Rw2G020080

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000591
Physical Location & Seq
Reverse (-)
27212020 .. 27213261
1242 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G020080.1

Sequence Viewer

Length: 1026 bp
ATGGGAGAAGACCTAAGTTCCTACCGGGCAGCAAGTGCTACGGTGGTGACCCATTTGTTTCTTTCTCCAGGTGTGTGGAATTTACCGCTTTTATCCACCTTATTCCCACCACACATCGTGCACAAAATTCAAGCGTTGCCTTTGAATCCCCATAACCACGTGGATAGATGGATTTGGGGAGGTGATAAGAAGGGCAGGTTTACTGTGAAATCTGCGTATCATATTGCTAGGAGTAGAATTCTGGAGGATGTTTCTCCTACTCCTAATCCTAGTGCCATTCTCTGGAAGCAACTTTGGCAAGCACAAGTCCCAGGGAATGTGAAGGTGTGTGTATGGAAGGCAGCTTCCAATATTCTTCCTACACGAAGTCGGCTTAGCGAAAGAGGTATTGATATTGATACCCAATGCCCTTTTTGTGATGAAGAAGTGGAATCTCCTATCCATGCCCTTCGGGATTGTCCTCATGCAGTAAGTATTCTTCAAGTGGCTGATATCCCCACTCTTACTAATGCATCATGTGTGGCGGATTGGTTGATTGCTATATATACTTTCGCTCCTGCGGCCTTTTCCACTTTGTTAATGTTGATTTGGGCTACTTGGAGGCACATGAATTCACGGATTTGGGATAAGGAATGTAAATCCGCTAATGAAATTGTGCCTTTGACTTTGGGATGGTGGAATGACTATAAGGCCACCCACTCTCCTCCTATTTGTGCTAATGGTCCACGGGTCCTACATAAGTGGAGTAAACCTTCATCTGACTGCATGGATTTAGTACAGGTTGTTCGTGGGTCTTCCCTGGACCATTCAGACCTGGGATTCCTGCTAACTGACCTAAGAACCATACTGTCGGTTGCTCTAGGAGAAAGAGTAAGCTACGGTAATCGTAAGGCTAATTTAGTGGCGCATACTCTAGCGCAAGAGGCCAAAGTTGGTCAGTTTAGGGTGAATTTCTTTACCGATAGTCCTCCAAGTATGAAGGCTTTTGTAATCTCTGATTGTAATGATTCCCCATCAATGAATTAG
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

341

Amino Acids

38.01

Weight (kDa)

8.07

Isoelectric Point (pI)

48.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 67 - 157 5.9e-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)
Acc36I ACCTGC 1 cut(s) 186
AccB7I CCANNNNNTGG 1 cut(s) 282
AciI CCGC 4 cut(s) 86, 524, 560, 642
AcsI RAATTY 5 cut(s) 79, 126, 237, 610, 949
AcvI CACGTG 1 cut(s) 160
AdeI CACNNNGTG 1 cut(s) 118
AfaI GTAC 1 cut(s) 777
AfiI CCNNNNNNNGG 1 cut(s) 282
AgsI TTSAA 3 cut(s) 131, 145, 482
AjnI CCWGG 4 cut(s) 67, 310, 798, 813
AluBI AGCT 2 cut(s) 344, 876
AluI AGCT 2 cut(s) 344, 876
Alw21I GWGCWC 1 cut(s) 123
Alw44I GTGCAC 1 cut(s) 119
AoxI GGCC 3 cut(s) 561, 690, 924
ApaLI GTGCAC 1 cut(s) 119
ApeKI GCWGC 2 cut(s) 29, 341
ApoI RAATTY 5 cut(s) 79, 126, 237, 610, 949
AspLEI GCGC 2 cut(s) 907, 919
AspS9I GGNCC 3 cut(s) 722, 730, 802
AsuC2I CCSGG 1 cut(s) 26
AsuHPI GGTGA 3 cut(s) 58, 194, 958
AvaII GGWCC 3 cut(s) 722, 730, 802
BaeGI GKGCMC 1 cut(s) 123
BarI GAAGNNNNNNTAC 2 cut(s) 462, 494
BbrPI CACGTG 1 cut(s) 160
BbsI GAAGAC 2 cut(s) 15, 786
Bbv12I GWGCWC 1 cut(s) 123
BbvI GCAGC 2 cut(s) 41, 353
BccI CCATC 3 cut(s) 162, 666, 1021
BciT130I CCWGG 4 cut(s) 69, 312, 800, 815
BcnI CCSGG 1 cut(s) 26
BfaI CTAG 4 cut(s) 228, 270, 860, 914
BfuAI ACCTGC 1 cut(s) 186
BisI GCNGC 3 cut(s) 30, 342, 561
BlpI GCTNAGC 1 cut(s) 374
BlsI GCNGC 3 cut(s) 31, 343, 562
Bme1390I CCNGG 5 cut(s) 26, 69, 312, 800, 815
Bme18I GGWCC 3 cut(s) 722, 730, 802
BmgT120I GGNCC 3 cut(s) 722, 730, 802
BmiI GGNNCC 1 cut(s) 731
BmrFI CCNGG 5 cut(s) 26, 69, 312, 800, 815
BmsI GCATC 1 cut(s) 521
BpiI GAAGAC 2 cut(s) 15, 786
BpmI CTGGAG 2 cut(s) 51, 263
Bpu1102I GCTNAGC 1 cut(s) 374
BpuMI CCSGG 1 cut(s) 26
BsaAI YACGTR 1 cut(s) 160
BsaJI CCNNGG 5 cut(s) 310, 311, 725, 798, 814
BsaXI ACNNNNNCTCC 6 cut(s) 538, 568, 685, 715, 855, 885
Bsc4I CCNNNNNNNGG 1 cut(s) 282
BseBI CCWGG 4 cut(s) 69, 312, 800, 815
BseDI CCNNGG 5 cut(s) 310, 311, 725, 798, 814
BseGI GGATG 2 cut(s) 253, 677
BseLI CCNNNNNNNGG 1 cut(s) 282
BseRI GAGGAG 1 cut(s) 693
BseSI GKGCMC 1 cut(s) 123
BseXI GCAGC 2 cut(s) 41, 353
BshFI GGCC 3 cut(s) 563, 692, 926
BsiHKAI GWGCWC 1 cut(s) 123
BsiSI CCGG 1 cut(s) 25
BslFI GGGAC 1 cut(s) 293
BslI CCNNNNNNNGG 1 cut(s) 282
BsmFI GGGAC 1 cut(s) 293
BsnI GGCC 3 cut(s) 563, 692, 926
Bsp1286I GDGCHC 1 cut(s) 123
Bsp1720I GCTNAGC 1 cut(s) 374
BspACI CCGC 4 cut(s) 86, 524, 560, 642
BspANI GGCC 3 cut(s) 563, 692, 926
BspLI GGNNCC 1 cut(s) 731
BspMI ACCTGC 1 cut(s) 186
BssECI CCNNGG 5 cut(s) 310, 311, 725, 798, 814
Bst2UI CCWGG 4 cut(s) 69, 312, 800, 815
Bst4CI ACNGT 4 cut(s) 43, 205, 849, 881
BstAPI GCANNNNNTGC 1 cut(s) 35
BstBAI YACGTR 1 cut(s) 160
BstC8I GCNNGC 1 cut(s) 300
BstDEI CTNAG 3 cut(s) 14, 374, 836
BstDSI CCRYGG 1 cut(s) 725
BstEII GGTNACC 1 cut(s) 46
BstF5I GGATG 2 cut(s) 253, 677
BstHHI GCGC 2 cut(s) 907, 919
BstMWI GCNNNNNNNGC 4 cut(s) 35, 295, 560, 923
BstNI CCWGG 4 cut(s) 69, 312, 800, 815
BstPI GGTNACC 1 cut(s) 46
BstSCI CCNGG 5 cut(s) 24, 67, 310, 798, 813
BstSLI GKGCMC 1 cut(s) 123
BstV1I GCAGC 2 cut(s) 41, 353
BstV2I GAAGAC 2 cut(s) 15, 786
BstXI CCANNNNNNTGG 1 cut(s) 75
BsuRI GGCC 3 cut(s) 563, 692, 926
BtgI CCRYGG 1 cut(s) 725
BtsCI GGATG 2 cut(s) 253, 677
BveI ACCTGC 1 cut(s) 186
Cac8I GCNNGC 1 cut(s) 300
CfoI GCGC 2 cut(s) 907, 919
Cfr13I GGNCC 3 cut(s) 722, 730, 802
Csp6I GTAC 1 cut(s) 776
CviAII CATG 5 cut(s) 443, 464, 516, 607, 766
CviQI GTAC 1 cut(s) 776
DdeI CTNAG 3 cut(s) 14, 374, 836
DraIII CACNNNGTG 1 cut(s) 118
EciI GGCGGA 1 cut(s) 539
Eco32I GATATC 1 cut(s) 493
Eco47I GGWCC 3 cut(s) 722, 730, 802
Eco72I CACGTG 1 cut(s) 160
Eco91I GGTNACC 1 cut(s) 46
EcoO109I RGGNCCY 1 cut(s) 730
EcoO65I GGTNACC 1 cut(s) 46
EcoRI GAATTC 2 cut(s) 237, 610
EcoRII CCWGG 4 cut(s) 67, 310, 798, 813
EcoRV GATATC 1 cut(s) 493
EcoT22I ATGCAT 1 cut(s) 514
FaeI CATG 5 cut(s) 446, 467, 519, 610, 769
FaqI GGGAC 1 cut(s) 293
FatI CATG 5 cut(s) 442, 463, 515, 606, 765
Fnu4HI GCNGC 3 cut(s) 30, 342, 561
FokI GGATG 2 cut(s) 260, 684
Fsp4HI GCNGC 3 cut(s) 30, 342, 561
FspBI CTAG 4 cut(s) 228, 270, 860, 914
GlaI GCGC 2 cut(s) 906, 918
GluI GCNGC 3 cut(s) 30, 342, 561
GsuI CTGGAG 2 cut(s) 51, 263
HaeIII GGCC 3 cut(s) 563, 692, 926
HapII CCGG 1 cut(s) 25
HhaI GCGC 2 cut(s) 907, 919
Hin1II CATG 5 cut(s) 446, 467, 519, 610, 769
Hin6I GCGC 2 cut(s) 905, 917
HinP1I GCGC 2 cut(s) 905, 917
HinfI GANTC 4 cut(s) 145, 431, 819, 1007
HpaII CCGG 1 cut(s) 25
HphI GGTGA 3 cut(s) 58, 194, 958
Hpy166II GTNNAC 4 cut(s) 121, 201, 725, 749
Hpy188I TCNGA 3 cut(s) 760, 811, 997
Hpy188III TCNNGA 3 cut(s) 242, 283, 452
Hpy8I GTNNAC 4 cut(s) 121, 201, 725, 749
HpyAV CCTTC 6 cut(s) 184, 316, 331, 458, 762, 973
HpyCH4III ACNGT 4 cut(s) 43, 205, 849, 881
HpyCH4IV ACGT 1 cut(s) 159
HpyCH4V TGCA 4 cut(s) 121, 467, 512, 765
HpyF10VI GCNNNNNNNGC 4 cut(s) 35, 295, 560, 923
HpyF3I CTNAG 3 cut(s) 14, 374, 836
HpySE526I ACGT 1 cut(s) 159
Hsp92II CATG 5 cut(s) 446, 467, 519, 610, 769
HspAI GCGC 2 cut(s) 905, 917
LmnI GCTCC 1 cut(s) 559
Lsp1109I GCAGC 2 cut(s) 41, 353
LweI GCATC 1 cut(s) 521
MaeI CTAG 4 cut(s) 228, 270, 860, 914
MaeII ACGT 1 cut(s) 159
MaeIII GTNAC 1 cut(s) 46
MboII GAAGA 5 cut(s) 20, 347, 434, 470, 786
MhlI GDGCHC 1 cut(s) 123
MluCI AATT 8 cut(s) 79, 126, 237, 610, 651, 895, 949, 1021
MnlI CCTC 8 cut(s) 173, 238, 377, 471, 594, 714, 916, 978
Mph1103I ATGCAT 1 cut(s) 514
MseI TTAA 1 cut(s) 578
MspI CCGG 1 cut(s) 25
MspR9I CCNGG 5 cut(s) 26, 69, 312, 800, 815
MvaI CCWGG 4 cut(s) 69, 312, 800, 815
MwoI GCNNNNNNNGC 4 cut(s) 35, 295, 560, 923
NciI CCSGG 1 cut(s) 26
NlaIII CATG 5 cut(s) 446, 467, 519, 610, 769
NlaIV GGNNCC 1 cut(s) 731
NmuCI GTSAC 1 cut(s) 46
NsiI ATGCAT 1 cut(s) 514
PasI CCCWGGG 1 cut(s) 311
PfeI GAWTC 4 cut(s) 145, 431, 819, 1007
PflMI CCANNNNNTGG 1 cut(s) 282
PkrI GCNGC 3 cut(s) 31, 343, 562
PmaCI CACGTG 1 cut(s) 160
PmlI CACGTG 1 cut(s) 160
Ppu21I YACGTR 1 cut(s) 160
PpuMI RGGWCCY 1 cut(s) 730
Psp5II RGGWCCY 1 cut(s) 730
Psp6I CCWGG 4 cut(s) 67, 310, 798, 813
PspCI CACGTG 1 cut(s) 160
PspEI GGTNACC 1 cut(s) 46
PspGI CCWGG 4 cut(s) 67, 310, 798, 813
PspN4I GGNNCC 1 cut(s) 731
PspPI GGNCC 3 cut(s) 722, 730, 802
PspPPI RGGWCCY 1 cut(s) 730
PsrI GAACNNNNNNTAC 2 cut(s) 768, 800
RsaI GTAC 1 cut(s) 777
RsaNI GTAC 1 cut(s) 776
SaqAI TTAA 1 cut(s) 578
SatI GCNGC 3 cut(s) 30, 342, 561
Sau96I GGNCC 3 cut(s) 722, 730, 802
ScrFI CCNGG 5 cut(s) 26, 69, 312, 800, 815
SduI GDGCHC 1 cut(s) 123
SfaNI GCATC 1 cut(s) 521
SinI GGWCC 3 cut(s) 722, 730, 802
Sse9I AATT 8 cut(s) 79, 126, 237, 610, 651, 895, 949, 1021
SsiI CCGC 4 cut(s) 86, 524, 560, 642
SspI AATATT 1 cut(s) 352
SspMI CTAG 4 cut(s) 228, 270, 860, 914
StyD4I CCNGG 5 cut(s) 24, 67, 310, 798, 813
TaaI ACNGT 4 cut(s) 43, 205, 849, 881
TaiI ACGT 1 cut(s) 162
TasI AATT 8 cut(s) 79, 126, 237, 610, 651, 895, 949, 1021
TatI WGTACW 1 cut(s) 775
TauI GCSGC 1 cut(s) 563
TfiI GAWTC 4 cut(s) 145, 431, 819, 1007
Tru1I TTAA 1 cut(s) 578
Tru9I TTAA 1 cut(s) 578
TseFI GTSAC 1 cut(s) 46
TseI GCWGC 2 cut(s) 29, 341
Tsp45I GTSAC 1 cut(s) 46
TspDTI ATGAA 5 cut(s) 435, 623, 663, 744, 992
TspGWI ACGGA 1 cut(s) 631
Van91I CCANNNNNTGG 1 cut(s) 282
VneI GTGCAC 1 cut(s) 119
VpaK11BI GGWCC 3 cut(s) 722, 730, 802
XapI RAATTY 5 cut(s) 79, 126, 237, 610, 949
XspI CTAG 4 cut(s) 228, 270, 860, 914
Zsp2I ATGCAT 1 cut(s) 514
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.