Rroxscaffold_4G00286370

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015459
Physical Location & Seq
Reverse (-)
7413812 .. 7414813
1002 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00286370.1

Sequence Viewer

Length: 1002 bp
ATGTTCCTCCTTCGTAAAATCCCCCACAAACCCCAAAATTCCAAATCAATCCTCACCGTCGCCGCCCGTTTCTGCACAACCCAAATCCCTACAGTCAATTCTTTTCCCGATGAGCCCACCGCCTCCTACTACGACCTCCTGGTCAACGCCGCCGGCGAATCCAGAGACTTCGCCAACCTCCAGTACCTCCTCAACAAGCGCGTGAAGGACCACTGCTTCAACACCTCCAACACCTTCAAGTTCATCACCAACACCGAGGCTTCCCTCTCCGTACTCCCCGATCTCTCTCGTACCCTCGCGCGTCTCGACAAAGGGTTCACGCGCAAGAGCGCGTACGACTCACTCATCTCCCGCCTCTGCAAGCTGGAGCTTGTCGAGGAGGCGCTGCGCGTGGTGGACCTGATGGCGCGTGAGGATTTCGGCCTGAACGCGTGTTCCTTCCACCCGATTCTCAACGTGCTTACAAAGAAGGGGAGGATGGAAGAGGCGTGGCGCGTGGTGGAGCTGATGCGGAAATCTGGAGCTCCGCCGGATCTGACGTGTTATAATTATCTTCTCATGGCGTATTGCTTCTCCGGAGATTTGGATCCGGCGGCCGGAGTTTTGTGTACTATGGAGGAGGAGGGGATGAAGGCGGACACGCGTACGTACGACGCGCTGGTGCTTGGCGCGTGCAAGGTGGGGCAGGTGGAGGGGGCTATGGTGCTGCTGAGGAGGATGGTGGACGATGGAGTTCCCGTGCTGCTGTCGACCCACGTGTACGTTATTGATTCGCTCTTGAGTCGGGGGTTTTACGCGGAAGCGGTAAAGTTTGTGAGGGGTTTTAGCGGGAAGGACACTTGGTTGGACAAGGAGAGTTTTGGGAGTCTGGCTAAGAGGCTCATTAAGCTCGACAGGCTTGGTGAGGCGAAGGAGGTCTTGGATGAAATGCGTGAAAGGGGTTTAGTTATTGGAGATAAATTGAAGGATTATTATGAATCAAAGATTACAAATAAGAAATAA

Protein Analysis

333

Amino Acids

37.48

Weight (kDa)

8.3

Isoelectric Point (pI)

31.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 108 - 200 9.9e-09 Fungal tetratrico peptide repeats
PPR_long PF17177 125 - 243 1.2e-08 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 130 - 189 2.2e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 144 - 190 1.1e-08 PPR repeat family
PPR_2 PF13041 177 - 226 2.5e-08 PPR repeat family
PPR_1 PF12854 209 - 241 6e-06 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: OG0015459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G40240 AT3G56030
fragaria_vesca FvH4_7g24790
pyrus_communis pycom01g17280
rosa_chinensis RchiOBHm_Chr1g0370651
rosa_laevigata RLG00000027021
rosa_multiflora Rmu_sc0002021.1_g000005 Rmu_sc0003210.1_g000001 Rmu_sc0004550.1_g000001
rosa_roxburghii Rroxscaffold_4G00286370
rosa_rugosa Rorug01G0358100
rosa_samantha Rh1AG367800 Rh1BG331300 Rh1CG345400 Rh1DG362700
rosa_wichuraiana Rw1G032360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 546
AarI CACCTGC 1 cut(s) 676
AasI GACNNNNNNGTC 1 cut(s) 140
Acc36I ACCTGC 1 cut(s) 676
AccI GTMKAC 1 cut(s) 749
AccIII TCCGGA 1 cut(s) 575
AclWI GGATC 3 cut(s) 540, 581, 594
AcoI YGGCCR 1 cut(s) 594
AcsI RAATTY 1 cut(s) 37
AcvI CACGTG 1 cut(s) 757
AfaI GTAC 8 cut(s) 185, 273, 292, 335, 610, 646, 650, 761
AfiI CCNNNNNNNGG 1 cut(s) 596
AflIII ACRYGT 4 cut(s) 429, 539, 641, 756
AgsI TTSAA 3 cut(s) 220, 238, 964
AjiI CACGTC 1 cut(s) 540
AjnI CCWGG 1 cut(s) 138
AjuI GAANNNNNNNTTGG 2 cut(s) 902, 934
AloI GAACNNNNNNTCC 2 cut(s) 419, 451
AluBI AGCT 5 cut(s) 364, 370, 505, 524, 889
AluI AGCT 5 cut(s) 364, 370, 505, 524, 889
Alw21I GWGCWC 1 cut(s) 526
Alw26I GTCTC 2 cut(s) 159, 308
AlwI GGATC 3 cut(s) 540, 581, 594
Aor13HI TCCGGA 1 cut(s) 575
AoxI GGCC 2 cut(s) 421, 594
ApeKI GCWGC 3 cut(s) 385, 706, 742
ApoI RAATTY 1 cut(s) 37
AspS9I GGNCC 2 cut(s) 208, 397
AsuHPI GGTGA 3 cut(s) 46, 238, 914
AvaII GGWCC 2 cut(s) 208, 397
BamHI GGATCC 1 cut(s) 586
BanII GRGCYC 2 cut(s) 117, 526
BbrPI CACGTG 1 cut(s) 757
Bbv12I GWGCWC 1 cut(s) 526
BbvCI CCTCAGC 1 cut(s) 710
BbvI GCAGC 3 cut(s) 372, 693, 729
BccI CCATC 4 cut(s) 397, 472, 712, 722
BciT130I CCWGG 1 cut(s) 140
BcoDI GTCTC 2 cut(s) 159, 308
BfmI CTRYAG 1 cut(s) 90
BfoI RGCGCY 1 cut(s) 386
BfuAI ACCTGC 1 cut(s) 676
BisI GCNGC 6 cut(s) 63, 150, 386, 594, 707, 743
BlsI GCNGC 6 cut(s) 64, 151, 387, 595, 708, 744
Bme1390I CCNGG 1 cut(s) 140
Bme18I GGWCC 2 cut(s) 208, 397
BmgBI CACGTC 1 cut(s) 540
BmgT120I GGNCC 2 cut(s) 208, 397
BmiI GGNNCC 1 cut(s) 588
BmrFI CCNGG 1 cut(s) 140
BmsI GCATC 1 cut(s) 498
BpmI CTGGAG 3 cut(s) 164, 386, 540
Bpu10I CCTNAGC 1 cut(s) 710
BpuEI CTTGAG 1 cut(s) 799
BsaAI YACGTR 2 cut(s) 648, 757
BsaBI GATNNNNATC 1 cut(s) 585
BsaJI CCNNGG 1 cut(s) 255
BsaWI WCCGGW 1 cut(s) 575
BsaXI ACNNNNNCTCC 2 cut(s) 723, 753
Bsc4I CCNNNNNNNGG 1 cut(s) 596
Bse118I RCCGGY 1 cut(s) 152
Bse1I ACTGG 1 cut(s) 181
Bse8I GATNNNNATC 1 cut(s) 585
BseAI TCCGGA 1 cut(s) 575
BseBI CCWGG 1 cut(s) 140
BseDI CCNNGG 1 cut(s) 255
BseGI GGATG 4 cut(s) 483, 633, 723, 928
BseJI GATNNNNATC 1 cut(s) 585
BseLI CCNNNNNNNGG 1 cut(s) 596
BseMII CTCAG 1 cut(s) 701
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 5 cut(s) 179, 392, 632, 635, 727
BseX3I CGGCCG 1 cut(s) 594
BseXI GCAGC 3 cut(s) 372, 693, 729
BsgI GTGCAG 1 cut(s) 58
Bsh1285I CGRYCG 1 cut(s) 597
BshFI GGCC 2 cut(s) 423, 596
BsiEI CGRYCG 1 cut(s) 597
BsiHKAI GWGCWC 1 cut(s) 526
BsiSI CCGG 5 cut(s) 153, 530, 576, 590, 597
BsiWI CGTACG 3 cut(s) 333, 644, 648
BslI CCNNNNNNNGG 1 cut(s) 596
BsmAI GTCTC 2 cut(s) 159, 308
BsmBI CGTCTC 1 cut(s) 308
BsnI GGCC 2 cut(s) 423, 596
Bsp1286I GDGCHC 2 cut(s) 117, 526
Bsp13I TCCGGA 1 cut(s) 575
Bsp143I GATC 3 cut(s) 280, 532, 586
BspANI GGCC 2 cut(s) 423, 596
BspCNI CTCAG 1 cut(s) 702
BspEI TCCGGA 1 cut(s) 575
BspLI GGNNCC 1 cut(s) 588
BspMI ACCTGC 1 cut(s) 676
BspPI GGATC 3 cut(s) 540, 581, 594
BsrFI RCCGGY 1 cut(s) 152
BsrI ACTGG 1 cut(s) 181
BssAI RCCGGY 1 cut(s) 152
BssECI CCNNGG 1 cut(s) 255
BssMI GATC 3 cut(s) 280, 532, 586
Bst2UI CCWGG 1 cut(s) 140
Bst4CI ACNGT 2 cut(s) 58, 94
Bst6I CTCTTC 1 cut(s) 477
BstBAI YACGTR 2 cut(s) 648, 757
BstC8I GCNNGC 3 cut(s) 154, 362, 673
BstDEI CTNAG 2 cut(s) 710, 873
BstF5I GGATG 4 cut(s) 483, 633, 723, 928
BstH2I RGCGCY 1 cut(s) 386
BstKTI GATC 3 cut(s) 283, 535, 589
BstMAI GTCTC 2 cut(s) 159, 308
BstMBI GATC 3 cut(s) 280, 532, 586
BstMCI CGRYCG 1 cut(s) 597
BstMWI GCNNNNNNNGC 2 cut(s) 886, 895
BstNI CCWGG 1 cut(s) 140
BstSCI CCNGG 1 cut(s) 138
BstSFI CTRYAG 1 cut(s) 90
BstSNI TACGTA 1 cut(s) 648
BstV1I GCAGC 3 cut(s) 372, 693, 729
BstX2I RGATCY 2 cut(s) 532, 586
BstYI RGATCY 2 cut(s) 532, 586
BstZI CGGCCG 1 cut(s) 594
BsuRI GGCC 2 cut(s) 423, 596
BtrI CACGTC 1 cut(s) 540
BtsCI GGATG 4 cut(s) 483, 633, 723, 928
BtsI GCAGTG 1 cut(s) 211
BtsIMutI CAGTG 1 cut(s) 211
BveI ACCTGC 1 cut(s) 676
Cac8I GCNNGC 3 cut(s) 154, 362, 673
Cfr10I RCCGGY 1 cut(s) 152
Cfr13I GGNCC 2 cut(s) 208, 397
CseI GACGC 2 cut(s) 290, 662
Csp6I GTAC 8 cut(s) 184, 272, 291, 334, 609, 645, 649, 760
CviAII CATG 1 cut(s) 559
CviQI GTAC 8 cut(s) 184, 272, 291, 334, 609, 645, 649, 760
DdeI CTNAG 2 cut(s) 710, 873
DpnI GATC 3 cut(s) 282, 534, 588
DpnII GATC 3 cut(s) 280, 532, 586
DrdI GACNNNNNNGTC 1 cut(s) 140
DseDI GACNNNNNNGTC 1 cut(s) 140
EaeI YGGCCR 1 cut(s) 594
EagI CGGCCG 1 cut(s) 594
Eam1104I CTCTTC 1 cut(s) 477
EarI CTCTTC 1 cut(s) 477
EciI GGCGGA 2 cut(s) 516, 650
Ecl136II GAGCTC 1 cut(s) 524
EclXI CGGCCG 1 cut(s) 594
Eco105I TACGTA 1 cut(s) 648
Eco24I GRGCYC 2 cut(s) 117, 526
Eco47I GGWCC 2 cut(s) 208, 397
Eco52I CGGCCG 1 cut(s) 594
Eco53kI GAGCTC 1 cut(s) 524
Eco72I CACGTG 1 cut(s) 757
EcoICRI GAGCTC 1 cut(s) 524
EcoRII CCWGG 1 cut(s) 138
EcoT38I GRGCYC 2 cut(s) 117, 526
Esp3I CGTCTC 1 cut(s) 308
FaeI CATG 1 cut(s) 562
FaiI YATR 5 cut(s) 546, 560, 614, 701, 975
FalI AAGNNNNNCTT 2 cut(s) 902, 934
FatI CATG 1 cut(s) 558
FauI CCCGC 2 cut(s) 359, 821
FblI GTMKAC 1 cut(s) 749
Fnu4HI GCNGC 6 cut(s) 63, 150, 386, 594, 707, 743
FokI GGATG 4 cut(s) 490, 640, 730, 935
FriOI GRGCYC 2 cut(s) 117, 526
Fsp4HI GCNGC 6 cut(s) 63, 150, 386, 594, 707, 743
GluI GCNGC 6 cut(s) 63, 150, 386, 594, 707, 743
GsuI CTGGAG 3 cut(s) 164, 386, 540
HaeII RGCGCY 1 cut(s) 386
HaeIII GGCC 2 cut(s) 423, 596
HapII CCGG 5 cut(s) 153, 530, 576, 590, 597
HgaI GACGC 2 cut(s) 290, 662
Hin1II CATG 1 cut(s) 562
HincII GTYRAC 2 cut(s) 145, 750
HindII GTYRAC 2 cut(s) 145, 750
HinfI GANTC 7 cut(s) 158, 338, 448, 770, 781, 865, 977
HpaII CCGG 5 cut(s) 153, 530, 576, 590, 597
HphI GGTGA 3 cut(s) 46, 238, 914
Hpy166II GTNNAC 7 cut(s) 145, 318, 397, 609, 724, 750, 760
Hpy188I TCNGA 1 cut(s) 537
Hpy188III TCNNGA 6 cut(s) 107, 162, 305, 519, 576, 778
Hpy8I GTNNAC 7 cut(s) 145, 318, 397, 609, 724, 750, 760
Hpy99I CGWCG 2 cut(s) 62, 656
HpyAV CCTTC 9 cut(s) 20, 199, 244, 448, 463, 625, 826, 904, 958
HpyCH4III ACNGT 2 cut(s) 58, 94
HpyCH4IV ACGT 5 cut(s) 456, 539, 647, 756, 762
HpyCH4V TGCA 3 cut(s) 75, 360, 675
HpyF10VI GCNNNNNNNGC 2 cut(s) 886, 895
HpyF3I CTNAG 2 cut(s) 710, 873
HpySE526I ACGT 5 cut(s) 456, 539, 647, 756, 762
Hsp92II CATG 1 cut(s) 562
Kpn2I TCCGGA 1 cut(s) 575
KroI GCCGGC 1 cut(s) 152
KroNI GCCGGC 1 cut(s) 154
Kzo9I GATC 3 cut(s) 280, 532, 586
LmnI GCTCC 4 cut(s) 367, 502, 521, 529
Lsp1109I GCAGC 3 cut(s) 372, 693, 729
LweI GCATC 1 cut(s) 498
MaeII ACGT 5 cut(s) 456, 539, 647, 756, 762
MalI GATC 3 cut(s) 282, 534, 588
MboI GATC 3 cut(s) 280, 532, 586
MboII GAAGA 2 cut(s) 494, 545
MflI RGATCY 2 cut(s) 532, 586
MhlI GDGCHC 2 cut(s) 117, 526
MluCI AATT 4 cut(s) 37, 97, 547, 959
MluI ACGCGT 2 cut(s) 429, 641
MlyI GAGTC 3 cut(s) 332, 790, 874
MmeI TCCRAC 2 cut(s) 252, 825
MreI CGCCGGCG 1 cut(s) 152
MroI TCCGGA 1 cut(s) 575
MroNI GCCGGC 1 cut(s) 152
MseI TTAA 1 cut(s) 885
MspI CCGG 5 cut(s) 153, 530, 576, 590, 597
MspR9I CCNGG 1 cut(s) 140
MteI GCGCNGCGC 1 cut(s) 386
MvaI CCWGG 1 cut(s) 140
MwoI GCNNNNNNNGC 2 cut(s) 886, 895
NaeI GCCGGC 1 cut(s) 154
NdeII GATC 3 cut(s) 280, 532, 586
NgoMIV GCCGGC 1 cut(s) 152
NlaIII CATG 1 cut(s) 562
NlaIV GGNNCC 1 cut(s) 588
PaqCI CACCTGC 1 cut(s) 676
PcsI WCGNNNNNNNCGW 2 cut(s) 153, 303
PdiI GCCGGC 1 cut(s) 154
PfeI GAWTC 4 cut(s) 158, 448, 770, 977
Pfl23II CGTACG 3 cut(s) 333, 644, 648
PkrI GCNGC 6 cut(s) 64, 151, 387, 595, 708, 744
PleI GAGTC 3 cut(s) 332, 789, 873
PmaCI CACGTG 1 cut(s) 757
PmlI CACGTG 1 cut(s) 757
PpsI GAGTC 3 cut(s) 332, 789, 873
Ppu21I YACGTR 2 cut(s) 648, 757
PsiI TTATAA 1 cut(s) 546
Psp124BI GAGCTC 1 cut(s) 526
Psp6I CCWGG 1 cut(s) 138
PspCI CACGTG 1 cut(s) 757
PspGI CCWGG 1 cut(s) 138
PspLI CGTACG 3 cut(s) 333, 644, 648
PspN4I GGNNCC 1 cut(s) 588
PspPI GGNCC 2 cut(s) 208, 397
PsuI RGATCY 2 cut(s) 532, 586
RsaI GTAC 8 cut(s) 185, 273, 292, 335, 610, 646, 650, 761
RsaNI GTAC 8 cut(s) 184, 272, 291, 334, 609, 645, 649, 760
SacI GAGCTC 1 cut(s) 526
SalI GTCGAC 1 cut(s) 748
SaqAI TTAA 1 cut(s) 885
SatI GCNGC 6 cut(s) 63, 150, 386, 594, 707, 743
Sau3AI GATC 3 cut(s) 280, 532, 586
Sau96I GGNCC 2 cut(s) 208, 397
SchI GAGTC 3 cut(s) 332, 790, 874
ScrFI CCNGG 1 cut(s) 140
SduI GDGCHC 2 cut(s) 117, 526
SfaNI GCATC 1 cut(s) 498
SfcI CTRYAG 1 cut(s) 90
SgrAI CRCCGGYG 1 cut(s) 152
SinI GGWCC 2 cut(s) 208, 397
SmlI CTYRAG 1 cut(s) 778
SmoI CTYRAG 1 cut(s) 778
SnaBI TACGTA 1 cut(s) 648
Sse9I AATT 4 cut(s) 37, 97, 547, 959
SstI GAGCTC 1 cut(s) 526
StyD4I CCNGG 1 cut(s) 138
TaaI ACNGT 2 cut(s) 58, 94
TaiI ACGT 5 cut(s) 459, 542, 650, 759, 765
TaqI TCGA 4 cut(s) 306, 375, 749, 891
TasI AATT 4 cut(s) 37, 97, 547, 959
TatI WGTACW 1 cut(s) 608
TauI GCSGC 3 cut(s) 65, 152, 596
TfiI GAWTC 4 cut(s) 158, 448, 770, 977
Tru1I TTAA 1 cut(s) 885
Tru9I TTAA 1 cut(s) 885
TscAI CASTG 1 cut(s) 218
TseI GCWGC 3 cut(s) 385, 706, 742
TspDTI ATGAA 4 cut(s) 232, 644, 939, 990
TspGWI ACGGA 1 cut(s) 259
TspRI CASTG 1 cut(s) 218
VpaK11BI GGWCC 2 cut(s) 208, 397
XapI RAATTY 1 cut(s) 37
XmiI GTMKAC 1 cut(s) 749
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.