1 cut(s) 608
XceI RCATGY 1 cut(s) 371
XmnI GAANNNNTTC 1 cut(s) 30
XspI CTAG 3 cut(s) 396, 651, 770
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.