Rmu_sc0000540.1_g000056

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000540.1
OG0000591
Physical Location & Seq
Reverse (-)
242201 .. 243433
1233 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000540.1_g000056.1.cds

Sequence Viewer

Length: 1164 bp
atggatgaggatttgagtggctattactcggacagagtaactcttgtggccgatcttttcttgtttccaggagtgtggaactctacactattatccgaattatttcctgctaatattgtgcagaagattctttctattccccttagtcctcggaatcatgctgataggtggatttggggtggtgataagagaggtcaattcacggttaaatcagcctaccatgtagctcggagtcggattctcactgatgatccttccccactgaaccctagtgcttctctttggcgtcgtctgtggaatgctccaattccaggtagcatcaagatttgtgcatggaaagcagcctctaatgttcttcctactcggagtaggcttaatgaatgtggtattgatttggatacccaatgtccactctgtgatgaagaagtcgagactcctattcatgcagttcgtgattgttcctatgcgactggcttgattcaaggggccaacctccctttagtttcgaaccccacaaatgttgcagactggctttcgtctgtccctctgacaaatttggcttctaccctaatgatcctctgggcaacttggagaaataggaattcaaaagtttgggagggcgattttaagcaggtttcacaacttatcccaatgactttaggttggctagaaaagtataaagcagctcacattactcccaagtcaggtttggctgctaggacgcctccaaagtggaagaaaccccctgttggttttatcaaattgaatgctgacgcagcctttgatcaaactttcgcatcgggcggcgttaggtggagtattcagagatcatattggggcctttcttcatgggtgttggctgttgataatcatcttacacctttgctagtggagactgattgcttggatttggtatctgcactatcctcttcttctttggatttttcggaactgggttttctgttggcagacttgcgggttctattgcacgaagcacaggaggcccgtgtcctcaaggttggaagacaggctaatggtgtggctcacatcttggctcaagaggctaagcatgctgattgtcagatagatttcttttcttgtattcctccgtctgtggaggctagtctaatctgttattgtaatgattttccatcaatgaattag
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

387

Amino Acids

42.91

Weight (kDa)

6.25

Isoelectric Point (pI)

40.76

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 622
AciI CCGC 2 cut(s) 804, 976
AclWI GGATC 2 cut(s) 245, 568
AcoI YGGCCR 1 cut(s) 48
AcsI RAATTY 2 cut(s) 553, 601
AcyI GRCGYC 2 cut(s) 286, 722
AdeI CACNNNGTG 1 cut(s) 416
AfiI CCNNNNNNNGG 3 cut(s) 311, 704, 749
AgsI TTSAA 3 cut(s) 482, 606, 766
AjnI CCWGG 2 cut(s) 67, 310
AluBI AGCT 2 cut(s) 227, 686
AluI AGCT 2 cut(s) 227, 686
Alw26I GTCTC 2 cut(s) 425, 887
AlwI GGATC 2 cut(s) 245, 568
AoxI GGCC 4 cut(s) 48, 486, 838, 1002
ApeKI GCWGC 4 cut(s) 341, 683, 713, 776
ApoI RAATTY 2 cut(s) 553, 601
ArsI GACNNNNNNTTYG 2 cut(s) 764, 796
Asp700I GAANNNNTTC 1 cut(s) 102
AspS9I GGNCC 3 cut(s) 486, 838, 1003
AsuHPI GGTGA 1 cut(s) 194
AsuII TTCGAA 1 cut(s) 506
BbsI GAAGAC 1 cut(s) 1030
BbvI GCAGC 4 cut(s) 353, 695, 700, 788
BccI CCATC 1 cut(s) 1159
BciT130I CCWGG 2 cut(s) 69, 312
BciVI GTATCC 1 cut(s) 391
BclI TGATCA 1 cut(s) 784
BcoDI GTCTC 2 cut(s) 425, 887
BfaI CTAG 5 cut(s) 270, 668, 717, 887, 1122
BfuAI ACCTGC 1 cut(s) 622
BfuI GTATCC 1 cut(s) 391
BisI GCNGC 5 cut(s) 342, 684, 714, 777, 805
BlpI GCTNAGC 1 cut(s) 1065
BlsI GCNGC 5 cut(s) 343, 685, 715, 778, 806
Bme1390I CCNGG 2 cut(s) 69, 312
BmgT120I GGNCC 3 cut(s) 486, 838, 1003
BmiI GGNNCC 2 cut(s) 487, 839
BmrFI CCNGG 2 cut(s) 69, 312
BmrI ACTGGG 1 cut(s) 962
BmsI GCATC 2 cut(s) 327, 806
BmuI ACTGGG 1 cut(s) 962
BpiI GAAGAC 1 cut(s) 1030
Bpu1102I GCTNAGC 1 cut(s) 1065
Bpu14I TTCGAA 1 cut(s) 506
BpuEI CTTGAG 2 cut(s) 998, 1041
BsaBI GATNNNNATC 1 cut(s) 870
BsaHI GRCGYC 2 cut(s) 286, 722
BsaJI CCNNGG 1 cut(s) 149
Bsc4I CCNNNNNNNGG 3 cut(s) 311, 704, 749
Bse1I ACTGG 3 cut(s) 475, 533, 957
Bse8I GATNNNNATC 1 cut(s) 870
BseBI CCWGG 2 cut(s) 69, 312
BseDI CCNNGG 1 cut(s) 149
BseGI GGATG 1 cut(s) 10
BseJI GATNNNNATC 1 cut(s) 870
BseLI CCNNNNNNNGG 3 cut(s) 311, 704, 749
BseNI ACTGG 3 cut(s) 475, 533, 957
BseXI GCAGC 4 cut(s) 353, 695, 700, 788
BsgI GTGCAG 2 cut(s) 140, 903
BshFI GGCC 4 cut(s) 50, 488, 840, 1004
BslFI GGGAC 1 cut(s) 527
BslI CCNNNNNNNGG 3 cut(s) 311, 704, 749
BsmAI GTCTC 2 cut(s) 425, 887
BsmFI GGGAC 1 cut(s) 527
BsmI GAATGC 2 cut(s) 304, 772
BsnI GGCC 4 cut(s) 50, 488, 840, 1004
Bsp119I TTCGAA 1 cut(s) 506
Bsp143I GATC 5 cut(s) 52, 250, 573, 784, 827
Bsp1720I GCTNAGC 1 cut(s) 1065
BspACI CCGC 2 cut(s) 804, 976
BspANI GGCC 4 cut(s) 50, 488, 840, 1004
BspLI GGNNCC 2 cut(s) 487, 839
BspMI ACCTGC 1 cut(s) 622
BspPI GGATC 2 cut(s) 245, 568
BspT104I TTCGAA 1 cut(s) 506
BsrI ACTGG 3 cut(s) 475, 533, 957
BssECI CCNNGG 1 cut(s) 149
BssMI GATC 5 cut(s) 52, 250, 573, 784, 827
BssNI GRCGYC 2 cut(s) 286, 722
Bst2UI CCWGG 2 cut(s) 69, 312
Bst4CI ACNGT 1 cut(s) 205
Bst6I CTCTTC 1 cut(s) 934
BstACI GRCGYC 2 cut(s) 286, 722
BstBI TTCGAA 1 cut(s) 506
BstC8I GCNNGC 1 cut(s) 1071
BstDEI CTNAG 2 cut(s) 143, 1065
BstF5I GGATG 1 cut(s) 10
BstKTI GATC 5 cut(s) 55, 253, 576, 787, 830
BstMAI GTCTC 2 cut(s) 425, 887
BstMBI GATC 5 cut(s) 52, 250, 573, 784, 827
BstMWI GCNNNNNNNGC 5 cut(s) 338, 776, 1001, 1061, 1070
BstNI CCWGG 2 cut(s) 69, 312
BstNSI RCATGY 1 cut(s) 1073
BstSCI CCNGG 2 cut(s) 67, 310
BstV1I GCAGC 4 cut(s) 353, 695, 700, 788
BstV2I GAAGAC 1 cut(s) 1030
BstXI CCANNNNNNTGG 1 cut(s) 75
BsuI GTATCC 1 cut(s) 391
BsuRI GGCC 4 cut(s) 50, 488, 840, 1004
BtsCI GGATG 1 cut(s) 10
BtsIMutI CAGTG 2 cut(s) 243, 260
BveI ACCTGC 1 cut(s) 622
Cac8I GCNNGC 1 cut(s) 1071
Cfr13I GGNCC 3 cut(s) 486, 838, 1003
CseI GACGC 3 cut(s) 275, 730, 782
CspCI CAANNNNNGTGG 2 cut(s) 502, 537
CviAII CATG 6 cut(s) 158, 221, 333, 443, 849, 1070
DdeI CTNAG 2 cut(s) 143, 1065
DpnI GATC 5 cut(s) 54, 252, 575, 786, 829
DpnII GATC 5 cut(s) 52, 250, 573, 784, 827
DraIII CACNNNGTG 1 cut(s) 416
EaeI YGGCCR 1 cut(s) 48
Eam1104I CTCTTC 1 cut(s) 934
EarI CTCTTC 1 cut(s) 934
EcoO109I RGGNCCY 1 cut(s) 838
EcoRI GAATTC 1 cut(s) 601
EcoRII CCWGG 2 cut(s) 67, 310
FaeI CATG 6 cut(s) 161, 224, 336, 446, 852, 1073
FaiI YATR 9 cut(s) 159, 222, 334, 444, 465, 678, 832, 850, 1071
FaqI GGGAC 1 cut(s) 527
FatI CATG 6 cut(s) 157, 220, 332, 442, 848, 1069
FauI CCCGC 1 cut(s) 969
FbaI TGATCA 1 cut(s) 784
Fnu4HI GCNGC 5 cut(s) 342, 684, 714, 777, 805
FokI GGATG 1 cut(s) 17
Fsp4HI GCNGC 5 cut(s) 342, 684, 714, 777, 805
FspBI CTAG 5 cut(s) 270, 668, 717, 887, 1122
GluI GCNGC 5 cut(s) 342, 684, 714, 777, 805
HaeIII GGCC 4 cut(s) 50, 488, 840, 1004
HgaI GACGC 3 cut(s) 275, 730, 782
Hin1I GRCGYC 2 cut(s) 286, 722
Hin1II CATG 6 cut(s) 161, 224, 336, 446, 852, 1073
HinfI GANTC 6 cut(s) 127, 154, 232, 238, 433, 478
HphI GGTGA 1 cut(s) 194
Hpy166II GTNNAC 1 cut(s) 410
Hpy188III TCNNGA 4 cut(s) 322, 430, 452, 1058
Hpy8I GTNNAC 1 cut(s) 410
Hpy99I CGWCG 1 cut(s) 291
HpyAV CCTTC 1 cut(s) 264
HpyCH4III ACNGT 1 cut(s) 205
HpyCH4V TGCA 6 cut(s) 121, 332, 446, 524, 920, 988
HpyF10VI GCNNNNNNNGC 5 cut(s) 338, 776, 1001, 1061, 1070
HpyF3I CTNAG 2 cut(s) 143, 1065
Hsp92I GRCGYC 2 cut(s) 286, 722
Hsp92II CATG 6 cut(s) 161, 224, 336, 446, 852, 1073
Ksp22I TGATCA 1 cut(s) 784
Kzo9I GATC 5 cut(s) 52, 250, 573, 784, 827
LmnI GCTCC 1 cut(s) 307
Lsp1109I GCAGC 4 cut(s) 353, 695, 700, 788
LweI GCATC 2 cut(s) 327, 806
MaeI CTAG 5 cut(s) 270, 668, 717, 887, 1122
MaeIII GTNAC 1 cut(s) 37
MalI GATC 5 cut(s) 54, 252, 575, 786, 829
MboI GATC 5 cut(s) 52, 250, 573, 784, 827
MboII GAAGA 8 cut(s) 136, 347, 434, 748, 837, 921, 924, 1035
MluCI AATT 7 cut(s) 98, 197, 306, 553, 601, 761, 1159
MlyI GAGTC 2 cut(s) 241, 427
MmeI TCCRAC 2 cut(s) 215, 1000
MroXI GAANNNNTTC 1 cut(s) 102
MseI TTAA 3 cut(s) 207, 375, 627
MspR9I CCNGG 2 cut(s) 69, 312
Mva1269I GAATGC 2 cut(s) 304, 772
MvaI CCWGG 2 cut(s) 69, 312
MwoI GCNNNNNNNGC 5 cut(s) 338, 776, 1001, 1061, 1070
NdeII GATC 5 cut(s) 52, 250, 573, 784, 827
NlaIII CATG 6 cut(s) 161, 224, 336, 446, 852, 1073
NlaIV GGNNCC 2 cut(s) 487, 839
NspI RCATGY 1 cut(s) 1073
NspV TTCGAA 1 cut(s) 506
PaeI GCATGC 1 cut(s) 1073
PctI GAATGC 2 cut(s) 304, 772
PdmI GAANNNNTTC 1 cut(s) 102
PfeI GAWTC 4 cut(s) 127, 154, 238, 478
PfoI TCCNGGA 1 cut(s) 67
PkrI GCNGC 5 cut(s) 343, 685, 715, 778, 806
PleI GAGTC 2 cut(s) 240, 427
PpsI GAGTC 2 cut(s) 240, 427
Psp6I CCWGG 2 cut(s) 67, 310
PspGI CCWGG 2 cut(s) 67, 310
PspN4I GGNNCC 2 cut(s) 487, 839
PspPI GGNCC 3 cut(s) 486, 838, 1003
SaqAI TTAA 3 cut(s) 207, 375, 627
SatI GCNGC 5 cut(s) 342, 684, 714, 777, 805
Sau3AI GATC 5 cut(s) 52, 250, 573, 784, 827
Sau96I GGNCC 3 cut(s) 486, 838, 1003
SchI GAGTC 2 cut(s) 241, 427
ScrFI CCNGG 2 cut(s) 69, 312
SfaNI GCATC 2 cut(s) 327, 806
SfuI TTCGAA 1 cut(s) 506
SmlI CTYRAG 2 cut(s) 1013, 1056
SmoI CTYRAG 2 cut(s) 1013, 1056
SphI GCATGC 1 cut(s) 1073
Sse9I AATT 7 cut(s) 98, 197, 306, 553, 601, 761, 1159
SsiI CCGC 2 cut(s) 804, 976
SspI AATATT 1 cut(s) 115
SspMI CTAG 5 cut(s) 270, 668, 717, 887, 1122
StyD4I CCNGG 2 cut(s) 67, 310
TaaI ACNGT 1 cut(s) 205
TaqI TCGA 2 cut(s) 429, 506
TasI AATT 7 cut(s) 98, 197, 306, 553, 601, 761, 1159
TauI GCSGC 1 cut(s) 807
TfiI GAWTC 4 cut(s) 127, 154, 238, 478
Tru1I TTAA 3 cut(s) 207, 375, 627
Tru9I TTAA 3 cut(s) 207, 375, 627
TscAI CASTG 2 cut(s) 250, 267
TseI GCWGC 4 cut(s) 341, 683, 713, 776
TspDTI ATGAA 4 cut(s) 393, 431, 435, 837
TspGWI ACGGA 1 cut(s) 1098
TspRI CASTG 2 cut(s) 250, 267
XapI RAATTY 2 cut(s) 553, 601
XceI RCATGY 1 cut(s) 1073
XcmI CCANNNNNNNNNTGG 1 cut(s) 706
XmnI GAANNNNTTC 1 cut(s) 102
XspI CTAG 5 cut(s) 270, 668, 717, 887, 1122
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.