Rroxscaffold_6G00408160

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0019398
Physical Location & Seq
Forward (+)
30638018 .. 30642297
4280 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00408160.1

Sequence Viewer

Length: 345 bp
ATGTTTGGAGCCGAAGACTGGTCTCATCCTCAGAAGAAAGAAATATGGGAGAAACTTGATAGTCTTCTTTATGAGATAAAGAAAGCTGGATACGTTCCAAATACAGATCTTGTTCTTCATGATATGGACGACAATTCAAAGCCCCGAGTTAGGAAGCAATCCGGACGTCGAGAACCGGTCATCATCCCGCATCAAAGAACCGGTTGTCTTCGAATTGGGTGGAGCCCAGGAAATTGTAGTGTCGACCCGATAGGTGGCCGTAGAGGTGGCAAACGGGCCACTAAGCACGAGCATCGCACAGGCCCGGCAAGCTTAAAAGCGGCCGGCACGGCCCAAGCCCGTTAA
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

114

Amino Acids

12.75

Weight (kDa)

9.88

Isoelectric Point (pI)

40.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Eplus_motif PF20430 2 - 26 5e-06 E+ motif
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: OG0019398)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0473261 RchiOBHm_Chr3g0473321
rosa_laevigata RLG00000024008
rosa_multiflora Rmu_sc0000908.1_g000015
rosa_roxburghii Rroxscaffold_6G00408160
rosa_samantha Rh3BG210600 Rh3BG210900 Rh3DG207800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 169
AccI GTMKAC 1 cut(s) 243
AccIII TCCGGA 1 cut(s) 161
AciI CCGC 2 cut(s) 188, 320
AcoI YGGCCR 2 cut(s) 256, 321
AcyI GRCGYC 1 cut(s) 166
AfiI CCNNNNNNNGG 3 cut(s) 18, 150, 254
AgeI ACCGGT 2 cut(s) 175, 200
AgsI TTSAA 1 cut(s) 138
AjnI CCWGG 1 cut(s) 226
AluBI AGCT 2 cut(s) 86, 312
AluI AGCT 2 cut(s) 86, 312
Alw26I GTCTC 1 cut(s) 27
Ama87I CYCGRG 1 cut(s) 144
Aor13HI TCCGGA 1 cut(s) 161
AoxI GGCC 5 cut(s) 256, 276, 301, 321, 330
AsiGI ACCGGT 2 cut(s) 175, 200
AspS9I GGNCC 3 cut(s) 276, 302, 331
AsuC2I CCSGG 1 cut(s) 305
AsuII TTCGAA 1 cut(s) 211
AvaI CYCGRG 1 cut(s) 144
BanII GRGCYC 1 cut(s) 227
BauI CACGAG 1 cut(s) 287
BbsI GAAGAC 3 cut(s) 21, 56, 200
BceAI ACGGC 1 cut(s) 243
BcgI CGANNNNNNTGC 2 cut(s) 275, 309
BciT130I CCWGG 1 cut(s) 228
BciVI GTATCC 1 cut(s) 83
BcnI CCSGG 1 cut(s) 305
BcoDI GTCTC 1 cut(s) 27
BfuI GTATCC 1 cut(s) 83
BglI GCCNNNNNGGC 1 cut(s) 329
BglII AGATCT 1 cut(s) 106
BisI GCNGC 1 cut(s) 321
BlsI GCNGC 1 cut(s) 322
Bme1390I CCNGG 2 cut(s) 228, 305
BmeT110I CYCGRG 1 cut(s) 144
BmgT120I GGNCC 3 cut(s) 276, 302, 331
BmiI GGNNCC 2 cut(s) 10, 224
BmrFI CCNGG 2 cut(s) 228, 305
BmsI GCATC 2 cut(s) 199, 301
BpiI GAAGAC 3 cut(s) 21, 56, 200
Bpu14I TTCGAA 1 cut(s) 211
BpuMI CCSGG 1 cut(s) 305
BsaHI GRCGYC 1 cut(s) 166
BsaI GGTCTC 1 cut(s) 27
BsaJI CCNNGG 1 cut(s) 226
BsaWI WCCGGW 3 cut(s) 161, 175, 200
Bsc4I CCNNNNNNNGG 3 cut(s) 18, 150, 254
Bse118I RCCGGY 3 cut(s) 175, 200, 323
Bse1I ACTGG 1 cut(s) 23
BseAI TCCGGA 1 cut(s) 161
BseBI CCWGG 1 cut(s) 228
BseDI CCNNGG 1 cut(s) 226
BseGI GGATG 2 cut(s) 25, 183
BseLI CCNNNNNNNGG 3 cut(s) 18, 150, 254
BseMII CTCAG 1 cut(s) 44
BseNI ACTGG 1 cut(s) 23
BseX3I CGGCCG 1 cut(s) 321
Bsh1285I CGRYCG 1 cut(s) 324
BshFI GGCC 5 cut(s) 258, 278, 303, 323, 332
BshTI ACCGGT 2 cut(s) 175, 200
BsiEI CGRYCG 1 cut(s) 324
BsiHKCI CYCGRG 1 cut(s) 144
BsiSI CCGG 5 cut(s) 162, 176, 201, 305, 324
BslI CCNNNNNNNGG 3 cut(s) 18, 150, 254
BsmAI GTCTC 1 cut(s) 27
BsnI GGCC 5 cut(s) 258, 278, 303, 323, 332
Bso31I GGTCTC 1 cut(s) 27
BsoBI CYCGRG 1 cut(s) 144
Bsp119I TTCGAA 1 cut(s) 211
Bsp1286I GDGCHC 1 cut(s) 227
Bsp13I TCCGGA 1 cut(s) 161
Bsp143I GATC 1 cut(s) 106
BspACI CCGC 2 cut(s) 188, 320
BspANI GGCC 5 cut(s) 258, 278, 303, 323, 332
BspCNI CTCAG 1 cut(s) 43
BspEI TCCGGA 1 cut(s) 161
BspHI TCATGA 1 cut(s) 118
BspLI GGNNCC 2 cut(s) 10, 224
BspT104I TTCGAA 1 cut(s) 211
BspTNI GGTCTC 1 cut(s) 27
BsrFI RCCGGY 3 cut(s) 175, 200, 323
BsrI ACTGG 1 cut(s) 23
BssAI RCCGGY 3 cut(s) 175, 200, 323
BssECI CCNNGG 1 cut(s) 226
BssMI GATC 1 cut(s) 106
BssNI GRCGYC 1 cut(s) 166
BssSI CACGAG 1 cut(s) 287
Bst2BI CACGAG 1 cut(s) 287
Bst2UI CCWGG 1 cut(s) 228
BstACI GRCGYC 1 cut(s) 166
BstBI TTCGAA 1 cut(s) 211
BstC8I GCNNGC 2 cut(s) 310, 325
BstDEI CTNAG 2 cut(s) 30, 282
BstF5I GGATG 2 cut(s) 25, 183
BstKTI GATC 1 cut(s) 109
BstMAI GTCTC 1 cut(s) 27
BstMBI GATC 1 cut(s) 106
BstMCI CGRYCG 1 cut(s) 324
BstMWI GCNNNNNNNGC 2 cut(s) 309, 329
BstNI CCWGG 1 cut(s) 228
BstSCI CCNGG 2 cut(s) 226, 303
BstV2I GAAGAC 3 cut(s) 21, 56, 200
BstX2I RGATCY 1 cut(s) 106
BstYI RGATCY 1 cut(s) 106
BstZI CGGCCG 1 cut(s) 321
BsuI GTATCC 1 cut(s) 83
BsuRI GGCC 5 cut(s) 258, 278, 303, 323, 332
BtgZI GCGATG 1 cut(s) 278
BtsCI GGATG 2 cut(s) 25, 183
Cac8I GCNNGC 2 cut(s) 310, 325
CciI TCATGA 1 cut(s) 118
Cfr10I RCCGGY 3 cut(s) 175, 200, 323
Cfr13I GGNCC 3 cut(s) 276, 302, 331
CspAI ACCGGT 2 cut(s) 175, 200
CviAII CATG 1 cut(s) 119
DdeI CTNAG 2 cut(s) 30, 282
DpnI GATC 1 cut(s) 108
DpnII GATC 1 cut(s) 106
EaeI YGGCCR 2 cut(s) 256, 321
EagI CGGCCG 1 cut(s) 321
EclXI CGGCCG 1 cut(s) 321
Eco24I GRGCYC 1 cut(s) 227
Eco31I GGTCTC 1 cut(s) 27
Eco52I CGGCCG 1 cut(s) 321
Eco88I CYCGRG 1 cut(s) 144
EcoRII CCWGG 1 cut(s) 226
EcoT38I GRGCYC 1 cut(s) 227
FaeI CATG 1 cut(s) 122
FaiI YATR 4 cut(s) 46, 72, 120, 125
FatI CATG 1 cut(s) 118
FauI CCCGC 1 cut(s) 195
FblI GTMKAC 1 cut(s) 243
Fnu4HI GCNGC 1 cut(s) 321
FokI GGATG 2 cut(s) 12, 170
FriOI GRGCYC 1 cut(s) 227
Fsp4HI GCNGC 1 cut(s) 321
GluI GCNGC 1 cut(s) 321
HaeIII GGCC 5 cut(s) 258, 278, 303, 323, 332
HapII CCGG 5 cut(s) 162, 176, 201, 305, 324
Hin1I GRCGYC 1 cut(s) 166
Hin1II CATG 1 cut(s) 122
HincII GTYRAC 1 cut(s) 244
HindII GTYRAC 1 cut(s) 244
HindIII AAGCTT 1 cut(s) 310
HpaII CCGG 5 cut(s) 162, 176, 201, 305, 324
Hpy166II GTNNAC 1 cut(s) 244
Hpy188I TCNGA 1 cut(s) 33
Hpy188III TCNNGA 3 cut(s) 119, 162, 170
Hpy8I GTNNAC 1 cut(s) 244
Hpy99I CGWCG 1 cut(s) 171
HpyCH4IV ACGT 2 cut(s) 93, 166
HpyF10VI GCNNNNNNNGC 2 cut(s) 309, 329
HpyF3I CTNAG 2 cut(s) 30, 282
HpySE526I ACGT 2 cut(s) 93, 166
Hsp92I GRCGYC 1 cut(s) 166
Hsp92II CATG 1 cut(s) 122
Kpn2I TCCGGA 1 cut(s) 161
KroI GCCGGC 1 cut(s) 323
KroNI GCCGGC 1 cut(s) 325
Kzo9I GATC 1 cut(s) 106
LmnI GCTCC 2 cut(s) 8, 222
LweI GCATC 2 cut(s) 199, 301
MaeII ACGT 2 cut(s) 93, 166
MalI GATC 1 cut(s) 108
MboI GATC 1 cut(s) 106
MboII GAAGA 5 cut(s) 26, 46, 56, 107, 200
MflI RGATCY 1 cut(s) 106
MhlI GDGCHC 1 cut(s) 227
MluCI AATT 3 cut(s) 133, 213, 232
MnlI CCTC 2 cut(s) 39, 257
MroI TCCGGA 1 cut(s) 161
MroNI GCCGGC 1 cut(s) 323
MseI TTAA 2 cut(s) 314, 343
MspI CCGG 5 cut(s) 162, 176, 201, 305, 324
MspR9I CCNGG 2 cut(s) 228, 305
MvaI CCWGG 1 cut(s) 228
MwoI GCNNNNNNNGC 2 cut(s) 309, 329
NaeI GCCGGC 1 cut(s) 325
NciI CCSGG 1 cut(s) 305
NdeII GATC 1 cut(s) 106
NgoMIV GCCGGC 1 cut(s) 323
NlaIII CATG 1 cut(s) 122
NlaIV GGNNCC 2 cut(s) 10, 224
NspV TTCGAA 1 cut(s) 211
PagI TCATGA 1 cut(s) 118
PdiI GCCGGC 1 cut(s) 325
PinAI ACCGGT 2 cut(s) 175, 200
PkrI GCNGC 1 cut(s) 322
Psp6I CCWGG 1 cut(s) 226
PspGI CCWGG 1 cut(s) 226
PspN4I GGNNCC 2 cut(s) 10, 224
PspPI GGNCC 3 cut(s) 276, 302, 331
PsuI RGATCY 1 cut(s) 106
SalI GTCGAC 1 cut(s) 242
SaqAI TTAA 2 cut(s) 314, 343
SatI GCNGC 1 cut(s) 321
Sau3AI GATC 1 cut(s) 106
Sau96I GGNCC 3 cut(s) 276, 302, 331
ScrFI CCNGG 2 cut(s) 228, 305
SduI GDGCHC 1 cut(s) 227
SetI ASST 6 cut(s) 88, 96, 169, 256, 268, 314
SfaNI GCATC 2 cut(s) 199, 301
SfiI GGCCNNNNNGGCC 1 cut(s) 329
SfuI TTCGAA 1 cut(s) 211
Sse9I AATT 3 cut(s) 133, 213, 232
SsiI CCGC 2 cut(s) 188, 320
StyD4I CCNGG 2 cut(s) 226, 303
TaiI ACGT 2 cut(s) 96, 169
TaqI TCGA 3 cut(s) 169, 211, 243
TasI AATT 3 cut(s) 133, 213, 232
TauI GCSGC 1 cut(s) 323
Tru1I TTAA 2 cut(s) 314, 343
Tru9I TTAA 2 cut(s) 314, 343
TspDTI ATGAA 1 cut(s) 107
XmiI GTMKAC 1 cut(s) 243
ZraI GACGTC 1 cut(s) 167
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.