Rroxscaffold_4G00282680

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0011997
Physical Location & Seq
Reverse (-)
4788228 .. 4793322
5095 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00282680.1

Sequence Viewer

Length: 999 bp
ATGAGAGAGCTCAAACAAATCCATACCCACATCATAAAGTCCCCATTTTTACTCAAACAGGACCAATCCTTTCTCATCACTCGTCTCCTATTCTTCTGTGCTCTATCCGATTCGGGTTCTCAGACCTACGCCACCGCAGTTTTCCGGGTCATAAAGAACCCGACTCTCTACGTCTACAACATCATGATCAGAGCATACGCGTGTGAAAAGACCAGTGCTTTGGATAAACCTGCTTCGTTTCGGTCGTTGGTGTTGTATAAGCAAATGGTTGGTAATGGGATTGGGCCCAATCGGCTCACTTTTCCGTTTCTTGTGAAGGAATGCGCGGCGAGGATTGACGGCGGCGCTGGCCGGAGCGTTCATGGCCAAGTGGTTAAGTACGGGTGTGAAGATGATGTGTTTGTTCGAAACTCGTTGATCAATATGTACTCTGTTTGTGGGTCTTTGACTTGCGCACGCAAGGTGTTCGATGAAATGCCTGAGAGAGATGTGGTTTCGTGGAACTTGATGATTAAGGGGTGTTTGAGAAGTGGGGAACTTGATGAGGCGATGGGTGTGTTTGGGAAGATGAAGCAGAGGAGTATTTTTAGTTGGAATTCCATTATAACCGGGTTTGTTCAAGGCGGTCGGCCGAAGGAGGCATTGGAACTTTTTCATGAAATGCAGGTTGCGGGCGGTGTTAGACCGGATAAGATTACGATTGCTAGTGTCCTTGCGGCTTGTGCTCATCTTGGCGCGGTTGATCACGGGACATGGGTGCATGGGTACCTGAGGAGAAGTGGGCTGGAGAGTGATGTGGTTATTGGAACAGCTCTGGTTGACATGTATGGTAAATGTGGATGTGTGGAAAAAGCTCATGGGGTCTTTAAGGAAATGCCGAAGAAAGATACTTTGGCATGGACAGCTATGATTTCGGTTTTTGCTCTCCATGGGTTTGGCAATGAGGCTTTTGATCTTTTGAAAAGATGGAAGCAACTGGGGTTGAGCCGAATCATGTGA
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

Protein Analysis

332

Amino Acids

36.92

Weight (kDa)

9.17

Isoelectric Point (pI)

38.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 162 - 195 2.9e-08 PPR repeat family
PPR PF01535 165 - 194 1.2e-08 PPR repeat
PPR_2 PF13041 194 - 243 8.5e-10 PPR repeat family
PPR PF01535 196 - 225 3.5e-08 PPR repeat
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: OG0011997)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G14170 AT4G14170
fragaria_vesca FvH4_7g28451
malus_domestica MD01G1188300.v1.1
prunus_persica Prupe.2G284600_v2.0.a1
pyrus_communis pycom01g20010
rosa_chinensis RchiOBHm_Chr1g0375631 RchiOBHm_Chr1g0375671
rosa_laevigata RLG00000026661
rosa_multiflora Rmu_co8281021.1_g000001 Rmu_co8425983.1_g000001 Rmu_sc0001644.1_g000022
rosa_roxburghii Rroxscaffold_4G00282680
rosa_rugosa Rorug01G0391700
rosa_samantha Rh1AG402600 Rh1BG366800 Rh1CG379500
rosa_wichuraiana Rw1G035750 Rw1G035770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 605
Acc16I TGCGCA 1 cut(s) 454
Acc36I ACCTGC 2 cut(s) 238, 655
Acc65I GGTACC 1 cut(s) 765
AccB1I GGYRCC 1 cut(s) 765
AccI GTMKAC 1 cut(s) 174
AccII CGCG 3 cut(s) 200, 326, 737
AciI CCGC 8 cut(s) 135, 326, 342, 624, 671, 675, 716, 737
AcoI YGGCCR 3 cut(s) 349, 364, 629
AcsI RAATTY 1 cut(s) 595
AfaI GTAC 3 cut(s) 380, 428, 767
AflIII ACRYGT 2 cut(s) 198, 822
AgsI TTSAA 2 cut(s) 620, 961
AjuI GAANNNNNNNTTGG 4 cut(s) 626, 658, 875, 907
AluBI AGCT 4 cut(s) 10, 812, 854, 905
AluI AGCT 4 cut(s) 10, 812, 854, 905
Alw21I GWGCWC 3 cut(s) 12, 103, 727
Alw26I GTCTC 1 cut(s) 89
AoxI GGCC 4 cut(s) 284, 349, 364, 629
ApaI GGGCCC 1 cut(s) 288
ApoI RAATTY 1 cut(s) 595
ArsI GACNNNNNNTTYG 2 cut(s) 202, 234
Asp700I GAANNNNTTC 1 cut(s) 651
Asp718I GGTACC 1 cut(s) 765
AspLEI GCGC 4 cut(s) 326, 347, 455, 737
AspS9I GGNCC 3 cut(s) 61, 284, 285
AsuC2I CCSGG 2 cut(s) 146, 610
AsuII TTCGAA 1 cut(s) 406
AvaII GGWCC 1 cut(s) 61
AxyI CCTNAGG 1 cut(s) 770
BaeGI GKGCMC 1 cut(s) 288
BalI TGGCCA 1 cut(s) 366
BanI GGYRCC 1 cut(s) 765
BanII GRGCYC 2 cut(s) 12, 288
Bbv12I GWGCWC 3 cut(s) 12, 103, 727
BccI CCATC 2 cut(s) 544, 960
BceAI ACGGC 1 cut(s) 355
BcgI CGANNNNNNTGC 2 cut(s) 448, 482
BclI TGATCA 3 cut(s) 186, 417, 742
BcnI CCSGG 2 cut(s) 146, 610
BcoDI GTCTC 1 cut(s) 89
BfaI CTAG 1 cut(s) 705
BfoI RGCGCY 1 cut(s) 348
BfuAI ACCTGC 2 cut(s) 238, 655
BglI GCCNNNNNGGC 1 cut(s) 292
BisI GCNGC 3 cut(s) 327, 343, 717
BlsI GCNGC 3 cut(s) 328, 344, 718
Bme1390I CCNGG 2 cut(s) 146, 610
Bme18I GGWCC 1 cut(s) 61
BmgT120I GGNCC 3 cut(s) 61, 284, 285
BmiI GGNNCC 2 cut(s) 286, 767
BmrFI CCNGG 2 cut(s) 146, 610
BmrI ACTGGG 1 cut(s) 986
BmuI ACTGGG 1 cut(s) 986
BpmI CTGGAG 1 cut(s) 806
Bpu14I TTCGAA 1 cut(s) 406
BpuMI CCSGG 2 cut(s) 146, 610
BsaJI CCNNGG 1 cut(s) 928
BsaWI WCCGGW 1 cut(s) 685
Bse1I ACTGG 2 cut(s) 213, 981
Bse21I CCTNAGG 1 cut(s) 770
Bse3DI GCAATG 1 cut(s) 946
BseDI CCNNGG 1 cut(s) 928
BseGI GGATG 1 cut(s) 845
BseMI GCAATG 1 cut(s) 946
BseMII CTCAG 3 cut(s) 134, 471, 761
BseNI ACTGG 2 cut(s) 213, 981
BseRI GAGGAG 2 cut(s) 592, 787
BseSI GKGCMC 1 cut(s) 288
BseX3I CGGCCG 1 cut(s) 629
Bsh1236I CGCG 3 cut(s) 200, 326, 737
Bsh1285I CGRYCG 3 cut(s) 245, 628, 632
BshFI GGCC 4 cut(s) 286, 351, 366, 631
BshNI GGYRCC 1 cut(s) 765
BsiEI CGRYCG 3 cut(s) 245, 628, 632
BsiHKAI GWGCWC 3 cut(s) 12, 103, 727
BsiSI CCGG 4 cut(s) 145, 352, 609, 686
BslFI GGGAC 2 cut(s) 25, 763
BsmAI GTCTC 1 cut(s) 89
BsmBI CGTCTC 1 cut(s) 89
BsmFI GGGAC 2 cut(s) 25, 763
BsmI GAATGC 1 cut(s) 326
BsnI GGCC 4 cut(s) 286, 351, 366, 631
Bsp119I TTCGAA 1 cut(s) 406
Bsp120I GGGCCC 1 cut(s) 284
Bsp1286I GDGCHC 4 cut(s) 12, 103, 288, 727
Bsp143I GATC 4 cut(s) 186, 417, 742, 952
Bsp19I CCATGG 1 cut(s) 928
BspACI CCGC 8 cut(s) 135, 326, 342, 624, 671, 675, 716, 737
BspANI GGCC 4 cut(s) 286, 351, 366, 631
BspCNI CTCAG 3 cut(s) 133, 472, 762
BspFNI CGCG 3 cut(s) 200, 326, 737
BspHI TCATGA 2 cut(s) 183, 655
BspLI GGNNCC 2 cut(s) 286, 767
BspMI ACCTGC 2 cut(s) 238, 655
BspT104I TTCGAA 1 cut(s) 406
BspT107I GGYRCC 1 cut(s) 765
BsrDI GCAATG 1 cut(s) 946
BsrI ACTGG 2 cut(s) 213, 981
BssECI CCNNGG 1 cut(s) 928
BssMI GATC 4 cut(s) 186, 417, 742, 952
BssT1I CCWWGG 1 cut(s) 928
BstBI TTCGAA 1 cut(s) 406
BstC8I GCNNGC 3 cut(s) 349, 457, 673
BstDEI CTNAG 3 cut(s) 120, 480, 770
BstDSI CCRYGG 1 cut(s) 928
BstF5I GGATG 1 cut(s) 845
BstFNI CGCG 3 cut(s) 200, 326, 737
BstH2I RGCGCY 1 cut(s) 348
BstHHI GCGC 4 cut(s) 326, 347, 455, 737
BstKTI GATC 4 cut(s) 189, 420, 745, 955
BstMAI GTCTC 1 cut(s) 89
BstMBI GATC 4 cut(s) 186, 417, 742, 952
BstMCI CGRYCG 3 cut(s) 245, 628, 632
BstMWI GCNNNNNNNGC 5 cut(s) 292, 348, 363, 722, 902
BstNSI RCATGY 1 cut(s) 826
BstSCI CCNGG 2 cut(s) 144, 608
BstSLI GKGCMC 1 cut(s) 288
BstUI CGCG 3 cut(s) 200, 326, 737
BstXI CCANNNNNNTGG 2 cut(s) 220, 935
BstZI CGGCCG 1 cut(s) 629
Bsu36I CCTNAGG 1 cut(s) 770
BsuRI GGCC 4 cut(s) 286, 351, 366, 631
BtgI CCRYGG 1 cut(s) 928
BtgZI GCGATG 1 cut(s) 563
BtsCI GGATG 1 cut(s) 845
BtsIMutI CAGTG 1 cut(s) 220
BveI ACCTGC 2 cut(s) 238, 655
Cac8I GCNNGC 3 cut(s) 349, 457, 673
CciI TCATGA 2 cut(s) 183, 655
CfoI GCGC 4 cut(s) 326, 347, 455, 737
Cfr13I GGNCC 3 cut(s) 61, 284, 285
Csp6I GTAC 3 cut(s) 379, 427, 766
CviQI GTAC 3 cut(s) 379, 427, 766
DdeI CTNAG 3 cut(s) 120, 480, 770
DpnI GATC 4 cut(s) 188, 419, 744, 954
DpnII GATC 4 cut(s) 186, 417, 742, 952
EaeI YGGCCR 3 cut(s) 349, 364, 629
EagI CGGCCG 1 cut(s) 629
Ecl136II GAGCTC 1 cut(s) 10
EclXI CGGCCG 1 cut(s) 629
Eco130I CCWWGG 1 cut(s) 928
Eco24I GRGCYC 2 cut(s) 12, 288
Eco47I GGWCC 1 cut(s) 61
Eco52I CGGCCG 1 cut(s) 629
Eco53kI GAGCTC 1 cut(s) 10
Eco81I CCTNAGG 1 cut(s) 770
EcoICRI GAGCTC 1 cut(s) 10
EcoRI GAATTC 1 cut(s) 595
EcoT14I CCWWGG 1 cut(s) 928
EcoT38I GRGCYC 2 cut(s) 12, 288
ErhI CCWWGG 1 cut(s) 928
Esp3I CGTCTC 1 cut(s) 89
FaqI GGGAC 2 cut(s) 25, 763
FauI CCCGC 1 cut(s) 664
FbaI TGATCA 3 cut(s) 186, 417, 742
FblI GTMKAC 1 cut(s) 174
Fnu4HI GCNGC 3 cut(s) 327, 343, 717
FokI GGATG 1 cut(s) 852
FriOI GRGCYC 2 cut(s) 12, 288
Fsp4HI GCNGC 3 cut(s) 327, 343, 717
FspBI CTAG 1 cut(s) 705
FspI TGCGCA 1 cut(s) 454
GlaI GCGC 4 cut(s) 325, 346, 454, 736
GluI GCNGC 3 cut(s) 327, 343, 717
GsuI CTGGAG 1 cut(s) 806
HaeII RGCGCY 1 cut(s) 348
HaeIII GGCC 4 cut(s) 286, 351, 366, 631
HapII CCGG 4 cut(s) 145, 352, 609, 686
HhaI GCGC 4 cut(s) 326, 347, 455, 737
Hin6I GCGC 4 cut(s) 324, 345, 453, 735
HinP1I GCGC 4 cut(s) 324, 345, 453, 735
HincII GTYRAC 1 cut(s) 820
HindII GTYRAC 1 cut(s) 820
HinfI GANTC 3 cut(s) 110, 163, 990
HpaII CCGG 4 cut(s) 145, 352, 609, 686
Hpy166II GTNNAC 2 cut(s) 175, 820
Hpy188I TCNGA 3 cut(s) 109, 123, 191
Hpy188III TCNNGA 2 cut(s) 184, 656
Hpy8I GTNNAC 2 cut(s) 175, 820
HpyAV CCTTC 2 cut(s) 310, 628
HpyCH4IV ACGT 1 cut(s) 171
HpyCH4V TGCA 2 cut(s) 664, 760
HpyF10VI GCNNNNNNNGC 5 cut(s) 292, 348, 363, 722, 902
HpyF3I CTNAG 3 cut(s) 120, 480, 770
HpySE526I ACGT 1 cut(s) 171
HspAI GCGC 4 cut(s) 324, 345, 453, 735
KpnI GGTACC 1 cut(s) 769
Ksp22I TGATCA 3 cut(s) 186, 417, 742
Kzo9I GATC 4 cut(s) 186, 417, 742, 952
LmnI GCTCC 1 cut(s) 354
MaeI CTAG 1 cut(s) 705
MaeII ACGT 1 cut(s) 171
MalI GATC 4 cut(s) 188, 419, 744, 954
MboI GATC 4 cut(s) 186, 417, 742, 952
MboII GAAGA 4 cut(s) 85, 401, 577, 892
MhlI GDGCHC 4 cut(s) 12, 103, 288, 727
MlsI TGGCCA 1 cut(s) 366
MluCI AATT 1 cut(s) 595
MluI ACGCGT 1 cut(s) 198
MluNI TGGCCA 1 cut(s) 366
MlyI GAGTC 1 cut(s) 157
MmeI TCCRAC 1 cut(s) 572
MnlI CCTC 6 cut(s) 324, 538, 570, 631, 765, 937
Mox20I TGGCCA 1 cut(s) 366
MroXI GAANNNNTTC 1 cut(s) 651
MscI TGGCCA 1 cut(s) 366
MseI TTAA 3 cut(s) 375, 513, 867
MslI CAYNNNNRTG 1 cut(s) 199
Msp20I TGGCCA 1 cut(s) 366
MspI CCGG 4 cut(s) 145, 352, 609, 686
MspR9I CCNGG 2 cut(s) 146, 610
Mva1269I GAATGC 1 cut(s) 326
MvnI CGCG 3 cut(s) 200, 326, 737
MwoI GCNNNNNNNGC 5 cut(s) 292, 348, 363, 722, 902
NciI CCSGG 2 cut(s) 146, 610
NcoI CCATGG 1 cut(s) 928
NdeII GATC 4 cut(s) 186, 417, 742, 952
NlaIV GGNNCC 2 cut(s) 286, 767
NsbI TGCGCA 1 cut(s) 454
NspI RCATGY 1 cut(s) 826
NspV TTCGAA 1 cut(s) 406
PagI TCATGA 2 cut(s) 183, 655
PciI ACATGT 1 cut(s) 822
PcsI WCGNNNNNNNCGW 1 cut(s) 242
PctI GAATGC 1 cut(s) 326
PdmI GAANNNNTTC 1 cut(s) 651
PfeI GAWTC 2 cut(s) 110, 990
PkrI GCNGC 3 cut(s) 328, 344, 718
PleI GAGTC 1 cut(s) 157
PpsI GAGTC 1 cut(s) 157
PscI ACATGT 1 cut(s) 822
PsiI TTATAA 1 cut(s) 605
Psp124BI GAGCTC 1 cut(s) 12
PspN4I GGNNCC 2 cut(s) 286, 767
PspOMI GGGCCC 1 cut(s) 284
PspPI GGNCC 3 cut(s) 61, 284, 285
RsaI GTAC 3 cut(s) 380, 428, 767
RsaNI GTAC 3 cut(s) 379, 427, 766
RseI CAYNNNNRTG 1 cut(s) 199
SacI GAGCTC 1 cut(s) 12
SaqAI TTAA 3 cut(s) 375, 513, 867
SatI GCNGC 3 cut(s) 327, 343, 717
Sau3AI GATC 4 cut(s) 186, 417, 742, 952
Sau96I GGNCC 3 cut(s) 61, 284, 285
SchI GAGTC 1 cut(s) 157
ScrFI CCNGG 2 cut(s) 146, 610
SduI GDGCHC 4 cut(s) 12, 103, 288, 727
SfuI TTCGAA 1 cut(s) 406
SinI GGWCC 1 cut(s) 61
SmiMI CAYNNNNRTG 1 cut(s) 199
Sse9I AATT 1 cut(s) 595
SsiI CCGC 8 cut(s) 135, 326, 342, 624, 671, 675, 716, 737
SspMI CTAG 1 cut(s) 705
SstI GAGCTC 1 cut(s) 12
StyD4I CCNGG 2 cut(s) 144, 608
StyI CCWWGG 1 cut(s) 928
TaiI ACGT 1 cut(s) 174
TaqI TCGA 2 cut(s) 406, 468
TaqII GACCGA 1 cut(s) 231
TasI AATT 1 cut(s) 595
TatI WGTACW 1 cut(s) 426
TauI GCSGC 3 cut(s) 329, 345, 719
TfiI GAWTC 2 cut(s) 110, 990
Tru1I TTAA 3 cut(s) 375, 513, 867
Tru9I TTAA 3 cut(s) 375, 513, 867
TscAI CASTG 1 cut(s) 220
TspDTI ATGAA 5 cut(s) 350, 486, 584, 644, 672
TspGWI ACGGA 1 cut(s) 294
TspRI CASTG 1 cut(s) 220
VpaK11BI GGWCC 1 cut(s) 61
XapI RAATTY 1 cut(s) 595
XceI RCATGY 1 cut(s) 826
XmiI GTMKAC 1 cut(s) 174
XmnI GAANNNNTTC 1 cut(s) 651
XspI CTAG 1 cut(s) 705
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.