Rmu_sc0004952.1_g000009

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004952.1
OG0020601
Physical Location & Seq
Forward (+)
31379 .. 31864
486 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 486 bp
atgaaggttttcgaagatgtgaccaaacactgtgacgatgagaagttgagaattcaatttgacatggtttggggggtacgactccttagtaatcaaattgcaattcgagtgttcagttttgcggtagattctcgctttcttgatgaagcgagagagctctttaagcctttctctgatcaggccatactgtttgaactggcggtcttcaccatggtcactatggcctactccggggctggcaagaccaaggatgctcacaaggtctaccagcacatgttaggcaccggtgttacccccacctcctacacttacactacattcatcaccgttggtggtggggttgtccccaactcctatacttactcggttttaatcaagggactcgatgctgaccccaaattttttggagatgctaagaactacttgcttgagacgatggacaaggacaaggccataagaagtcgattctatattgaaatgtgttga
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

161

Amino Acids

18.33

Weight (kDa)

6.29

Isoelectric Point (pI)

18.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 74 - 109 2.5e-07 PPR repeat family
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: OG0020601)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr7g0230641
rosa_laevigata RLG00000001021
rosa_multiflora Rmu_co8057968.1_g000001 Rmu_sc0002222.1_g000013 Rmu_sc0004952.1_g000009 Rmu_sc0009140.1_g000012

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 281
AccI GTMKAC 1 cut(s) 264
AciI CCGC 2 cut(s) 122, 200
AcsI RAATTY 2 cut(s) 51, 398
AfaI GTAC 1 cut(s) 78
AfiI CCNNNNNNNGG 1 cut(s) 231
AflIII ACRYGT 1 cut(s) 273
AgeI ACCGGT 1 cut(s) 284
AgsI TTSAA 3 cut(s) 56, 194, 476
AluBI AGCT 1 cut(s) 157
AluI AGCT 1 cut(s) 157
Alw21I GWGCWC 1 cut(s) 159
Alw26I GTCTC 1 cut(s) 425
AoxI GGCC 3 cut(s) 180, 222, 450
ApoI RAATTY 2 cut(s) 51, 398
AsiGI ACCGGT 1 cut(s) 284
Asp700I GAANNNNTTC 1 cut(s) 8
AsuC2I CCSGG 1 cut(s) 232
AsuHPI GGTGA 2 cut(s) 199, 316
AsuII TTCGAA 1 cut(s) 12
BanI GGYRCC 1 cut(s) 281
BanII GRGCYC 1 cut(s) 159
BbsI GAAGAC 1 cut(s) 196
Bbv12I GWGCWC 1 cut(s) 159
BccI CCATC 1 cut(s) 430
BclI TGATCA 1 cut(s) 175
BcnI CCSGG 1 cut(s) 232
BcoDI GTCTC 1 cut(s) 425
Bme1390I CCNGG 1 cut(s) 232
BmiI GGNNCC 1 cut(s) 283
BmrFI CCNGG 1 cut(s) 232
BmsI GCATC 3 cut(s) 241, 376, 400
BpiI GAAGAC 1 cut(s) 196
Bpu14I TTCGAA 1 cut(s) 12
BpuEI CTTGAG 1 cut(s) 449
BpuMI CCSGG 1 cut(s) 232
BsaJI CCNNGG 3 cut(s) 210, 231, 246
BsaWI WCCGGW 1 cut(s) 284
Bsc4I CCNNNNNNNGG 1 cut(s) 231
Bse118I RCCGGY 1 cut(s) 284
Bse1I ACTGG 1 cut(s) 201
BseDI CCNNGG 3 cut(s) 210, 231, 246
BseGI GGATG 1 cut(s) 256
BseLI CCNNNNNNNGG 1 cut(s) 231
BseNI ACTGG 1 cut(s) 201
BshFI GGCC 3 cut(s) 182, 224, 452
BshNI GGYRCC 1 cut(s) 281
BshTI ACCGGT 1 cut(s) 284
BsiHKAI GWGCWC 1 cut(s) 159
BsiSI CCGG 2 cut(s) 231, 285
BslFI GGGAC 2 cut(s) 329, 393
BslI CCNNNNNNNGG 1 cut(s) 231
BsmAI GTCTC 1 cut(s) 425
BsmBI CGTCTC 1 cut(s) 425
BsmFI GGGAC 2 cut(s) 329, 393
BsnI GGCC 3 cut(s) 182, 224, 452
Bsp119I TTCGAA 1 cut(s) 12
Bsp1286I GDGCHC 1 cut(s) 159
Bsp143I GATC 1 cut(s) 175
Bsp19I CCATGG 1 cut(s) 210
BspACI CCGC 2 cut(s) 122, 200
BspANI GGCC 3 cut(s) 182, 224, 452
BspLI GGNNCC 1 cut(s) 283
BspT104I TTCGAA 1 cut(s) 12
BspT107I GGYRCC 1 cut(s) 281
BsrFI RCCGGY 1 cut(s) 284
BsrI ACTGG 1 cut(s) 201
BssAI RCCGGY 1 cut(s) 284
BssECI CCNNGG 3 cut(s) 210, 231, 246
BssMI GATC 1 cut(s) 175
BssT1I CCWWGG 2 cut(s) 210, 246
Bst4CI ACNGT 3 cut(s) 32, 189, 328
BstBI TTCGAA 1 cut(s) 12
BstC8I GCNNGC 1 cut(s) 238
BstDEI CTNAG 2 cut(s) 86, 414
BstDSI CCRYGG 1 cut(s) 210
BstF5I GGATG 1 cut(s) 256
BstKTI GATC 1 cut(s) 178
BstMAI GTCTC 1 cut(s) 425
BstMBI GATC 1 cut(s) 175
BstMWI GCNNNNNNNGC 1 cut(s) 163
BstNSI RCATGY 1 cut(s) 277
BstSCI CCNGG 1 cut(s) 230
BstV2I GAAGAC 1 cut(s) 196
BsuRI GGCC 3 cut(s) 182, 224, 452
BtgI CCRYGG 1 cut(s) 210
BtsCI GGATG 1 cut(s) 256
BtsIMutI CAGTG 1 cut(s) 28
Cac8I GCNNGC 1 cut(s) 238
Cfr10I RCCGGY 1 cut(s) 284
Csp6I GTAC 1 cut(s) 77
CspAI ACCGGT 1 cut(s) 284
CviAII CATG 3 cut(s) 64, 211, 274
CviJI RGCY 6 cut(s) 157, 166, 182, 224, 236, 452
CviKI_1 RGCY 6 cut(s) 157, 166, 182, 224, 236, 452
CviQI GTAC 1 cut(s) 77
DdeI CTNAG 2 cut(s) 86, 414
DpnI GATC 1 cut(s) 177
DpnII GATC 1 cut(s) 175
Ecl136II GAGCTC 1 cut(s) 157
Eco130I CCWWGG 2 cut(s) 210, 246
Eco24I GRGCYC 1 cut(s) 159
Eco53kI GAGCTC 1 cut(s) 157
EcoICRI GAGCTC 1 cut(s) 157
EcoRI GAATTC 1 cut(s) 51
EcoT14I CCWWGG 2 cut(s) 210, 246
EcoT38I GRGCYC 1 cut(s) 159
ErhI CCWWGG 2 cut(s) 210, 246
Esp3I CGTCTC 1 cut(s) 425
FaeI CATG 3 cut(s) 67, 214, 277
FaiI YATR 8 cut(s) 65, 185, 212, 221, 275, 357, 455, 471
FalI AAGNNNNNCTT 2 cut(s) 407, 439
FaqI GGGAC 2 cut(s) 329, 393
FatI CATG 3 cut(s) 63, 210, 273
FbaI TGATCA 1 cut(s) 175
FblI GTMKAC 1 cut(s) 264
FokI GGATG 1 cut(s) 263
FriOI GRGCYC 1 cut(s) 159
HaeIII GGCC 3 cut(s) 182, 224, 452
HapII CCGG 2 cut(s) 231, 285
Hin1II CATG 3 cut(s) 67, 214, 277
HinfI GANTC 4 cut(s) 81, 128, 381, 465
HpaII CCGG 2 cut(s) 231, 285
HphI GGTGA 2 cut(s) 199, 316
Hpy166II GTNNAC 1 cut(s) 265
Hpy188I TCNGA 1 cut(s) 175
Hpy188III TCNNGA 1 cut(s) 140
Hpy8I GTNNAC 1 cut(s) 265
HpyCH4III ACNGT 3 cut(s) 32, 189, 328
HpyCH4V TGCA 1 cut(s) 101
HpyF10VI GCNNNNNNNGC 1 cut(s) 163
HpyF3I CTNAG 2 cut(s) 86, 414
Hsp92II CATG 3 cut(s) 67, 214, 277
Ksp22I TGATCA 1 cut(s) 175
Kzo9I GATC 1 cut(s) 175
LpnPI CCDG 6 cut(s) 164, 182, 222, 244, 281, 298
LweI GCATC 3 cut(s) 241, 376, 400
MaeIII GTNAC 4 cut(s) 19, 32, 214, 289
MalI GATC 1 cut(s) 177
MboI GATC 1 cut(s) 175
MboII GAAGA 2 cut(s) 26, 196
MhlI GDGCHC 1 cut(s) 159
MluCI AATT 5 cut(s) 51, 56, 96, 102, 398
MlyI GAGTC 2 cut(s) 75, 375
MnlI CCTC 1 cut(s) 310
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 2 cut(s) 162, 371
MspI CCGG 2 cut(s) 231, 285
MspR9I CCNGG 1 cut(s) 232
MwoI GCNNNNNNNGC 1 cut(s) 163
NciI CCSGG 1 cut(s) 232
NcoI CCATGG 1 cut(s) 210
NdeII GATC 1 cut(s) 175
NlaIII CATG 3 cut(s) 67, 214, 277
NlaIV GGNNCC 1 cut(s) 283
NmuCI GTSAC 3 cut(s) 19, 32, 214
NspI RCATGY 1 cut(s) 277
NspV TTCGAA 1 cut(s) 12
PciI ACATGT 1 cut(s) 273
PdmI GAANNNNTTC 1 cut(s) 8
PfeI GAWTC 2 cut(s) 128, 465
PinAI ACCGGT 1 cut(s) 284
PleI GAGTC 2 cut(s) 75, 375
PpsI GAGTC 2 cut(s) 75, 375
PscI ACATGT 1 cut(s) 273
Psp124BI GAGCTC 1 cut(s) 159
PspN4I GGNNCC 1 cut(s) 283
RsaI GTAC 1 cut(s) 78
RsaNI GTAC 1 cut(s) 77
SacI GAGCTC 1 cut(s) 159
SaqAI TTAA 2 cut(s) 162, 371
Sau3AI GATC 1 cut(s) 175
SchI GAGTC 2 cut(s) 75, 375
ScrFI CCNGG 1 cut(s) 232
SduI GDGCHC 1 cut(s) 159
SetI ASST 4 cut(s) 9, 159, 264, 302
SfaNI GCATC 3 cut(s) 241, 376, 400
SfuI TTCGAA 1 cut(s) 12
SgrAI CRCCGGYG 1 cut(s) 284
SmlI CTYRAG 1 cut(s) 428
SmoI CTYRAG 1 cut(s) 428
Sse9I AATT 5 cut(s) 51, 56, 96, 102, 398
SsiI CCGC 2 cut(s) 122, 200
SstI GAGCTC 1 cut(s) 159
StyD4I CCNGG 1 cut(s) 230
StyI CCWWGG 2 cut(s) 210, 246
TaaI ACNGT 3 cut(s) 32, 189, 328
TaqI TCGA 4 cut(s) 12, 106, 384, 463
TasI AATT 5 cut(s) 51, 56, 96, 102, 398
TfiI GAWTC 2 cut(s) 128, 465
Tru1I TTAA 2 cut(s) 162, 371
Tru9I TTAA 2 cut(s) 162, 371
TscAI CASTG 1 cut(s) 35
TseFI GTSAC 3 cut(s) 19, 32, 214
Tsp45I GTSAC 3 cut(s) 19, 32, 214
TspDTI ATGAA 3 cut(s) 17, 159, 310
TspRI CASTG 1 cut(s) 35
XapI RAATTY 2 cut(s) 51, 398
XceI RCATGY 1 cut(s) 277
XcmI CCANNNNNNNNNTGG 1 cut(s) 217
XmiI GTMKAC 1 cut(s) 264
XmnI GAANNNNTTC 1 cut(s) 8
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.