Rorug05G0237300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0012923
Physical Location & Seq
Reverse (-)
24985546 .. 24989265
3720 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0237300.1

Sequence Viewer

Length: 558 bp
ATGGCCACCGTCCTTGAATCCATCGTCATTCCTCGCTCCTCCGCTCTGCCTTCACCTACTCTCTCTCCGATCGCCGCCTCCTCGGTTTCTTCCCTCACCGGCCGCCGTGGATTGCCTCACTACTCCGGCCTCAAGGTCAGCTCGGCTCTTCAGACTGCTCGCTCTGTCGGATCTCTCAGCTACGGTCCCGCTCGTCGCCGGCGTGGTCTCGTTCTCTGCGAGGCTCAGGACACCGCCGTCGGAGTGCCTGCTGTTTCTGATGCAACATGGCAGTCACTTGTCCTCGATGCTGAATTACCTGTTTTGGTTGAATTCTGGGCCCCATGGTGTGGTCCATGTCGTATGATCCACCCTATAATTGATGAACTGGCAAAGCAATATGCTGGGAAGCTCAAATGTTACAAAGTAAACACCGATGAGAGTGCTTCAGTTGCAACCAGATATGGGATCCGAAGCATCCCCACTGTCATCTTATTCAAGGATGGTGAGAAAAAAGATGCAGTTATTGGGGCTGTTCCCAAATCCACATTAACCACCAGCATAGAAAAGTTCTTGTAG
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
DYW_deaminase PPR PPR_2

Protein Analysis

185

Amino Acids

19.75

Weight (kDa)

9.27

Isoelectric Point (pI)

52.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Thioredoxin PF00085 84 - 182 2.7e-30 Thioredoxin
Thioredoxin_2 PF13098 98 - 178 7.6e-09 Thioredoxin-like 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: OG0012923)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G08460 AT1G08460
fragaria_vesca FvH4_3g26560 FvH4_3g26560
malus_domestica MD03G1154900.v1.1
prunus_persica Prupe.6G143900_v2.0.a1
pyrus_communis pycom03g10870
rosa_chinensis RchiOBHm_Chr5g0048241
rosa_laevigata RLG00000034504
rosa_multiflora Rmu_sc0001408.1_g000004
rosa_roxburghii Rroxscaffold_1G00033640 Rroxscaffold_1G00033650
rosa_rugosa Rorug05G0237300
rosa_samantha Rh5AG316500 Rh5BG327100 Rh5CG353300 Rh5DG338200
rosa_wichuraiana Rw5G029660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 236
AccB7I CCANNNNNTGG 1 cut(s) 329
AccBSI CCGCTC 2 cut(s) 44, 191
AciI CCGC 5 cut(s) 42, 75, 103, 189, 234
AclWI GGATC 4 cut(s) 178, 340, 442, 455
AcoI YGGCCR 2 cut(s) 3, 100
AcsI RAATTY 1 cut(s) 311
AcuI CTGAAG 2 cut(s) 134, 411
AfiI CCNNNNNNNGG 2 cut(s) 329, 444
AgsI TTSAA 3 cut(s) 17, 311, 478
AluBI AGCT 3 cut(s) 141, 180, 391
AluI AGCT 3 cut(s) 141, 180, 391
Alw26I GTCTC 1 cut(s) 212
AlwI GGATC 4 cut(s) 178, 340, 442, 455
AoxI GGCC 4 cut(s) 3, 100, 127, 318
ApaI GGGCCC 1 cut(s) 322
ApoI RAATTY 1 cut(s) 311
AspS9I GGNCC 4 cut(s) 185, 318, 319, 332
AsuHPI GGTGA 3 cut(s) 45, 88, 497
AvaII GGWCC 2 cut(s) 185, 332
BaeGI GKGCMC 1 cut(s) 322
BalI TGGCCA 1 cut(s) 5
BamHI GGATCC 1 cut(s) 447
BanII GRGCYC 1 cut(s) 322
BccI CCATC 2 cut(s) 29, 476
BceAI ACGGC 2 cut(s) 90, 221
BcgI CGANNNNNNTGC 2 cut(s) 404, 438
BcoDI GTCTC 1 cut(s) 212
BisI GCNGC 2 cut(s) 75, 103
BlsI GCNGC 2 cut(s) 76, 104
Bme18I GGWCC 2 cut(s) 185, 332
BmgT120I GGNCC 4 cut(s) 185, 318, 319, 332
BmiI GGNNCC 4 cut(s) 187, 320, 321, 449
BmsI GCATC 4 cut(s) 250, 277, 465, 487
Bpu10I CCTNAGC 1 cut(s) 225
BpuEI CTTGAG 1 cut(s) 116
BsaI GGTCTC 1 cut(s) 212
BsaJI CCNNGG 3 cut(s) 81, 106, 323
BsaXI ACNNNNNCTCC 2 cut(s) 49, 79
Bsc4I CCNNNNNNNGG 2 cut(s) 329, 444
Bse118I RCCGGY 2 cut(s) 98, 198
Bse1I ACTGG 1 cut(s) 372
BseDI CCNNGG 3 cut(s) 81, 106, 323
BseGI GGATG 2 cut(s) 456, 487
BseLI CCNNNNNNNGG 2 cut(s) 329, 444
BseMII CTCAG 2 cut(s) 190, 239
BseNI ACTGG 1 cut(s) 372
BseRI GAGGAG 2 cut(s) 28, 70
BseSI GKGCMC 1 cut(s) 322
BseX3I CGGCCG 1 cut(s) 100
BseYI CCCAGC 1 cut(s) 383
Bsh1285I CGRYCG 2 cut(s) 72, 103
BshFI GGCC 4 cut(s) 5, 102, 129, 320
BsiEI CGRYCG 2 cut(s) 72, 103
BsiSI CCGG 3 cut(s) 99, 126, 199
BslFI GGGAC 1 cut(s) 171
BslI CCNNNNNNNGG 2 cut(s) 329, 444
BsmAI GTCTC 1 cut(s) 212
BsmFI GGGAC 1 cut(s) 171
BsnI GGCC 4 cut(s) 5, 102, 129, 320
Bso31I GGTCTC 1 cut(s) 212
Bsp120I GGGCCC 1 cut(s) 318
Bsp1286I GDGCHC 1 cut(s) 322
Bsp143I GATC 4 cut(s) 69, 170, 345, 447
Bsp19I CCATGG 1 cut(s) 323
BspACI CCGC 5 cut(s) 42, 75, 103, 189, 234
BspANI GGCC 4 cut(s) 5, 102, 129, 320
BspCNI CTCAG 2 cut(s) 189, 238
BspLI GGNNCC 4 cut(s) 187, 320, 321, 449
BspPI GGATC 4 cut(s) 178, 340, 442, 455
BspQI GCTCTTC 1 cut(s) 153
BspTNI GGTCTC 1 cut(s) 212
BsrBI CCGCTC 2 cut(s) 44, 191
BsrFI RCCGGY 2 cut(s) 98, 198
BsrI ACTGG 1 cut(s) 372
BssAI RCCGGY 2 cut(s) 98, 198
BssECI CCNNGG 3 cut(s) 81, 106, 323
BssMI GATC 4 cut(s) 69, 170, 345, 447
BssT1I CCWWGG 1 cut(s) 323
Bst4CI ACNGT 3 cut(s) 10, 185, 466
Bst6I CTCTTC 1 cut(s) 153
BstC8I GCNNGC 3 cut(s) 160, 200, 249
BstDEI CTNAG 2 cut(s) 176, 225
BstDSI CCRYGG 2 cut(s) 106, 323
BstF5I GGATG 2 cut(s) 456, 487
BstKTI GATC 4 cut(s) 72, 173, 348, 450
BstMAI GTCTC 1 cut(s) 212
BstMBI GATC 4 cut(s) 69, 170, 345, 447
BstMCI CGRYCG 2 cut(s) 72, 103
BstMWI GCNNNNNNNGC 1 cut(s) 431
BstSLI GKGCMC 1 cut(s) 322
BstX2I RGATCY 2 cut(s) 170, 447
BstYI RGATCY 2 cut(s) 170, 447
BstZI CGGCCG 1 cut(s) 100
BsuRI GGCC 4 cut(s) 5, 102, 129, 320
BtgI CCRYGG 2 cut(s) 106, 323
BtsCI GGATG 2 cut(s) 456, 487
BtsIMutI CAGTG 1 cut(s) 462
Cac8I GCNNGC 3 cut(s) 160, 200, 249
Cfr10I RCCGGY 2 cut(s) 98, 198
Cfr13I GGNCC 4 cut(s) 185, 318, 319, 332
CspCI CAANNNNNGTGG 1 cut(s) 30
CviAII CATG 3 cut(s) 267, 324, 336
DdeI CTNAG 2 cut(s) 176, 225
DpnI GATC 4 cut(s) 71, 172, 347, 449
DpnII GATC 4 cut(s) 69, 170, 345, 447
DrdI GACNNNNNNGTC 1 cut(s) 236
DseDI GACNNNNNNGTC 1 cut(s) 236
EaeI YGGCCR 2 cut(s) 3, 100
EagI CGGCCG 1 cut(s) 100
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
EclXI CGGCCG 1 cut(s) 100
Eco130I CCWWGG 1 cut(s) 323
Eco24I GRGCYC 1 cut(s) 322
Eco31I GGTCTC 1 cut(s) 212
Eco47I GGWCC 2 cut(s) 185, 332
Eco52I CGGCCG 1 cut(s) 100
Eco57I CTGAAG 2 cut(s) 134, 411
EcoO109I RGGNCCY 1 cut(s) 319
EcoRI GAATTC 1 cut(s) 311
EcoT14I CCWWGG 1 cut(s) 323
EcoT38I GRGCYC 1 cut(s) 322
ErhI CCWWGG 1 cut(s) 323
FaeI CATG 3 cut(s) 270, 327, 339
FaiI YATR 8 cut(s) 268, 325, 337, 344, 356, 381, 444, 542
FaqI GGGAC 1 cut(s) 171
FatI CATG 3 cut(s) 266, 323, 335
FauI CCCGC 1 cut(s) 196
Fnu4HI GCNGC 2 cut(s) 75, 103
FokI GGATG 2 cut(s) 443, 494
FriOI GRGCYC 1 cut(s) 322
Fsp4HI GCNGC 2 cut(s) 75, 103
GluI GCNGC 2 cut(s) 75, 103
GsaI CCCAGC 1 cut(s) 387
HaeIII GGCC 4 cut(s) 5, 102, 129, 320
HapII CCGG 3 cut(s) 99, 126, 199
Hin1II CATG 3 cut(s) 270, 327, 339
HinfI GANTC 1 cut(s) 17
HpaII CCGG 3 cut(s) 99, 126, 199
HphI GGTGA 3 cut(s) 45, 88, 497
Hpy166II GTNNAC 1 cut(s) 409
Hpy188I TCNGA 6 cut(s) 69, 153, 170, 242, 259, 452
Hpy188III TCNNGA 1 cut(s) 227
Hpy8I GTNNAC 1 cut(s) 409
Hpy99I CGWCG 2 cut(s) 198, 242
HpyAV CCTTC 1 cut(s) 60
HpyCH4III ACNGT 3 cut(s) 10, 185, 466
HpyCH4V TGCA 3 cut(s) 263, 434, 500
HpyF10VI GCNNNNNNNGC 1 cut(s) 431
HpyF3I CTNAG 2 cut(s) 176, 225
Hsp92II CATG 3 cut(s) 270, 327, 339
KroI GCCGGC 1 cut(s) 198
KroNI GCCGGC 1 cut(s) 200
Kzo9I GATC 4 cut(s) 69, 170, 345, 447
LguI GCTCTTC 1 cut(s) 153
LmnI GCTCC 1 cut(s) 41
LweI GCATC 4 cut(s) 250, 277, 465, 487
MaeIII GTNAC 2 cut(s) 273, 398
MalI GATC 4 cut(s) 71, 172, 347, 449
MbiI CCGCTC 2 cut(s) 44, 191
MboI GATC 4 cut(s) 69, 170, 345, 447
MboII GAAGA 2 cut(s) 81, 140
MflI RGATCY 2 cut(s) 170, 447
MhlI GDGCHC 1 cut(s) 322
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 3 cut(s) 293, 311, 357
MluNI TGGCCA 1 cut(s) 5
MmeI TCCRAC 2 cut(s) 148, 220
MnlI CCTC 9 cut(s) 42, 49, 88, 91, 104, 126, 140, 214, 293
Mox20I TGGCCA 1 cut(s) 5
MreI CGCCGGCG 1 cut(s) 198
MroNI GCCGGC 1 cut(s) 198
MscI TGGCCA 1 cut(s) 5
MseI TTAA 1 cut(s) 530
Msp20I TGGCCA 1 cut(s) 5
MspI CCGG 3 cut(s) 99, 126, 199
MwoI GCNNNNNNNGC 1 cut(s) 431
NaeI GCCGGC 1 cut(s) 200
NcoI CCATGG 1 cut(s) 323
NdeII GATC 4 cut(s) 69, 170, 345, 447
NgoMIV GCCGGC 1 cut(s) 198
NlaIII CATG 3 cut(s) 270, 327, 339
NlaIV GGNNCC 4 cut(s) 187, 320, 321, 449
NmeAIII GCCGAG 1 cut(s) 122
NmuCI GTSAC 1 cut(s) 273
PciSI GCTCTTC 1 cut(s) 153
PcsI WCGNNNNNNNCGW 2 cut(s) 199, 216
PdiI GCCGGC 1 cut(s) 200
PfeI GAWTC 1 cut(s) 17
PflMI CCANNNNNTGG 1 cut(s) 329
PkrI GCNGC 2 cut(s) 76, 104
Ple19I CGATCG 1 cut(s) 72
PspFI CCCAGC 1 cut(s) 383
PspN4I GGNNCC 4 cut(s) 187, 320, 321, 449
PspOMI GGGCCC 1 cut(s) 318
PspPI GGNCC 4 cut(s) 185, 318, 319, 332
PsuI RGATCY 2 cut(s) 170, 447
PvuI CGATCG 1 cut(s) 72
SapI GCTCTTC 1 cut(s) 153
SaqAI TTAA 1 cut(s) 530
SatI GCNGC 2 cut(s) 75, 103
Sau3AI GATC 4 cut(s) 69, 170, 345, 447
Sau96I GGNCC 4 cut(s) 185, 318, 319, 332
SduI GDGCHC 1 cut(s) 322
SetI ASST 6 cut(s) 58, 138, 143, 182, 301, 393
SfaNI GCATC 4 cut(s) 250, 277, 465, 487
SgrAI CRCCGGYG 1 cut(s) 198
SinI GGWCC 2 cut(s) 185, 332
SmlI CTYRAG 1 cut(s) 131
SmoI CTYRAG 1 cut(s) 131
Sse9I AATT 3 cut(s) 293, 311, 357
SsiI CCGC 5 cut(s) 42, 75, 103, 189, 234
StyI CCWWGG 1 cut(s) 323
TaaI ACNGT 3 cut(s) 10, 185, 466
TaqI TCGA 1 cut(s) 285
TasI AATT 3 cut(s) 293, 311, 357
TauI GCSGC 2 cut(s) 77, 105
TfiI GAWTC 1 cut(s) 17
Tru1I TTAA 1 cut(s) 530
Tru9I TTAA 1 cut(s) 530
TscAI CASTG 1 cut(s) 469
TseFI GTSAC 1 cut(s) 273
Tsp45I GTSAC 1 cut(s) 273
TspDTI ATGAA 1 cut(s) 378
TspRI CASTG 1 cut(s) 469
Van91I CCANNNNNTGG 1 cut(s) 329
VpaK11BI GGWCC 2 cut(s) 185, 332
XapI RAATTY 1 cut(s) 311
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.