Rorug01G0036400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0000591
Physical Location & Seq
Reverse (-)
6097561 .. 6098807
1247 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0036400.1

Sequence Viewer

Length: 585 bp
ATGGCCATGGATGGCAGCAATGCAGCAGCAGCGGAGGAATTGGCCGTGGGTTGCTTCGTCTCCATCAAGACCACCTTGGGCGACGACTTCCAGGGCCAGGTCATCACCTTCGACCGCCCCTCCAACATCCTCATCCTTCAAGAGGGTTTGAAAGGAGGGCCTAAGCGGAACATCAGGCTACTCAAGGCCAACTATATCAAGGAGTTGAGCTATTTGGGTCAAGCTGAAGACCCACTTGACATTAAGAACTGTTACCTTGATCTTAATAGTCTCAGAGCCAGAGAGGAATCAGCTATCAGACAAGCAGAGGCAGAGTGTGAGAGGATCAGAGTTGGTGTCACTAGCCAGGCTCAGAACATTTTCGATGCCTTGTCTAAAACGCTTCCAGTACGCTGGGACAAGACTTTCATAGTTGTGATGAATGAGGTTCGTGTGAGCAGTCCATATCTTCCCGAGTCTGTCAGTGGAGGAACTCCTGCTGCCAATGATCGGGTGAAGAAAGTGCTTGAGTTGGAGAAGACTTTTCCCTCAAGGGATAAGTCATTGTGGGTATGGTGGTATGGTGGTCTTGCTGTCAAGACGTAA
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

194

Amino Acids

21.55

Weight (kDa)

6.39

Isoelectric Point (pI)

49.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM12_LSM PF21166 12 - 68 2.5e-13 LSM12, LSM domain
AD PF09793 86 - 168 3.5e-25 Anticodon-binding 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
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)
AciI CCGC 3 cut(s) 32, 115, 166
AclWI GGATC 1 cut(s) 332
AcoI YGGCCR 2 cut(s) 3, 42
AcuI CTGAAG 1 cut(s) 246
AfaI GTAC 1 cut(s) 390
AfiI CCNNNNNNNGG 3 cut(s) 97, 142, 489
AgsI TTSAA 2 cut(s) 140, 151
AjnI CCWGG 3 cut(s) 90, 96, 345
AluBI AGCT 3 cut(s) 210, 224, 293
AluI AGCT 3 cut(s) 210, 224, 293
Alw26I GTCTC 2 cut(s) 64, 275
AlwI GGATC 1 cut(s) 332
Ama87I CYCGRG 1 cut(s) 452
AoxI GGCC 5 cut(s) 3, 42, 94, 158, 186
ApeKI GCWGC 5 cut(s) 15, 23, 26, 29, 479
Asp700I GAANNNNTTC 1 cut(s) 359
AspS9I GGNCC 2 cut(s) 94, 158
AsuHPI GGTGA 2 cut(s) 97, 505
AvaI CYCGRG 1 cut(s) 452
BalI TGGCCA 1 cut(s) 5
BbsI GAAGAC 2 cut(s) 234, 524
BbvI GCAGC 5 cut(s) 27, 35, 38, 41, 466
BccI CCATC 2 cut(s) 5, 71
BceAI ACGGC 1 cut(s) 29
BciT130I CCWGG 3 cut(s) 92, 98, 347
BcoDI GTCTC 2 cut(s) 64, 275
BfaI CTAG 1 cut(s) 342
BisI GCNGC 5 cut(s) 16, 24, 27, 30, 480
BlsI GCNGC 5 cut(s) 17, 25, 28, 31, 481
Bme1390I CCNGG 3 cut(s) 92, 98, 347
BmeT110I CYCGRG 1 cut(s) 452
BmgT120I GGNCC 2 cut(s) 94, 158
BmrFI CCNGG 3 cut(s) 92, 98, 347
BmsI GCATC 1 cut(s) 355
BpiI GAAGAC 2 cut(s) 234, 524
Bpu10I CCTNAGC 1 cut(s) 162
BpuEI CTTGAG 3 cut(s) 167, 514, 527
BsaJI CCNNGG 4 cut(s) 6, 45, 75, 91
BsaXI ACNNNNNCTCC 2 cut(s) 104, 134
Bsc4I CCNNNNNNNGG 3 cut(s) 97, 142, 489
Bse1I ACTGG 1 cut(s) 386
Bse3DI GCAATG 1 cut(s) 25
BseBI CCWGG 3 cut(s) 92, 98, 347
BseDI CCNNGG 4 cut(s) 6, 45, 75, 91
BseGI GGATG 3 cut(s) 16, 126, 132
BseLI CCNNNNNNNGG 3 cut(s) 97, 142, 489
BseMI GCAATG 1 cut(s) 25
BseMII CTCAG 2 cut(s) 286, 365
BseNI ACTGG 1 cut(s) 386
BseXI GCAGC 5 cut(s) 27, 35, 38, 41, 466
BseYI CCCAGC 1 cut(s) 393
Bsh1285I CGRYCG 1 cut(s) 115
BshFI GGCC 5 cut(s) 5, 44, 96, 160, 188
BsiEI CGRYCG 1 cut(s) 115
BsiHKCI CYCGRG 1 cut(s) 452
BslFI GGGAC 1 cut(s) 410
BslI CCNNNNNNNGG 3 cut(s) 97, 142, 489
BsmAI GTCTC 2 cut(s) 64, 275
BsmBI CGTCTC 1 cut(s) 64
BsmFI GGGAC 1 cut(s) 410
BsnI GGCC 5 cut(s) 5, 44, 96, 160, 188
BsoBI CYCGRG 1 cut(s) 452
Bsp143I GATC 3 cut(s) 259, 324, 487
Bsp19I CCATGG 1 cut(s) 6
BspACI CCGC 3 cut(s) 32, 115, 166
BspANI GGCC 5 cut(s) 5, 44, 96, 160, 188
BspCNI CTCAG 2 cut(s) 285, 364
BspPI GGATC 1 cut(s) 332
BsrDI GCAATG 1 cut(s) 25
BsrI ACTGG 1 cut(s) 386
BssECI CCNNGG 4 cut(s) 6, 45, 75, 91
BssMI GATC 3 cut(s) 259, 324, 487
BssT1I CCWWGG 2 cut(s) 6, 75
Bst2UI CCWGG 3 cut(s) 92, 98, 347
Bst4CI ACNGT 1 cut(s) 251
BstDEI CTNAG 3 cut(s) 162, 272, 351
BstDSI CCRYGG 2 cut(s) 6, 45
BstENI CCTNNNNNAGG 1 cut(s) 140
BstF5I GGATG 3 cut(s) 16, 126, 132
BstKTI GATC 3 cut(s) 262, 327, 490
BstMAI GTCTC 2 cut(s) 64, 275
BstMBI GATC 3 cut(s) 259, 324, 487
BstMCI CGRYCG 1 cut(s) 115
BstMWI GCNNNNNNNGC 1 cut(s) 29
BstNI CCWGG 3 cut(s) 92, 98, 347
BstSCI CCNGG 3 cut(s) 90, 96, 345
BstV1I GCAGC 5 cut(s) 27, 35, 38, 41, 466
BstV2I GAAGAC 2 cut(s) 234, 524
BstXI CCANNNNNNTGG 1 cut(s) 393
BsuRI GGCC 5 cut(s) 5, 44, 96, 160, 188
BtgI CCRYGG 2 cut(s) 6, 45
BtsCI GGATG 3 cut(s) 16, 126, 132
BtsIMutI CAGTG 1 cut(s) 469
Cfr13I GGNCC 2 cut(s) 94, 158
Csp6I GTAC 1 cut(s) 389
CviAII CATG 1 cut(s) 7
CviQI GTAC 1 cut(s) 389
DdeI CTNAG 3 cut(s) 162, 272, 351
DpnI GATC 3 cut(s) 261, 326, 489
DpnII GATC 3 cut(s) 259, 324, 487
EaeI YGGCCR 2 cut(s) 3, 42
Eco130I CCWWGG 2 cut(s) 6, 75
Eco57I CTGAAG 1 cut(s) 246
Eco88I CYCGRG 1 cut(s) 452
EcoNI CCTNNNNNAGG 1 cut(s) 140
EcoO109I RGGNCCY 1 cut(s) 158
EcoRII CCWGG 3 cut(s) 90, 96, 345
EcoT14I CCWWGG 2 cut(s) 6, 75
ErhI CCWWGG 2 cut(s) 6, 75
Esp3I CGTCTC 1 cut(s) 64
FaeI CATG 1 cut(s) 10
FaiI YATR 6 cut(s) 8, 195, 410, 445, 553, 561
FalI AAGNNNNNCTT 4 cut(s) 59, 91, 219, 251
FaqI GGGAC 1 cut(s) 410
FatI CATG 1 cut(s) 6
Fnu4HI GCNGC 5 cut(s) 16, 24, 27, 30, 480
FokI GGATG 3 cut(s) 23, 113, 119
Fsp4HI GCNGC 5 cut(s) 16, 24, 27, 30, 480
FspBI CTAG 1 cut(s) 342
GluI GCNGC 5 cut(s) 16, 24, 27, 30, 480
GsaI CCCAGC 1 cut(s) 397
HaeIII GGCC 5 cut(s) 5, 44, 96, 160, 188
Hin1II CATG 1 cut(s) 10
HinfI GANTC 2 cut(s) 287, 455
HphI GGTGA 2 cut(s) 97, 505
Hpy188I TCNGA 4 cut(s) 275, 299, 329, 354
Hpy188III TCNNGA 4 cut(s) 67, 140, 452, 577
Hpy99I CGWCG 1 cut(s) 86
HpyAV CCTTC 2 cut(s) 118, 146
HpyCH4III ACNGT 1 cut(s) 251
HpyCH4IV ACGT 1 cut(s) 581
HpyCH4V TGCA 1 cut(s) 23
HpyF10VI GCNNNNNNNGC 1 cut(s) 29
HpyF3I CTNAG 3 cut(s) 162, 272, 351
HpySE526I ACGT 1 cut(s) 581
Hsp92II CATG 1 cut(s) 10
Kzo9I GATC 3 cut(s) 259, 324, 487
Lsp1109I GCAGC 5 cut(s) 27, 35, 38, 41, 466
LweI GCATC 1 cut(s) 355
MaeI CTAG 1 cut(s) 342
MaeII ACGT 1 cut(s) 581
MaeIII GTNAC 2 cut(s) 251, 337
MalI GATC 3 cut(s) 261, 326, 489
MboI GATC 3 cut(s) 259, 324, 487
MboII GAAGA 4 cut(s) 239, 440, 508, 529
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 1 cut(s) 38
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 1 cut(s) 464
MmeI TCCRAC 2 cut(s) 147, 492
Mox20I TGGCCA 1 cut(s) 5
MroXI GAANNNNTTC 1 cut(s) 359
MscI TGGCCA 1 cut(s) 5
MseI TTAA 2 cut(s) 243, 264
MslI CAYNNNNRTG 1 cut(s) 413
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 1 cut(s) 32
MspR9I CCNGG 3 cut(s) 92, 98, 347
MvaI CCWGG 3 cut(s) 92, 98, 347
MwoI GCNNNNNNNGC 1 cut(s) 29
NcoI CCATGG 1 cut(s) 6
NdeII GATC 3 cut(s) 259, 324, 487
NlaIII CATG 1 cut(s) 10
NmuCI GTSAC 1 cut(s) 337
PdmI GAANNNNTTC 1 cut(s) 359
PfeI GAWTC 1 cut(s) 287
PkrI GCNGC 5 cut(s) 17, 25, 28, 31, 481
PleI GAGTC 1 cut(s) 463
PpsI GAGTC 1 cut(s) 463
Psp6I CCWGG 3 cut(s) 90, 96, 345
PspFI CCCAGC 1 cut(s) 393
PspGI CCWGG 3 cut(s) 90, 96, 345
PspPI GGNCC 2 cut(s) 94, 158
RsaI GTAC 1 cut(s) 390
RsaNI GTAC 1 cut(s) 389
RseI CAYNNNNRTG 1 cut(s) 413
SaqAI TTAA 2 cut(s) 243, 264
SatI GCNGC 5 cut(s) 16, 24, 27, 30, 480
Sau3AI GATC 3 cut(s) 259, 324, 487
Sau96I GGNCC 2 cut(s) 94, 158
SchI GAGTC 1 cut(s) 464
ScrFI CCNGG 3 cut(s) 92, 98, 347
SetI ASST 9 cut(s) 77, 102, 110, 212, 226, 258, 295, 429, 584
SfaNI GCATC 1 cut(s) 355
SmiMI CAYNNNNRTG 1 cut(s) 413
SmlI CTYRAG 3 cut(s) 182, 506, 529
SmoI CTYRAG 3 cut(s) 182, 506, 529
Sse9I AATT 1 cut(s) 38
SsiI CCGC 3 cut(s) 32, 115, 166
SspMI CTAG 1 cut(s) 342
StyD4I CCNGG 3 cut(s) 90, 96, 345
StyI CCWWGG 2 cut(s) 6, 75
TaaI ACNGT 1 cut(s) 251
TaiI ACGT 1 cut(s) 584
TaqI TCGA 2 cut(s) 111, 363
TasI AATT 1 cut(s) 38
TfiI GAWTC 1 cut(s) 287
Tru1I TTAA 2 cut(s) 243, 264
Tru9I TTAA 2 cut(s) 243, 264
TscAI CASTG 1 cut(s) 469
TseFI GTSAC 1 cut(s) 337
TseI GCWGC 5 cut(s) 15, 23, 26, 29, 479
Tsp45I GTSAC 1 cut(s) 337
TspDTI ATGAA 2 cut(s) 397, 434
TspRI CASTG 1 cut(s) 469
XagI CCTNNNNNAGG 1 cut(s) 140
XmnI GAANNNNTTC 1 cut(s) 359
XspI CTAG 1 cut(s) 342
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.