RchiOBHm_Chr3g0459231

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0009745
Physical Location & Seq
Reverse (-)
7708362 .. 7709725
1364 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ42582

Sequence Viewer

Length: 930 bp
ATGGCCGCCAGATTGGTATCTCGCTCCTCTCTTCACAACCAATCCAATCCCTTCTCCCTTTTCTTCACCAAGCTTCACACAACCACAGCTCCAATCAACCACACCCACAAACTCATCTCTTTCTCTTCTTCTTCTCCTTCATCCACAACAACCCATAACAGCAGGTCTCTTCTTCCTCCGCCACCATTCTCTTCCTTTCGCCTCTTCAGCTCCTCCGAACCCAACACCAAGCGTTCCACCCTCGTCAATTTCTCTCTCCCCTCCGACGACGAAGACGACGACGCCGATCAGAAACCAAACGACAAGTCGTCGTCGTCGTCCCTCCCTCCTCCCTACGACCCATTCAACAAGAAGCCGGCGATCGAAGACCCAGAAGACCCAAAAGACTTGCAGGAAGTGTTCCACAAGATGCGCACAGATGGGCTCCAAAACAATGCAGTCAAGATGTTCGACGCTTTGTCCAAGGACGGCCGCACCCACGAGGCCTTAGAGCTCTTCGCCCAGATCAAAGACAAGGGCCACATGCCCGACGTGGTGGCCCACACCGCAGTCATCGAGGCCTACGCCGCCGCCGGAAAGCCCAAGGAATCTCTCAAGGTGTACATGCGGATGTTGGCGTGTGGGGTTGCACCAAATGCCTACACTTATAGCGTGCTCATCAAGGCACTCGCTGCCGACGCCAGTTTCGTTGGGGATGCGAAGAAGTATCTGATAGAGATGATGGGGAAGGGAATGCGGCCCAATGCCGGGACGTGCGTGGCGGTGTTTGAGGCGTTTGCGGCCGAGGAGAGGGTGGAGGATGGGAGGGAGTTGCTGGAGGAGATGAAAGGGAAAGGGTTTGTGGCGGACGAGCAGGCGGTGAGGGAGGTGCTCAAGGGTAGAAGAGGAGCTGTGGTTAGAAGTGTCATCAACCTTCTCTTTGGAAAGTAG
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 Ribosomal_L15e

Protein Analysis

309

Amino Acids

33.91

Weight (kDa)

7.13

Isoelectric Point (pI)

56.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 149 - 189 3.5e-06 PPR repeat family
PPR_long PF17177 152 - 292 9.8e-07 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 156 - 265 1.2e-07 Fungal tetratrico peptide repeats
PPR_3 PF13812 165 - 223 2.6e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 176 - 224 1.2e-12 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 413
Acc36I ACCTGC 1 cut(s) 153
AcoI YGGCCR 3 cut(s) 3, 469, 780
AcuI CTGAAG 1 cut(s) 190
AcyI GRCGYC 2 cut(s) 282, 678
AfaI GTAC 1 cut(s) 602
AfiI CCNNNNNNNGG 3 cut(s) 746, 747, 789
AgsI TTSAA 1 cut(s) 346
AhdI GACNNNNNGTC 2 cut(s) 307, 457
AjiI CACGTC 2 cut(s) 532, 753
AluBI AGCT 5 cut(s) 73, 89, 210, 493, 890
AluI AGCT 5 cut(s) 73, 89, 210, 493, 890
Alw21I GWGCWC 3 cut(s) 495, 657, 873
Alw26I GTCTC 1 cut(s) 171
AoxI GGCC 8 cut(s) 3, 469, 483, 517, 537, 558, 737, 780
ApeKI GCWGC 1 cut(s) 671
ArsI GACNNNNNNTTYG 4 cut(s) 290, 322, 668, 700
AspLEI GCGC 1 cut(s) 414
AspS9I GGNCC 3 cut(s) 517, 538, 738
AsuC2I CCSGG 1 cut(s) 748
AsuHPI GGTGA 2 cut(s) 58, 871
BanII GRGCYC 2 cut(s) 426, 495
BauI CACGAG 1 cut(s) 479
BbsI GAAGAC 3 cut(s) 279, 372, 381
Bbv12I GWGCWC 3 cut(s) 495, 657, 873
BbvI GCAGC 1 cut(s) 658
BccI CCATC 3 cut(s) 413, 715, 794
BceAI ACGGC 1 cut(s) 484
BcnI CCSGG 1 cut(s) 748
BcoDI GTCTC 1 cut(s) 171
BfuAI ACCTGC 1 cut(s) 153
BisI GCNGC 7 cut(s) 6, 472, 567, 570, 672, 737, 780
BlsI GCNGC 7 cut(s) 7, 473, 568, 571, 673, 738, 781
Bme1390I CCNGG 1 cut(s) 748
BmeRI GACNNNNNGTC 2 cut(s) 307, 457
BmgBI CACGTC 2 cut(s) 532, 753
BmgT120I GGNCC 3 cut(s) 517, 538, 738
BmiI GGNNCC 1 cut(s) 425
BmrFI CCNGG 1 cut(s) 748
BmsI GCATC 2 cut(s) 399, 685
BpiI GAAGAC 3 cut(s) 279, 372, 381
BpmI CTGGAG 1 cut(s) 836
BpuEI CTTGAG 2 cut(s) 578, 857
BpuMI CCSGG 1 cut(s) 748
BsaBI GATNNNNATC 1 cut(s) 16
BsaHI GRCGYC 2 cut(s) 282, 678
BsaI GGTCTC 1 cut(s) 171
BsaJI CCNNGG 3 cut(s) 462, 582, 783
BsaXI ACNNNNNCTCC 4 cut(s) 73, 103, 879, 909
Bsc4I CCNNNNNNNGG 3 cut(s) 746, 747, 789
Bse118I RCCGGY 1 cut(s) 355
Bse1I ACTGG 1 cut(s) 681
Bse8I GATNNNNATC 1 cut(s) 16
BseDI CCNNGG 3 cut(s) 462, 582, 783
BseGI GGATG 4 cut(s) 140, 615, 700, 805
BseJI GATNNNNATC 1 cut(s) 16
BseLI CCNNNNNNNGG 3 cut(s) 746, 747, 789
BseNI ACTGG 1 cut(s) 681
BseRI GAGGAG 6 cut(s) 16, 202, 318, 800, 833, 900
BseX3I CGGCCG 2 cut(s) 469, 780
BseXI GCAGC 1 cut(s) 658
Bsh1285I CGRYCG 3 cut(s) 363, 472, 783
BshFI GGCC 8 cut(s) 5, 471, 485, 519, 539, 560, 739, 782
BsiEI CGRYCG 3 cut(s) 363, 472, 783
BsiHKAI GWGCWC 3 cut(s) 495, 657, 873
BsiSI CCGG 3 cut(s) 356, 573, 747
BslFI GGGAC 2 cut(s) 304, 763
BslI CCNNNNNNNGG 3 cut(s) 746, 747, 789
BsmAI GTCTC 1 cut(s) 171
BsmFI GGGAC 2 cut(s) 304, 763
BsmI GAATGC 1 cut(s) 738
BsnI GGCC 8 cut(s) 5, 471, 485, 519, 539, 560, 739, 782
Bso31I GGTCTC 1 cut(s) 171
Bsp1286I GDGCHC 4 cut(s) 426, 495, 657, 873
Bsp1407I TGTACA 1 cut(s) 600
Bsp143I GATC 3 cut(s) 286, 360, 504
BspANI GGCC 8 cut(s) 5, 471, 485, 519, 539, 560, 739, 782
BspLI GGNNCC 1 cut(s) 425
BspMI ACCTGC 1 cut(s) 153
BspQI GCTCTTC 1 cut(s) 500
BspTNI GGTCTC 1 cut(s) 171
BsrFI RCCGGY 1 cut(s) 355
BsrGI TGTACA 1 cut(s) 600
BsrI ACTGG 1 cut(s) 681
BssAI RCCGGY 1 cut(s) 355
BssECI CCNNGG 3 cut(s) 462, 582, 783
BssMI GATC 3 cut(s) 286, 360, 504
BssNI GRCGYC 2 cut(s) 282, 678
BssSI CACGAG 1 cut(s) 479
BssT1I CCWWGG 2 cut(s) 462, 582
Bst2BI CACGAG 1 cut(s) 479
Bst6I CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 500, 877
BstACI GRCGYC 2 cut(s) 282, 678
BstAPI GCANNNNNTGC 2 cut(s) 635, 671
BstAUI TGTACA 1 cut(s) 600
BstC8I GCNNGC 3 cut(s) 357, 653, 855
BstDEI CTNAG 1 cut(s) 487
BstF5I GGATG 4 cut(s) 140, 615, 700, 805
BstHHI GCGC 1 cut(s) 414
BstKTI GATC 3 cut(s) 289, 363, 507
BstMAI GTCTC 1 cut(s) 171
BstMBI GATC 3 cut(s) 286, 360, 504
BstMCI CGRYCG 3 cut(s) 363, 472, 783
BstMWI GCNNNNNNNGC 7 cut(s) 207, 545, 566, 635, 671, 677, 779
BstNSI RCATGY 2 cut(s) 526, 607
BstSCI CCNGG 1 cut(s) 746
BstV1I GCAGC 1 cut(s) 658
BstV2I GAAGAC 3 cut(s) 279, 372, 381
BstZI CGGCCG 2 cut(s) 469, 780
BsuRI GGCC 8 cut(s) 5, 471, 485, 519, 539, 560, 739, 782
BtrI CACGTC 2 cut(s) 532, 753
BtsCI GGATG 4 cut(s) 140, 615, 700, 805
BveI ACCTGC 1 cut(s) 153
Cac8I GCNNGC 3 cut(s) 357, 653, 855
CfoI GCGC 1 cut(s) 414
Cfr10I RCCGGY 1 cut(s) 355
Cfr13I GGNCC 3 cut(s) 517, 538, 738
CseI GACGC 3 cut(s) 290, 461, 686
Csp6I GTAC 1 cut(s) 601
CviAII CATG 2 cut(s) 523, 604
CviQI GTAC 1 cut(s) 601
DdeI CTNAG 1 cut(s) 487
DpnI GATC 3 cut(s) 288, 362, 506
DpnII GATC 3 cut(s) 286, 360, 504
DriI GACNNNNNGTC 2 cut(s) 307, 457
EaeI YGGCCR 3 cut(s) 3, 469, 780
EagI CGGCCG 2 cut(s) 469, 780
Eam1104I CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 500, 877
Eam1105I GACNNNNNGTC 2 cut(s) 307, 457
EarI CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 500, 877
EciI GGCGGA 2 cut(s) 168, 860
Ecl136II GAGCTC 1 cut(s) 493
EclXI CGGCCG 2 cut(s) 469, 780
Eco130I CCWWGG 2 cut(s) 462, 582
Eco147I AGGCCT 2 cut(s) 485, 560
Eco24I GRGCYC 2 cut(s) 426, 495
Eco31I GGTCTC 1 cut(s) 171
Eco52I CGGCCG 2 cut(s) 469, 780
Eco53kI GAGCTC 1 cut(s) 493
Eco57I CTGAAG 1 cut(s) 190
EcoICRI GAGCTC 1 cut(s) 493
EcoT14I CCWWGG 2 cut(s) 462, 582
EcoT38I GRGCYC 2 cut(s) 426, 495
ErhI CCWWGG 2 cut(s) 462, 582
FaeI CATG 2 cut(s) 526, 607
FaiI YATR 4 cut(s) 156, 524, 605, 648
FaqI GGGAC 2 cut(s) 304, 763
FatI CATG 2 cut(s) 522, 603
Fnu4HI GCNGC 7 cut(s) 6, 472, 567, 570, 672, 737, 780
FokI GGATG 4 cut(s) 127, 622, 707, 812
FriOI GRGCYC 2 cut(s) 426, 495
Fsp4HI GCNGC 7 cut(s) 6, 472, 567, 570, 672, 737, 780
FspAI RTGCGCAY 1 cut(s) 413
FspI TGCGCA 1 cut(s) 413
GlaI GCGC 1 cut(s) 413
GluI GCNGC 7 cut(s) 6, 472, 567, 570, 672, 737, 780
GsuI CTGGAG 1 cut(s) 836
HaeIII GGCC 8 cut(s) 5, 471, 485, 519, 539, 560, 739, 782
HapII CCGG 3 cut(s) 356, 573, 747
HgaI GACGC 3 cut(s) 290, 461, 686
HhaI GCGC 1 cut(s) 414
Hin1I GRCGYC 2 cut(s) 282, 678
Hin1II CATG 2 cut(s) 526, 607
Hin6I GCGC 1 cut(s) 412
HinP1I GCGC 1 cut(s) 412
HindIII AAGCTT 1 cut(s) 71
HinfI GANTC 1 cut(s) 587
HpaII CCGG 3 cut(s) 356, 573, 747
HphI GGTGA 2 cut(s) 58, 871
Hpy166II GTNNAC 1 cut(s) 601
Hpy188I TCNGA 4 cut(s) 217, 265, 291, 711
Hpy188III TCNNGA 1 cut(s) 442
Hpy8I GTNNAC 1 cut(s) 601
HpyAV CCTTC 4 cut(s) 61, 147, 721, 923
HpyCH4IV ACGT 2 cut(s) 531, 752
HpyCH4V TGCA 3 cut(s) 391, 437, 629
HpyF10VI GCNNNNNNNGC 7 cut(s) 207, 545, 566, 635, 671, 677, 779
HpyF3I CTNAG 1 cut(s) 487
HpySE526I ACGT 2 cut(s) 531, 752
Hsp92I GRCGYC 2 cut(s) 282, 678
Hsp92II CATG 2 cut(s) 526, 607
HspAI GCGC 1 cut(s) 412
KroI GCCGGC 1 cut(s) 355
KroNI GCCGGC 1 cut(s) 357
Kzo9I GATC 3 cut(s) 286, 360, 504
LguI GCTCTTC 1 cut(s) 500
LmnI GCTCC 5 cut(s) 29, 94, 215, 429, 887
Lsp1109I GCAGC 1 cut(s) 658
LweI GCATC 2 cut(s) 399, 685
MaeII ACGT 2 cut(s) 531, 752
MalI GATC 3 cut(s) 288, 362, 506
MboI GATC 3 cut(s) 286, 360, 504
MhlI GDGCHC 4 cut(s) 426, 495, 657, 873
MluCI AATT 1 cut(s) 247
MmeI TCCRAC 1 cut(s) 288
MroNI GCCGGC 1 cut(s) 355
MslI CAYNNNNRTG 1 cut(s) 608
MspI CCGG 3 cut(s) 356, 573, 747
MspR9I CCNGG 1 cut(s) 748
Mva1269I GAATGC 1 cut(s) 738
MwoI GCNNNNNNNGC 7 cut(s) 207, 545, 566, 635, 671, 677, 779
NaeI GCCGGC 1 cut(s) 357
NciI CCSGG 1 cut(s) 748
NdeII GATC 3 cut(s) 286, 360, 504
NgoMIV GCCGGC 1 cut(s) 355
NlaIII CATG 2 cut(s) 526, 607
NlaIV GGNNCC 1 cut(s) 425
NmeAIII GCCGAG 1 cut(s) 808
NsbI TGCGCA 1 cut(s) 413
NspI RCATGY 2 cut(s) 526, 607
PceI AGGCCT 2 cut(s) 485, 560
PciSI GCTCTTC 1 cut(s) 500
PcsI WCGNNNNNNNCGW 5 cut(s) 273, 276, 282, 314, 684
PctI GAATGC 1 cut(s) 738
PdiI GCCGGC 1 cut(s) 357
PfeI GAWTC 1 cut(s) 587
PkrI GCNGC 7 cut(s) 7, 473, 568, 571, 673, 738, 781
Ple19I CGATCG 1 cut(s) 363
Psp124BI GAGCTC 1 cut(s) 495
PspN4I GGNNCC 1 cut(s) 425
PspPI GGNCC 3 cut(s) 517, 538, 738
PvuI CGATCG 1 cut(s) 363
RsaI GTAC 1 cut(s) 602
RsaNI GTAC 1 cut(s) 601
RseI CAYNNNNRTG 1 cut(s) 608
SacI GAGCTC 1 cut(s) 495
SapI GCTCTTC 1 cut(s) 500
SatI GCNGC 7 cut(s) 6, 472, 567, 570, 672, 737, 780
Sau3AI GATC 3 cut(s) 286, 360, 504
Sau96I GGNCC 3 cut(s) 517, 538, 738
ScrFI CCNGG 1 cut(s) 748
SduI GDGCHC 4 cut(s) 426, 495, 657, 873
SfaNI GCATC 2 cut(s) 399, 685
SmiMI CAYNNNNRTG 1 cut(s) 608
SmlI CTYRAG 2 cut(s) 593, 872
SmoI CTYRAG 2 cut(s) 593, 872
Sse9I AATT 1 cut(s) 247
SseBI AGGCCT 2 cut(s) 485, 560
SstI GAGCTC 1 cut(s) 495
StuI AGGCCT 2 cut(s) 485, 560
StyD4I CCNGG 1 cut(s) 746
StyI CCWWGG 2 cut(s) 462, 582
TaiI ACGT 2 cut(s) 534, 755
TaqI TCGA 3 cut(s) 363, 450, 555
TasI AATT 1 cut(s) 247
TatI WGTACW 1 cut(s) 600
TauI GCSGC 6 cut(s) 8, 474, 569, 572, 739, 782
TfiI GAWTC 1 cut(s) 587
TseI GCWGC 1 cut(s) 671
TspDTI ATGAA 2 cut(s) 129, 839
XceI RCATGY 2 cut(s) 526, 607
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.