Rw2G024380

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000591
Physical Location & Seq
Forward (+)
36017001 .. 36018152
1152 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G024380.1

Sequence Viewer

Length: 927 bp
ATGTGGAATCAGACTTTACTTTCTGAATTGTTTCCTCCAGATATTGTGCAGAAGATTTTAGCTTTGCCTCTTAGAGTCCGGGTTCATGATGATCGCTGGATTTGGACTGGTGATAAGCGGGGTGCCTTTACTGTTAAATCAGCGTACCATTTGGCAAGGAGTAGAGTCTTGGACGAGGGTCCAGGATCTCCCAGTCCTAGTGCCATGCTTTGGAAACAACTTTGGAAGGCTCCTGTTCCTGGTAAAGTTAAGATATGTGTTTGGAGAGCGGCTTCAAATACTCTTCCCACACGTAGTAGGCTCAGTGAACGTGGTATTGATATCGATACCCAATGTCCTTTCTGTGATGAAGAAGTTGAATCCCCTCTTCATGCTCTTCGTGATTGCAGTCATGCAGCTTCGTTTCTTCAATTGGCTCAAATTCAATCTTCAGCTCCGGCCTCCAGTATTATTGAATGGTTAGCCTCCTTTTCCCAATCTTCCACTACTTTTGCTACATTGTTGATGATTATATGGGCTATATGGAGAAATCGAAATGCAAAAGTGTGGGATGGTGAGGTCAAAATGGCCTCAGAAGCTGTCCCAATTACTTTAGGTTGGTGGGAGGAATATAAGACCACTCATACTGGAGTTCGAGTGCCAAGACCGGTGAGGAACGAGTTGTGGAAGAAACCTCCTGTTGATTTGGTCAATGCCATTGAGTCTGCTAGCTTGGATTGGTCTGAGTTAGGTTTTCTGATGCATGATTTAAAGGAATTGCTGCGGGCTGCTTCTTTTGCCCAGGTTCGCTACGTCCACCGAAGTGCAAACAGGGTTGCCCATACTCTAGGTCAAGAAGCCAAGCTTCGCTCCTTCTCTTCGAATTTCTTTCATGTTTCTCCTCCAAGTGTGGAGGAAATTATAATTTCTGAATGTAATGACATTTGA
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

308

Amino Acids

34.86

Weight (kDa)

8.27

Isoelectric Point (pI)

61.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 43 - 133 2.3e-17 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)
AanI TTATAA 1 cut(s) 902
AccB1I GGYRCC 1 cut(s) 122
AccB7I CCANNNNNTGG 1 cut(s) 210
AccBSI CCGCTC 1 cut(s) 269
AciI CCGC 3 cut(s) 118, 269, 763
AclWI GGATC 1 cut(s) 193
AcsI RAATTY 2 cut(s) 420, 862
AcuI CTGAAG 1 cut(s) 414
AfaI GTAC 1 cut(s) 146
AfiI CCNNNNNNNGG 2 cut(s) 210, 239
AflIII ACRYGT 1 cut(s) 290
AgeI ACCGGT 1 cut(s) 646
AgsI TTSAA 5 cut(s) 276, 359, 410, 425, 455
AjnI CCWGG 3 cut(s) 181, 238, 780
AleI CACNNNNGTG 1 cut(s) 801
AluBI AGCT 6 cut(s) 62, 398, 434, 578, 711, 844
AluI AGCT 6 cut(s) 62, 398, 434, 578, 711, 844
AlwI GGATC 1 cut(s) 193
AlwNI CAGNNNCTG 1 cut(s) 578
AoxI GGCC 2 cut(s) 438, 567
ApeKI GCWGC 3 cut(s) 395, 760, 767
ApoI RAATTY 2 cut(s) 420, 862
AsiGI ACCGGT 1 cut(s) 646
Asp700I GAANNNNTTC 1 cut(s) 30
AspS9I GGNCC 1 cut(s) 179
AsuC2I CCSGG 1 cut(s) 80
AsuHPI GGTGA 3 cut(s) 122, 566, 661
AsuII TTCGAA 1 cut(s) 860
AsuNHI GCTAGC 1 cut(s) 707
AvaII GGWCC 1 cut(s) 179
BanI GGYRCC 1 cut(s) 122
BbvI GCAGC 3 cut(s) 407, 747, 754
BccI CCATC 1 cut(s) 545
BciT130I CCWGG 3 cut(s) 183, 240, 782
BcnI CCSGG 1 cut(s) 80
BfaI CTAG 3 cut(s) 198, 708, 827
BisI GCNGC 4 cut(s) 270, 396, 761, 768
BlsI GCNGC 4 cut(s) 271, 397, 762, 769
Bme1390I CCNGG 4 cut(s) 80, 183, 240, 782
Bme18I GGWCC 1 cut(s) 179
BmgT120I GGNCC 1 cut(s) 179
BmiI GGNNCC 3 cut(s) 124, 180, 231
BmrFI CCNGG 4 cut(s) 80, 183, 240, 782
BmrI ACTGGG 1 cut(s) 186
BmsI GCATC 1 cut(s) 729
BmtI GCTAGC 1 cut(s) 711
BmuI ACTGGG 1 cut(s) 186
BoxI GACNNNNGTC 1 cut(s) 177
BpmI CTGGAG 3 cut(s) 21, 427, 648
Bpu14I TTCGAA 1 cut(s) 860
BpuMI CCSGG 1 cut(s) 80
Bsa29I ATCGAT 1 cut(s) 324
BsaAI YACGTR 1 cut(s) 293
BsaJI CCNNGG 1 cut(s) 780
BsaWI WCCGGW 1 cut(s) 646
BsaXI ACNNNNNCTCC 2 cut(s) 621, 651
Bsc4I CCNNNNNNNGG 2 cut(s) 210, 239
Bse118I RCCGGY 1 cut(s) 646
Bse1I ACTGG 4 cut(s) 112, 192, 444, 631
BseBI CCWGG 3 cut(s) 183, 240, 782
BseCI ATCGAT 1 cut(s) 324
BseDI CCNNGG 1 cut(s) 780
BseGI GGATG 1 cut(s) 556
BseLI CCNNNNNNNGG 2 cut(s) 210, 239
BseMII CTCAG 3 cut(s) 316, 585, 714
BseNI ACTGG 4 cut(s) 112, 192, 444, 631
BseRI GAGGAG 1 cut(s) 870
BseXI GCAGC 3 cut(s) 407, 747, 754
BsgI GTGCAG 1 cut(s) 68
BshFI GGCC 2 cut(s) 440, 569
BshNI GGYRCC 1 cut(s) 122
BshTI ACCGGT 1 cut(s) 646
BshVI ATCGAT 1 cut(s) 324
BsiSI CCGG 3 cut(s) 79, 437, 647
BslFI GGGAC 1 cut(s) 566
BslI CCNNNNNNNGG 2 cut(s) 210, 239
BsmFI GGGAC 1 cut(s) 566
BsnI GGCC 2 cut(s) 440, 569
Bsp119I TTCGAA 1 cut(s) 860
Bsp143I GATC 2 cut(s) 91, 185
BspACI CCGC 3 cut(s) 118, 269, 763
BspANI GGCC 2 cut(s) 440, 569
BspCNI CTCAG 3 cut(s) 315, 584, 715
BspDI ATCGAT 1 cut(s) 324
BspHI TCATGA 1 cut(s) 85
BspLI GGNNCC 3 cut(s) 124, 180, 231
BspOI GCTAGC 1 cut(s) 711
BspPI GGATC 1 cut(s) 193
BspQI GCTCTTC 1 cut(s) 381
BspT104I TTCGAA 1 cut(s) 860
BspT107I GGYRCC 1 cut(s) 122
BsrBI CCGCTC 1 cut(s) 269
BsrFI RCCGGY 1 cut(s) 646
BsrI ACTGG 4 cut(s) 112, 192, 444, 631
BssAI RCCGGY 1 cut(s) 646
BssECI CCNNGG 1 cut(s) 780
BssMI GATC 2 cut(s) 91, 185
Bst2UI CCWGG 3 cut(s) 183, 240, 782
Bst4CI ACNGT 1 cut(s) 133
Bst6I CTCTTC 4 cut(s) 288, 372, 381, 862
BstBAI YACGTR 1 cut(s) 293
BstBI TTCGAA 1 cut(s) 860
BstC8I GCNNGC 2 cut(s) 709, 765
BstDEI CTNAG 4 cut(s) 71, 302, 571, 723
BstF5I GGATG 1 cut(s) 556
BstKTI GATC 2 cut(s) 94, 188
BstMBI GATC 2 cut(s) 91, 185
BstMWI GCNNNNNNNGC 2 cut(s) 575, 776
BstNI CCWGG 3 cut(s) 183, 240, 782
BstPAI GACNNNNGTC 1 cut(s) 177
BstSCI CCNGG 4 cut(s) 78, 181, 238, 780
BstV1I GCAGC 3 cut(s) 407, 747, 754
BstX2I RGATCY 1 cut(s) 185
BstYI RGATCY 1 cut(s) 185
Bsu15I ATCGAT 1 cut(s) 324
BsuRI GGCC 2 cut(s) 440, 569
BsuTUI ATCGAT 1 cut(s) 324
BtsCI GGATG 1 cut(s) 556
BtsIMutI CAGTG 1 cut(s) 310
Cac8I GCNNGC 2 cut(s) 709, 765
CaiI CAGNNNCTG 1 cut(s) 578
CciI TCATGA 1 cut(s) 85
Cfr10I RCCGGY 1 cut(s) 646
Cfr13I GGNCC 1 cut(s) 179
ClaI ATCGAT 1 cut(s) 324
Csp6I GTAC 1 cut(s) 145
CspAI ACCGGT 1 cut(s) 646
CspCI CAANNNNNGTGG 2 cut(s) 472, 507
CviAII CATG 6 cut(s) 86, 205, 371, 392, 743, 872
CviQI GTAC 1 cut(s) 145
DdeI CTNAG 4 cut(s) 71, 302, 571, 723
DpnI GATC 2 cut(s) 93, 187
DpnII GATC 2 cut(s) 91, 185
DraI TTTAAA 1 cut(s) 750
Eam1104I CTCTTC 4 cut(s) 288, 372, 381, 862
EarI CTCTTC 4 cut(s) 288, 372, 381, 862
Eco32I GATATC 1 cut(s) 322
Eco47I GGWCC 1 cut(s) 179
Eco57I CTGAAG 1 cut(s) 414
EcoRII CCWGG 3 cut(s) 181, 238, 780
EcoRV GATATC 1 cut(s) 322
EcoT22I ATGCAT 1 cut(s) 744
FaeI CATG 6 cut(s) 89, 208, 374, 395, 746, 875
FalI AAGNNNNNCTT 2 cut(s) 828, 860
FaqI GGGAC 1 cut(s) 566
FatI CATG 6 cut(s) 85, 204, 370, 391, 742, 871
FauI CCCGC 2 cut(s) 111, 756
Fnu4HI GCNGC 4 cut(s) 270, 396, 761, 768
FokI GGATG 1 cut(s) 563
Fsp4HI GCNGC 4 cut(s) 270, 396, 761, 768
FspBI CTAG 3 cut(s) 198, 708, 827
GluI GCNGC 4 cut(s) 270, 396, 761, 768
GsuI CTGGAG 3 cut(s) 21, 427, 648
HaeIII GGCC 2 cut(s) 440, 569
HapII CCGG 3 cut(s) 79, 437, 647
Hin1II CATG 6 cut(s) 89, 208, 374, 395, 746, 875
HindIII AAGCTT 1 cut(s) 842
HinfI GANTC 5 cut(s) 7, 75, 165, 359, 701
HpaII CCGG 3 cut(s) 79, 437, 647
HphI GGTGA 3 cut(s) 122, 566, 661
Hpy166II GTNNAC 2 cut(s) 308, 796
Hpy188I TCNGA 6 cut(s) 12, 25, 574, 724, 738, 910
Hpy188III TCNNGA 4 cut(s) 38, 86, 380, 833
Hpy8I GTNNAC 2 cut(s) 308, 796
HpyAV CCTTC 2 cut(s) 220, 862
HpyCH4III ACNGT 1 cut(s) 133
HpyCH4IV ACGT 3 cut(s) 292, 310, 792
HpyCH4V TGCA 6 cut(s) 49, 387, 395, 539, 742, 806
HpyF10VI GCNNNNNNNGC 2 cut(s) 575, 776
HpyF3I CTNAG 4 cut(s) 71, 302, 571, 723
HpySE526I ACGT 3 cut(s) 292, 310, 792
Hsp92II CATG 6 cut(s) 89, 208, 374, 395, 746, 875
Kzo9I GATC 2 cut(s) 91, 185
LguI GCTCTTC 1 cut(s) 381
LmnI GCTCC 3 cut(s) 235, 439, 854
Lsp1109I GCAGC 3 cut(s) 407, 747, 754
LweI GCATC 1 cut(s) 729
MaeI CTAG 3 cut(s) 198, 708, 827
MaeII ACGT 3 cut(s) 292, 310, 792
MalI GATC 2 cut(s) 93, 187
MbiI CCGCTC 1 cut(s) 269
MboI GATC 2 cut(s) 91, 185
MfeI CAATTG 1 cut(s) 410
MflI RGATCY 1 cut(s) 185
MluCI AATT 8 cut(s) 26, 410, 420, 585, 755, 862, 897, 903
MlyI GAGTC 3 cut(s) 84, 174, 710
Mph1103I ATGCAT 1 cut(s) 744
MroXI GAANNNNTTC 1 cut(s) 30
MseI TTAA 3 cut(s) 135, 249, 749
MslI CAYNNNNRTG 1 cut(s) 801
MspI CCGG 3 cut(s) 79, 437, 647
MspR9I CCNGG 4 cut(s) 80, 183, 240, 782
MunI CAATTG 1 cut(s) 410
MvaI CCWGG 3 cut(s) 183, 240, 782
MwoI GCNNNNNNNGC 2 cut(s) 575, 776
NciI CCSGG 1 cut(s) 80
NdeII GATC 2 cut(s) 91, 185
NheI GCTAGC 1 cut(s) 707
NlaIII CATG 6 cut(s) 89, 208, 374, 395, 746, 875
NlaIV GGNNCC 3 cut(s) 124, 180, 231
NsiI ATGCAT 1 cut(s) 744
NspV TTCGAA 1 cut(s) 860
OliI CACNNNNGTG 1 cut(s) 801
PagI TCATGA 1 cut(s) 85
PciSI GCTCTTC 1 cut(s) 381
PdmI GAANNNNTTC 1 cut(s) 30
PfeI GAWTC 2 cut(s) 7, 359
PflMI CCANNNNNTGG 1 cut(s) 210
PfoI TCCNGGA 1 cut(s) 181
PinAI ACCGGT 1 cut(s) 646
PkrI GCNGC 4 cut(s) 271, 397, 762, 769
PleI GAGTC 3 cut(s) 83, 173, 709
PpsI GAGTC 3 cut(s) 83, 173, 709
Ppu21I YACGTR 1 cut(s) 293
PshAI GACNNNNGTC 1 cut(s) 177
PsiI TTATAA 1 cut(s) 902
Psp6I CCWGG 3 cut(s) 181, 238, 780
PspGI CCWGG 3 cut(s) 181, 238, 780
PspN4I GGNNCC 3 cut(s) 124, 180, 231
PspPI GGNCC 1 cut(s) 179
PstNI CAGNNNCTG 1 cut(s) 578
PsuI RGATCY 1 cut(s) 185
RsaI GTAC 1 cut(s) 146
RsaNI GTAC 1 cut(s) 145
RseI CAYNNNNRTG 1 cut(s) 801
SapI GCTCTTC 1 cut(s) 381
SaqAI TTAA 3 cut(s) 135, 249, 749
SatI GCNGC 4 cut(s) 270, 396, 761, 768
Sau3AI GATC 2 cut(s) 91, 185
Sau96I GGNCC 1 cut(s) 179
SchI GAGTC 3 cut(s) 84, 174, 710
ScrFI CCNGG 4 cut(s) 80, 183, 240, 782
SfaNI GCATC 1 cut(s) 729
SfuI TTCGAA 1 cut(s) 860
SinI GGWCC 1 cut(s) 179
SmiMI CAYNNNNRTG 1 cut(s) 801
Sse9I AATT 8 cut(s) 26, 410, 420, 585, 755, 862, 897, 903
SsiI CCGC 3 cut(s) 118, 269, 763
SspMI CTAG 3 cut(s) 198, 708, 827
StyD4I CCNGG 4 cut(s) 78, 181, 238, 780
TaaI ACNGT 1 cut(s) 133
TaiI ACGT 3 cut(s) 295, 313, 795
TaqI TCGA 4 cut(s) 324, 532, 634, 860
TasI AATT 8 cut(s) 26, 410, 420, 585, 755, 862, 897, 903
TauI GCSGC 1 cut(s) 272
TfiI GAWTC 2 cut(s) 7, 359
Tru1I TTAA 3 cut(s) 135, 249, 749
Tru9I TTAA 3 cut(s) 135, 249, 749
TscAI CASTG 1 cut(s) 310
TseI GCWGC 3 cut(s) 395, 760, 767
TspDTI ATGAA 4 cut(s) 74, 359, 363, 860
TspRI CASTG 1 cut(s) 310
Van91I CCANNNNNTGG 1 cut(s) 210
VpaK11BI GGWCC 1 cut(s) 179
XapI RAATTY 2 cut(s) 420, 862
XmnI GAANNNNTTC 1 cut(s) 30
XspI CTAG 3 cut(s) 198, 708, 827
Zsp2I ATGCAT 1 cut(s) 744
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.