Rmu_sc0004888.1_g000004

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004888.1
OG0015541
Physical Location & Seq
Forward (+)
32014 .. 32487
474 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 474 bp
atggaacacgagtttgacatcaggccccgaatagagcattatgggtgcatggttgatcttctaggtcgagccgggaagttggaagaagcgctcaggtttgtagaaaacatgcatttggagccaaatgcggtcatttgggccagtctactgggttcctgtaagattcatggaaatggagatctggtggagtctgtaaccaggcggattatagagcaggaaccagcaaatcccagctatataactctagtttccaatttgagtgcatcagttggacagtggaaagatgtgctgatctatcggcaagttatgagacaacagggaatagaaaaggttcctggttgtagctcaatccaagtggggaacaagatagatgagtttcttgcccaagatacaaggcgcgaggaaagaaaagaaatctatgaagttttgaattgtttaaatgaacaggtggcagcagtttctgatggactatga
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 PPR_3

Protein Analysis

157

Amino Acids

17.77

Weight (kDa)

5.13

Isoelectric Point (pI)

49.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
E_motif PF20431 57 - 118 8e-14 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: OG0015541)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g14810
malus_domestica MD14G1026500.v1.1
prunus_persica Prupe.8G017600_v2.0.a1
pyrus_communis pycom14g02530
rosa_chinensis RchiOBHm_Chr6g0277401
rosa_laevigata RLG00000013305
rosa_multiflora Rmu_co8455877.1_g000001 Rmu_sc0000030.1_g000006 Rmu_sc0004888.1_g000004
rosa_roxburghii Rroxscaffold_7G00191380
rosa_rugosa Rorug06G0107800 Rorug06G0107800 Rorug06G0107800 Rorug06G0107900
rosa_samantha Rh6DG215400
rosa_wichuraiana Rw6G019160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 145
AccII CGCG 1 cut(s) 399
AciI CCGC 2 cut(s) 128, 202
AfeI AGCGCT 1 cut(s) 90
AgsI TTSAA 1 cut(s) 430
AjnI CCWGG 2 cut(s) 197, 334
AluBI AGCT 2 cut(s) 234, 345
AluI AGCT 2 cut(s) 234, 345
Alw26I GTCTC 1 cut(s) 304
AlwNI CAGNNNCTG 1 cut(s) 461
Aor51HI AGCGCT 1 cut(s) 90
AoxI GGCC 2 cut(s) 23, 138
ApeKI GCWGC 1 cut(s) 452
Asp700I GAANNNNTTC 1 cut(s) 330
AspLEI GCGC 2 cut(s) 91, 399
AspS9I GGNCC 2 cut(s) 24, 138
AsuC2I CCSGG 1 cut(s) 73
BauI CACGAG 1 cut(s) 8
BbvI GCAGC 1 cut(s) 464
BccI CCATC 1 cut(s) 458
BciT130I CCWGG 2 cut(s) 199, 336
BcnI CCSGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 304
BfaI CTAG 2 cut(s) 62, 245
BfoI RGCGCY 1 cut(s) 92
BglII AGATCT 1 cut(s) 178
BisI GCNGC 1 cut(s) 453
BlsI GCNGC 1 cut(s) 454
Bme1390I CCNGG 3 cut(s) 73, 199, 336
BmgT120I GGNCC 2 cut(s) 24, 138
BmiI GGNNCC 5 cut(s) 26, 120, 154, 219, 333
BmrFI CCNGG 3 cut(s) 73, 199, 336
BmrI ACTGGG 1 cut(s) 158
BmsI GCATC 1 cut(s) 272
BmuI ACTGGG 1 cut(s) 158
Bpu10I CCTNAGC 1 cut(s) 92
BpuMI CCSGG 1 cut(s) 73
BsaXI ACNNNNNCTCC 2 cut(s) 168, 198
Bse1I ACTGG 2 cut(s) 141, 153
BseBI CCWGG 2 cut(s) 199, 336
BseMII CTCAG 1 cut(s) 106
BseNI ACTGG 2 cut(s) 141, 153
BseXI GCAGC 1 cut(s) 464
BseYI CCCAGC 1 cut(s) 230
Bsh1236I CGCG 1 cut(s) 399
BshFI GGCC 2 cut(s) 25, 140
BsiSI CCGG 1 cut(s) 72
BsmAI GTCTC 1 cut(s) 304
BsnI GGCC 2 cut(s) 25, 140
Bsp143I GATC 3 cut(s) 55, 178, 291
BspACI CCGC 2 cut(s) 128, 202
BspANI GGCC 2 cut(s) 25, 140
BspCNI CTCAG 1 cut(s) 105
BspFNI CGCG 1 cut(s) 399
BspLI GGNNCC 5 cut(s) 26, 120, 154, 219, 333
BsrI ACTGG 2 cut(s) 141, 153
BssMI GATC 3 cut(s) 55, 178, 291
BssSI CACGAG 1 cut(s) 8
Bst2BI CACGAG 1 cut(s) 8
Bst2UI CCWGG 2 cut(s) 199, 336
Bst4CI ACNGT 1 cut(s) 276
BstDEI CTNAG 1 cut(s) 92
BstFNI CGCG 1 cut(s) 399
BstH2I RGCGCY 1 cut(s) 92
BstHHI GCGC 2 cut(s) 91, 399
BstKTI GATC 3 cut(s) 58, 181, 294
BstMAI GTCTC 1 cut(s) 304
BstMBI GATC 3 cut(s) 55, 178, 291
BstMWI GCNNNNNNNGC 1 cut(s) 118
BstNI CCWGG 2 cut(s) 199, 336
BstNSI RCATGY 1 cut(s) 112
BstSCI CCNGG 3 cut(s) 71, 197, 334
BstUI CGCG 1 cut(s) 399
BstV1I GCAGC 1 cut(s) 464
BstX2I RGATCY 1 cut(s) 178
BstXI CCANNNNNNTGG 1 cut(s) 148
BstYI RGATCY 1 cut(s) 178
BsuRI GGCC 2 cut(s) 25, 140
BtsIMutI CAGTG 1 cut(s) 281
CaiI CAGNNNCTG 1 cut(s) 461
CfoI GCGC 2 cut(s) 91, 399
Cfr13I GGNCC 2 cut(s) 24, 138
CspCI CAANNNNNGTGG 2 cut(s) 336, 371
CviAII CATG 3 cut(s) 49, 109, 167
CviJI RGCY 6 cut(s) 25, 71, 121, 140, 234, 345
CviKI_1 RGCY 6 cut(s) 25, 71, 121, 140, 234, 345
DdeI CTNAG 1 cut(s) 92
DpnI GATC 3 cut(s) 57, 180, 293
DpnII GATC 3 cut(s) 55, 178, 291
DraI TTTAAA 1 cut(s) 438
EciI GGCGGA 1 cut(s) 217
Eco47III AGCGCT 1 cut(s) 90
EcoO109I RGGNCCY 1 cut(s) 24
EcoRII CCWGG 2 cut(s) 197, 334
EcoT22I ATGCAT 1 cut(s) 114
FaeI CATG 3 cut(s) 52, 112, 170
FatI CATG 3 cut(s) 48, 108, 166
FblI GTMKAC 1 cut(s) 145
Fnu4HI GCNGC 1 cut(s) 453
Fsp4HI GCNGC 1 cut(s) 453
FspBI CTAG 2 cut(s) 62, 245
GlaI GCGC 2 cut(s) 90, 398
GluI GCNGC 1 cut(s) 453
GsaI CCCAGC 1 cut(s) 234
HaeII RGCGCY 1 cut(s) 92
HaeIII GGCC 2 cut(s) 25, 140
HapII CCGG 1 cut(s) 72
HhaI GCGC 2 cut(s) 91, 399
Hin1II CATG 3 cut(s) 52, 112, 170
Hin6I GCGC 2 cut(s) 89, 397
HinP1I GCGC 2 cut(s) 89, 397
HinfI GANTC 2 cut(s) 163, 188
HpaII CCGG 1 cut(s) 72
Hpy166II GTNNAC 1 cut(s) 146
Hpy188I TCNGA 1 cut(s) 463
Hpy8I GTNNAC 1 cut(s) 146
HpyCH4III ACNGT 1 cut(s) 276
HpyCH4V TGCA 3 cut(s) 48, 112, 263
HpyF10VI GCNNNNNNNGC 1 cut(s) 118
HpyF3I CTNAG 1 cut(s) 92
Hsp92II CATG 3 cut(s) 52, 112, 170
HspAI GCGC 2 cut(s) 89, 397
Kzo9I GATC 3 cut(s) 55, 178, 291
LmnI GCTCC 1 cut(s) 118
Lsp1109I GCAGC 1 cut(s) 464
LweI GCATC 1 cut(s) 272
MaeI CTAG 2 cut(s) 62, 245
MaeIII GTNAC 1 cut(s) 193
MalI GATC 3 cut(s) 57, 180, 293
MboI GATC 3 cut(s) 55, 178, 291
MboII GAAGA 2 cut(s) 50, 95
MflI RGATCY 1 cut(s) 178
MluCI AATT 2 cut(s) 253, 430
MlyI GAGTC 1 cut(s) 197
MmeI TCCRAC 2 cut(s) 60, 250
MnlI CCTC 1 cut(s) 394
Mph1103I ATGCAT 1 cut(s) 114
MroXI GAANNNNTTC 1 cut(s) 330
MseI TTAA 1 cut(s) 437
MslI CAYNNNNRTG 1 cut(s) 171
MspI CCGG 1 cut(s) 72
MspR9I CCNGG 3 cut(s) 73, 199, 336
MvaI CCWGG 2 cut(s) 199, 336
MvnI CGCG 1 cut(s) 399
MwoI GCNNNNNNNGC 1 cut(s) 118
NciI CCSGG 1 cut(s) 73
NdeII GATC 3 cut(s) 55, 178, 291
NlaIII CATG 3 cut(s) 52, 112, 170
NlaIV GGNNCC 5 cut(s) 26, 120, 154, 219, 333
NsiI ATGCAT 1 cut(s) 114
NspI RCATGY 1 cut(s) 112
PdmI GAANNNNTTC 1 cut(s) 330
PfeI GAWTC 1 cut(s) 163
PkrI GCNGC 1 cut(s) 454
PleI GAGTC 1 cut(s) 196
PpsI GAGTC 1 cut(s) 196
Psp6I CCWGG 2 cut(s) 197, 334
PspFI CCCAGC 1 cut(s) 230
PspGI CCWGG 2 cut(s) 197, 334
PspN4I GGNNCC 5 cut(s) 26, 120, 154, 219, 333
PspPI GGNCC 2 cut(s) 24, 138
PstNI CAGNNNCTG 1 cut(s) 461
PsuI RGATCY 1 cut(s) 178
RseI CAYNNNNRTG 1 cut(s) 171
SaqAI TTAA 1 cut(s) 437
SatI GCNGC 1 cut(s) 453
Sau3AI GATC 3 cut(s) 55, 178, 291
Sau96I GGNCC 2 cut(s) 24, 138
SchI GAGTC 1 cut(s) 197
ScrFI CCNGG 3 cut(s) 73, 199, 336
SetI ASST 6 cut(s) 67, 98, 236, 333, 347, 450
SfaNI GCATC 1 cut(s) 272
SmiMI CAYNNNNRTG 1 cut(s) 171
Sse9I AATT 2 cut(s) 253, 430
SsiI CCGC 2 cut(s) 128, 202
SspMI CTAG 2 cut(s) 62, 245
StyD4I CCNGG 3 cut(s) 71, 197, 334
TaaI ACNGT 1 cut(s) 276
TaqI TCGA 1 cut(s) 67
TasI AATT 2 cut(s) 253, 430
TfiI GAWTC 1 cut(s) 163
Tru1I TTAA 1 cut(s) 437
Tru9I TTAA 1 cut(s) 437
TscAI CASTG 1 cut(s) 281
TseI GCWGC 1 cut(s) 452
TspDTI ATGAA 3 cut(s) 155, 435, 456
TspRI CASTG 1 cut(s) 281
XceI RCATGY 1 cut(s) 112
XmiI GTMKAC 1 cut(s) 145
XmnI GAANNNNTTC 1 cut(s) 330
XspI CTAG 2 cut(s) 62, 245
Zsp2I ATGCAT 1 cut(s) 114
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.