Rw3G007940

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0009745
Physical Location & Seq
Reverse (-)
7385406 .. 7386734
1329 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G007940.1

Sequence Viewer

Length: 921 bp
ATGGCCGCCAGATTGGTATCTCGCTCCTCTCTTCACAACCAATCCAATCCCTTCTCCCTTTTCTTCACCAAGCTTCACACCACCATAGCTCCAATCAACCACACCCACAAACTCATCTCTTTCTCTTCTTCTTCTCCTTCATCCACAACAACCCATAACAGCAGGTCTCTTCTTCCTCCGCCATCATTCTCTTCTTTTCGCCTCTTCAGCTCCTCCGAACCCAACACCAAGCGTTCCACCCTCGTCAATTTCTCTCTCCCCTCCGACGACGAAGACGATCAGAAACCAAACGACAAGACGTCGTCGTCGTCCCTCCCTCCTCCCTACGACCCATTCAACAAGAAGCCGGCGATCGAAGACCCAGAAGACCCAAAAGACTTGCAGGAAGTGTTCCACAAGATGCGCACAGATGGGCTCCAAAACAATGCAGTCAAGATGTTCGACGCTTTGTCCAAGGACGGCCGCACCCACGAGGCCTTAGAGCTCTTCGCCCAGATCAAAGACAAGGGCCACATGCCCGACGTGGTGGCCCACACCGCCGTCATCGAGGCCTACGCCGCCGCCGGAAAGCCCAAGGACGCTCTCAAGGTGTACATGCGGATGTTGGCGTGTGGGGTTGCACCAAATGCCTACACTTATAGCGTGCTCATCAAGGCACTCGCTGCCGACGCCAGTTTCGTTGGGGATGCGAAGAAGTATCTGATAGAGATGATGGGGAAGGGAATGCGGCCCAATGCCGGGACGTACGTGGCGGTGTTTGAGGCGTTTGCGGCCGAGGAGAGGGTGGAGGATGGGAGGGAGTTGCTGGAGGAGATGAAAGGGAAAGGGTTTGTGGCGGACGAGCAGGCGGTGAGGGAGGTGCTCAAGGGTAGAAGAGGAGCTGTGGTTAGAAGTGTCATCAACCTTCTCTTTGGAAAGTAG
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

306

Amino Acids

33.65

Weight (kDa)

8.45

Isoelectric Point (pI)

55.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 146 - 186 3.5e-06 PPR repeat family
PPR_long PF17177 149 - 289 1.8e-08 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 153 - 238 4e-07 Fungal tetratrico peptide repeats
PPR_3 PF13812 162 - 220 7.9e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 173 - 221 5.5e-14 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 304
AatII GACGTC 1 cut(s) 302
Acc16I TGCGCA 1 cut(s) 404
Acc36I ACCTGC 1 cut(s) 153
AcoI YGGCCR 3 cut(s) 3, 460, 771
AcuI CTGAAG 1 cut(s) 190
AcyI GRCGYC 2 cut(s) 299, 669
AfaI GTAC 2 cut(s) 593, 746
AfiI CCNNNNNNNGG 3 cut(s) 737, 738, 780
AgsI TTSAA 1 cut(s) 337
AhdI GACNNNNNGTC 2 cut(s) 298, 448
AjiI CACGTC 1 cut(s) 523
AluBI AGCT 5 cut(s) 73, 89, 210, 484, 881
AluI AGCT 5 cut(s) 73, 89, 210, 484, 881
Alw21I GWGCWC 3 cut(s) 486, 648, 864
Alw26I GTCTC 1 cut(s) 171
AoxI GGCC 8 cut(s) 3, 460, 474, 508, 528, 549, 728, 771
ApeKI GCWGC 1 cut(s) 662
ArsI GACNNNNNNTTYG 2 cut(s) 659, 691
AspLEI GCGC 1 cut(s) 405
AspS9I GGNCC 3 cut(s) 508, 529, 729
AsuC2I CCSGG 1 cut(s) 739
AsuHPI GGTGA 2 cut(s) 58, 862
BanII GRGCYC 2 cut(s) 417, 486
BauI CACGAG 1 cut(s) 470
BbsI GAAGAC 3 cut(s) 279, 363, 372
Bbv12I GWGCWC 3 cut(s) 486, 648, 864
BbvI GCAGC 1 cut(s) 649
BccI CCATC 4 cut(s) 190, 404, 706, 785
BceAI ACGGC 2 cut(s) 475, 524
BcnI CCSGG 1 cut(s) 739
BcoDI GTCTC 1 cut(s) 171
BfuAI ACCTGC 1 cut(s) 153
BisI GCNGC 7 cut(s) 6, 463, 558, 561, 663, 728, 771
BlsI GCNGC 7 cut(s) 7, 464, 559, 562, 664, 729, 772
Bme1390I CCNGG 1 cut(s) 739
BmeRI GACNNNNNGTC 2 cut(s) 298, 448
BmgBI CACGTC 1 cut(s) 523
BmgT120I GGNCC 3 cut(s) 508, 529, 729
BmiI GGNNCC 1 cut(s) 416
BmrFI CCNGG 1 cut(s) 739
BmsI GCATC 2 cut(s) 390, 676
BpiI GAAGAC 3 cut(s) 279, 363, 372
BpmI CTGGAG 1 cut(s) 827
BpuEI CTTGAG 2 cut(s) 569, 848
BpuMI CCSGG 1 cut(s) 739
BsaAI YACGTR 1 cut(s) 748
BsaBI GATNNNNATC 1 cut(s) 16
BsaHI GRCGYC 2 cut(s) 299, 669
BsaI GGTCTC 1 cut(s) 171
BsaJI CCNNGG 3 cut(s) 453, 573, 774
BsaXI ACNNNNNCTCC 4 cut(s) 73, 103, 870, 900
Bsc4I CCNNNNNNNGG 3 cut(s) 737, 738, 780
Bse118I RCCGGY 1 cut(s) 346
Bse1I ACTGG 1 cut(s) 672
Bse8I GATNNNNATC 1 cut(s) 16
BseDI CCNNGG 3 cut(s) 453, 573, 774
BseGI GGATG 4 cut(s) 140, 606, 691, 796
BseJI GATNNNNATC 1 cut(s) 16
BseLI CCNNNNNNNGG 3 cut(s) 737, 738, 780
BseNI ACTGG 1 cut(s) 672
BseRI GAGGAG 6 cut(s) 16, 202, 309, 791, 824, 891
BseX3I CGGCCG 2 cut(s) 460, 771
BseXI GCAGC 1 cut(s) 649
Bsh1285I CGRYCG 3 cut(s) 354, 463, 774
BshFI GGCC 8 cut(s) 5, 462, 476, 510, 530, 551, 730, 773
BsiEI CGRYCG 3 cut(s) 354, 463, 774
BsiHKAI GWGCWC 3 cut(s) 486, 648, 864
BsiSI CCGG 3 cut(s) 347, 564, 738
BsiWI CGTACG 1 cut(s) 744
BslFI GGGAC 2 cut(s) 295, 754
BslI CCNNNNNNNGG 3 cut(s) 737, 738, 780
BsmAI GTCTC 1 cut(s) 171
BsmFI GGGAC 2 cut(s) 295, 754
BsmI GAATGC 1 cut(s) 729
BsnI GGCC 8 cut(s) 5, 462, 476, 510, 530, 551, 730, 773
Bso31I GGTCTC 1 cut(s) 171
Bsp1286I GDGCHC 4 cut(s) 417, 486, 648, 864
Bsp1407I TGTACA 1 cut(s) 591
Bsp143I GATC 3 cut(s) 277, 351, 495
BspANI GGCC 8 cut(s) 5, 462, 476, 510, 530, 551, 730, 773
BspLI GGNNCC 1 cut(s) 416
BspMI ACCTGC 1 cut(s) 153
BspQI GCTCTTC 1 cut(s) 491
BspTNI GGTCTC 1 cut(s) 171
BsrFI RCCGGY 1 cut(s) 346
BsrGI TGTACA 1 cut(s) 591
BsrI ACTGG 1 cut(s) 672
BssAI RCCGGY 1 cut(s) 346
BssECI CCNNGG 3 cut(s) 453, 573, 774
BssMI GATC 3 cut(s) 277, 351, 495
BssNI GRCGYC 2 cut(s) 299, 669
BssSI CACGAG 1 cut(s) 470
BssT1I CCWWGG 2 cut(s) 453, 573
Bst2BI CACGAG 1 cut(s) 470
Bst6I CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 491, 868
BstACI GRCGYC 2 cut(s) 299, 669
BstAPI GCANNNNNTGC 2 cut(s) 626, 662
BstAUI TGTACA 1 cut(s) 591
BstBAI YACGTR 1 cut(s) 748
BstC8I GCNNGC 3 cut(s) 348, 644, 846
BstDEI CTNAG 1 cut(s) 478
BstF5I GGATG 4 cut(s) 140, 606, 691, 796
BstHHI GCGC 1 cut(s) 405
BstKTI GATC 3 cut(s) 280, 354, 498
BstMAI GTCTC 1 cut(s) 171
BstMBI GATC 3 cut(s) 277, 351, 495
BstMCI CGRYCG 3 cut(s) 354, 463, 774
BstMWI GCNNNNNNNGC 7 cut(s) 207, 536, 557, 626, 662, 668, 770
BstNSI RCATGY 2 cut(s) 517, 598
BstSCI CCNGG 1 cut(s) 737
BstV1I GCAGC 1 cut(s) 649
BstV2I GAAGAC 3 cut(s) 279, 363, 372
BstZI CGGCCG 2 cut(s) 460, 771
BsuRI GGCC 8 cut(s) 5, 462, 476, 510, 530, 551, 730, 773
BtrI CACGTC 1 cut(s) 523
BtsCI GGATG 4 cut(s) 140, 606, 691, 796
BveI ACCTGC 1 cut(s) 153
Cac8I GCNNGC 3 cut(s) 348, 644, 846
CfoI GCGC 1 cut(s) 405
Cfr10I RCCGGY 1 cut(s) 346
Cfr13I GGNCC 3 cut(s) 508, 529, 729
CseI GACGC 3 cut(s) 452, 587, 677
Csp6I GTAC 2 cut(s) 592, 745
CviAII CATG 2 cut(s) 514, 595
CviQI GTAC 2 cut(s) 592, 745
DdeI CTNAG 1 cut(s) 478
DpnI GATC 3 cut(s) 279, 353, 497
DpnII GATC 3 cut(s) 277, 351, 495
DrdI GACNNNNNNGTC 1 cut(s) 304
DriI GACNNNNNGTC 2 cut(s) 298, 448
DseDI GACNNNNNNGTC 1 cut(s) 304
EaeI YGGCCR 3 cut(s) 3, 460, 771
EagI CGGCCG 2 cut(s) 460, 771
Eam1104I CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 491, 868
Eam1105I GACNNNNNGTC 2 cut(s) 298, 448
EarI CTCTTC 7 cut(s) 36, 130, 174, 196, 209, 491, 868
EciI GGCGGA 2 cut(s) 168, 851
Ecl136II GAGCTC 1 cut(s) 484
EclXI CGGCCG 2 cut(s) 460, 771
Eco130I CCWWGG 2 cut(s) 453, 573
Eco147I AGGCCT 2 cut(s) 476, 551
Eco24I GRGCYC 2 cut(s) 417, 486
Eco31I GGTCTC 1 cut(s) 171
Eco52I CGGCCG 2 cut(s) 460, 771
Eco53kI GAGCTC 1 cut(s) 484
Eco57I CTGAAG 1 cut(s) 190
EcoICRI GAGCTC 1 cut(s) 484
EcoT14I CCWWGG 2 cut(s) 453, 573
EcoT38I GRGCYC 2 cut(s) 417, 486
ErhI CCWWGG 2 cut(s) 453, 573
FaeI CATG 2 cut(s) 517, 598
FaiI YATR 5 cut(s) 86, 156, 515, 596, 639
FaqI GGGAC 2 cut(s) 295, 754
FatI CATG 2 cut(s) 513, 594
Fnu4HI GCNGC 7 cut(s) 6, 463, 558, 561, 663, 728, 771
FokI GGATG 4 cut(s) 127, 613, 698, 803
FriOI GRGCYC 2 cut(s) 417, 486
Fsp4HI GCNGC 7 cut(s) 6, 463, 558, 561, 663, 728, 771
FspAI RTGCGCAY 1 cut(s) 404
FspI TGCGCA 1 cut(s) 404
GlaI GCGC 1 cut(s) 404
GluI GCNGC 7 cut(s) 6, 463, 558, 561, 663, 728, 771
GsuI CTGGAG 1 cut(s) 827
HaeIII GGCC 8 cut(s) 5, 462, 476, 510, 530, 551, 730, 773
HapII CCGG 3 cut(s) 347, 564, 738
HgaI GACGC 3 cut(s) 452, 587, 677
HhaI GCGC 1 cut(s) 405
Hin1I GRCGYC 2 cut(s) 299, 669
Hin1II CATG 2 cut(s) 517, 598
Hin6I GCGC 1 cut(s) 403
HinP1I GCGC 1 cut(s) 403
HindIII AAGCTT 1 cut(s) 71
HpaII CCGG 3 cut(s) 347, 564, 738
HphI GGTGA 2 cut(s) 58, 862
Hpy166II GTNNAC 1 cut(s) 592
Hpy188I TCNGA 4 cut(s) 217, 265, 282, 702
Hpy188III TCNNGA 1 cut(s) 433
Hpy8I GTNNAC 1 cut(s) 592
Hpy99I CGWCG 8 cut(s) 269, 272, 304, 307, 310, 446, 524, 671
HpyAV CCTTC 4 cut(s) 61, 147, 712, 914
HpyCH4IV ACGT 4 cut(s) 299, 522, 743, 747
HpyCH4V TGCA 3 cut(s) 382, 428, 620
HpyF10VI GCNNNNNNNGC 7 cut(s) 207, 536, 557, 626, 662, 668, 770
HpyF3I CTNAG 1 cut(s) 478
HpySE526I ACGT 4 cut(s) 299, 522, 743, 747
Hsp92I GRCGYC 2 cut(s) 299, 669
Hsp92II CATG 2 cut(s) 517, 598
HspAI GCGC 1 cut(s) 403
KroI GCCGGC 1 cut(s) 346
KroNI GCCGGC 1 cut(s) 348
Kzo9I GATC 3 cut(s) 277, 351, 495
LguI GCTCTTC 1 cut(s) 491
LmnI GCTCC 5 cut(s) 29, 94, 215, 420, 878
Lsp1109I GCAGC 1 cut(s) 649
LweI GCATC 2 cut(s) 390, 676
MaeII ACGT 4 cut(s) 299, 522, 743, 747
MalI GATC 3 cut(s) 279, 353, 497
MboI GATC 3 cut(s) 277, 351, 495
MhlI GDGCHC 4 cut(s) 417, 486, 648, 864
MluCI AATT 1 cut(s) 247
MmeI TCCRAC 1 cut(s) 288
MroNI GCCGGC 1 cut(s) 346
MslI CAYNNNNRTG 1 cut(s) 599
MspI CCGG 3 cut(s) 347, 564, 738
MspR9I CCNGG 1 cut(s) 739
Mva1269I GAATGC 1 cut(s) 729
MwoI GCNNNNNNNGC 7 cut(s) 207, 536, 557, 626, 662, 668, 770
NaeI GCCGGC 1 cut(s) 348
NciI CCSGG 1 cut(s) 739
NdeII GATC 3 cut(s) 277, 351, 495
NgoMIV GCCGGC 1 cut(s) 346
NlaIII CATG 2 cut(s) 517, 598
NlaIV GGNNCC 1 cut(s) 416
NmeAIII GCCGAG 1 cut(s) 799
NsbI TGCGCA 1 cut(s) 404
NspI RCATGY 2 cut(s) 517, 598
PceI AGGCCT 2 cut(s) 476, 551
PciSI GCTCTTC 1 cut(s) 491
PcsI WCGNNNNNNNCGW 3 cut(s) 273, 305, 675
PctI GAATGC 1 cut(s) 729
PdiI GCCGGC 1 cut(s) 348
Pfl23II CGTACG 1 cut(s) 744
PflFI GACNNNGTC 1 cut(s) 301
PkrI GCNGC 7 cut(s) 7, 464, 559, 562, 664, 729, 772
Ple19I CGATCG 1 cut(s) 354
Ppu21I YACGTR 1 cut(s) 748
Psp124BI GAGCTC 1 cut(s) 486
PspLI CGTACG 1 cut(s) 744
PspN4I GGNNCC 1 cut(s) 416
PspPI GGNCC 3 cut(s) 508, 529, 729
PsyI GACNNNGTC 1 cut(s) 301
PvuI CGATCG 1 cut(s) 354
RsaI GTAC 2 cut(s) 593, 746
RsaNI GTAC 2 cut(s) 592, 745
RseI CAYNNNNRTG 1 cut(s) 599
SacI GAGCTC 1 cut(s) 486
SapI GCTCTTC 1 cut(s) 491
SatI GCNGC 7 cut(s) 6, 463, 558, 561, 663, 728, 771
Sau3AI GATC 3 cut(s) 277, 351, 495
Sau96I GGNCC 3 cut(s) 508, 529, 729
ScrFI CCNGG 1 cut(s) 739
SduI GDGCHC 4 cut(s) 417, 486, 648, 864
SfaNI GCATC 2 cut(s) 390, 676
SmiMI CAYNNNNRTG 1 cut(s) 599
SmlI CTYRAG 2 cut(s) 584, 863
SmoI CTYRAG 2 cut(s) 584, 863
Sse9I AATT 1 cut(s) 247
SseBI AGGCCT 2 cut(s) 476, 551
SstI GAGCTC 1 cut(s) 486
StuI AGGCCT 2 cut(s) 476, 551
StyD4I CCNGG 1 cut(s) 737
StyI CCWWGG 2 cut(s) 453, 573
TaiI ACGT 4 cut(s) 302, 525, 746, 750
TaqI TCGA 3 cut(s) 354, 441, 546
TasI AATT 1 cut(s) 247
TatI WGTACW 1 cut(s) 591
TauI GCSGC 6 cut(s) 8, 465, 560, 563, 730, 773
TseI GCWGC 1 cut(s) 662
TspDTI ATGAA 2 cut(s) 129, 830
Tth111I GACNNNGTC 1 cut(s) 301
XceI RCATGY 2 cut(s) 517, 598
ZraI GACGTC 1 cut(s) 300
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.