Rorug03G0250400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0014105
Physical Location & Seq
Forward (+)
23610729 .. 23611847
1119 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0250400.1

Sequence Viewer

Length: 1119 bp
ATGGTGGATAAGGATTTTGGGGTTCAGGAAAAGGCGGGCGATGTCTTCCTGTTCTCCTTTGAATCGCTTCGTGATCGGAACAAGATACTACGTGGAGGAGTTTGGTCTTTTGATAGAGCTCCTGTGTGTTTTGAAGTTTATGATGGGGTGAAGCCCCTGCATGAAGCCCAATTCAAGCATCTACGTGTTTGGGTTAGGGTTTCGGGGATTCCTCCTTTGTATGAAGAACCTGAGAATTTTACTCTTATCGGTATTCTCTTGAGTGGTTTCTTAGACTATGATAAGAAGGAATTCAAGAAGGGTGGGATTCAGATCTTCTTCACCCATGATATCTCCAAACCATTCTTGCTTGAGCGGAAGATTTTCTTGGATGTCGGCGTCGAACCGGTGCTTCAATTTCAATTTGAACATCTGAAAGGGAGATGTTCACAGTGTGGACTGGTCACGCATGCTGGGATTGCATGTGAGCAGCCGCATACTCCACTTCCGTCATCTAGGGTTTTGAACTTTCCGAGGTCGTCAACCTCAGGAGGGTTGTTTTCTTTTTCGGCTCAGAACAAGCGTGAGTTCTTCACTGCTTCCTCATCTATCCCCAAAAAGAAGAACCCAATCTTTCGTCGTGTTGAACGCCCTAACCCTCCCTCTACTTCTCCTTCCGGGTCGACTCCTATTTCGGATCCGGCTTATGGTAATGGCGAAAACATAACTTCGGGGACGGAGCATTCTTTGGAGCAGACCTTGAGTTCATTTTTGGCCCATAATGGTGCGACTGGTTCTGGTACAAGTGAAACTGCAGCCATAGTGCAGGATATGCAACAAGATGTCGTGGCTTCAAAGAAAAGGGATAGGAATGGAGGTTGTGATCCCTCTCTGAAGAAGTTCAAGACCATTTTGGGTGGTAAAATTCCAACTTTGCAGGCTAATGCTTTGGGTTTGGTTGGAGACGACAATGATATTCCTCTTGTCACTCTCAAGAAGAAGATGGGTAGGCCGCTGGGCAGCAGGAATAAGAGCCAACGCTCTGGGAAGAAGGCCGGAGCGGCCCCTCTGAGACTCACCTACCCTGCAGCCAGTGCTTCAGGTTCTAGCCCTAGAGATAAGGGCAAAGGAAAGCTTTAG

Protein Analysis

372

Amino Acids

40.64

Weight (kDa)

9.58

Isoelectric Point (pI)

39.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC_4 PF14392 110 - 156 1e-07 Zinc knuckle
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0014105)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09680
fragaria_vesca FvH4_1g30171
malus_domestica MD17G1268500.v1.1
prunus_persica Prupe.3G166000_v2.0.a1
pyrus_communis pycom17g26700
rosa_chinensis RchiOBHm_Chr3g0491601
rosa_laevigata RLG00000022834
rosa_roxburghii Rroxscaffold_6G00392790
rosa_rugosa Rorug03G0250400 Rorug03G0250500 Rorug03G0250600 Rorug03G0250600 Rorug03G0250600
rosa_samantha Rh3AG299400 Rh3CG332200 Rh3DG333900
rosa_wichuraiana Rw3G026450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 355, 1040
AccI GTMKAC 1 cut(s) 662
AciI CCGC 5 cut(s) 35, 355, 473, 992, 1040
AclWI GGATC 3 cut(s) 671, 684, 857
AcsI RAATTY 3 cut(s) 235, 290, 903
AcuI CTGAAG 2 cut(s) 893, 1062
AcyI GRCGYC 1 cut(s) 378
AdeI CACNNNGTG 1 cut(s) 434
AfaI GTAC 1 cut(s) 781
AfiI CCNNNNNNNGG 2 cut(s) 531, 686
AflIII ACRYGT 1 cut(s) 184
AgeI ACCGGT 1 cut(s) 385
AjuI GAANNNNNNNTTGG 2 cut(s) 350, 382
AluBI AGCT 2 cut(s) 119, 1114
AluI AGCT 2 cut(s) 119, 1114
Alw21I GWGCWC 1 cut(s) 121
Alw26I GTCTC 2 cut(s) 936, 1045
AlwI GGATC 3 cut(s) 671, 684, 857
AoxI GGCC 4 cut(s) 753, 989, 1032, 1041
ApeKI GCWGC 4 cut(s) 469, 794, 999, 1067
ApoI RAATTY 3 cut(s) 235, 290, 903
ArsI GACNNNNNNTTYG 2 cut(s) 655, 687
AsiGI ACCGGT 1 cut(s) 385
Asp700I GAANNNNTTC 4 cut(s) 66, 290, 362, 878
AspS9I GGNCC 2 cut(s) 754, 1042
AsuC2I CCSGG 1 cut(s) 658
AsuHPI GGTGA 3 cut(s) 160, 313, 1048
AxyI CCTNAGG 1 cut(s) 526
BamHI GGATCC 1 cut(s) 676
BanII GRGCYC 1 cut(s) 121
BbsI GAAGAC 1 cut(s) 37
Bbv12I GWGCWC 1 cut(s) 121
BbvI GCAGC 4 cut(s) 481, 806, 1011, 1079
BccI CCATC 2 cut(s) 137, 976
BcnI CCSGG 1 cut(s) 658
BcoDI GTCTC 2 cut(s) 936, 1045
BfaI CTAG 3 cut(s) 495, 1086, 1092
BfmI CTRYAG 2 cut(s) 792, 1065
BglI GCCNNNNNGGC 1 cut(s) 1040
BglII AGATCT 1 cut(s) 312
BisI GCNGC 7 cut(s) 470, 473, 795, 992, 1000, 1041, 1068
BlsI GCNGC 7 cut(s) 471, 474, 796, 993, 1001, 1042, 1069
Bme1390I CCNGG 1 cut(s) 658
BmgT120I GGNCC 2 cut(s) 754, 1042
BmiI GGNNCC 2 cut(s) 678, 1044
BmrFI CCNGG 1 cut(s) 658
BmsI GCATC 1 cut(s) 187
BpiI GAAGAC 1 cut(s) 37
BpuEI CTTGAG 4 cut(s) 280, 371, 760, 956
BpuMI CCSGG 1 cut(s) 658
BsaAI YACGTR 2 cut(s) 92, 185
BsaBI GATNNNNATC 1 cut(s) 311
BsaHI GRCGYC 1 cut(s) 378
BsaJI CCNNGG 1 cut(s) 512
BsaWI WCCGGW 1 cut(s) 385
Bsc4I CCNNNNNNNGG 2 cut(s) 531, 686
Bse118I RCCGGY 1 cut(s) 385
Bse1I ACTGG 3 cut(s) 444, 775, 1071
Bse21I CCTNAGG 1 cut(s) 526
Bse8I GATNNNNATC 1 cut(s) 311
BseDI CCNNGG 1 cut(s) 512
BseGI GGATG 1 cut(s) 376
BseJI GATNNNNATC 1 cut(s) 311
BseLI CCNNNNNNNGG 2 cut(s) 531, 686
BseMII CTCAG 4 cut(s) 222, 540, 566, 1040
BseNI ACTGG 3 cut(s) 444, 775, 1071
BseRI GAGGAG 1 cut(s) 111
BseXI GCAGC 4 cut(s) 481, 806, 1011, 1079
BseYI CCCAGC 2 cut(s) 452, 994
BsgI GTGCAG 1 cut(s) 824
BshFI GGCC 4 cut(s) 755, 991, 1034, 1043
BshTI ACCGGT 1 cut(s) 385
BsiHKAI GWGCWC 1 cut(s) 121
BsiSI CCGG 4 cut(s) 386, 657, 680, 1035
BslFI GGGAC 1 cut(s) 727
BslI CCNNNNNNNGG 2 cut(s) 531, 686
BsmAI GTCTC 2 cut(s) 936, 1045
BsmBI CGTCTC 1 cut(s) 936
BsmFI GGGAC 1 cut(s) 727
BsmI GAATGC 1 cut(s) 721
BsnI GGCC 4 cut(s) 755, 991, 1034, 1043
Bsp1286I GDGCHC 1 cut(s) 121
Bsp143I GATC 4 cut(s) 73, 312, 676, 862
BspACI CCGC 5 cut(s) 35, 355, 473, 992, 1040
BspANI GGCC 4 cut(s) 755, 991, 1034, 1043
BspCNI CTCAG 4 cut(s) 223, 539, 565, 1041
BspLI GGNNCC 2 cut(s) 678, 1044
BspMAI CTGCAG 2 cut(s) 796, 1069
BspPI GGATC 3 cut(s) 671, 684, 857
BsrBI CCGCTC 2 cut(s) 355, 1040
BsrFI RCCGGY 1 cut(s) 385
BsrI ACTGG 3 cut(s) 444, 775, 1071
BssAI RCCGGY 1 cut(s) 385
BssECI CCNNGG 1 cut(s) 512
BssMI GATC 4 cut(s) 73, 312, 676, 862
BssNI GRCGYC 1 cut(s) 378
Bst4CI ACNGT 1 cut(s) 432
BstACI GRCGYC 1 cut(s) 378
BstAPI GCANNNNNTGC 2 cut(s) 811, 1073
BstBAI YACGTR 2 cut(s) 92, 185
BstC8I GCNNGC 3 cut(s) 37, 450, 918
BstDEI CTNAG 5 cut(s) 231, 271, 526, 552, 1049
BstF5I GGATG 1 cut(s) 376
BstKTI GATC 4 cut(s) 76, 315, 679, 865
BstMAI GTCTC 2 cut(s) 936, 1045
BstMBI GATC 4 cut(s) 73, 312, 676, 862
BstMWI GCNNNNNNNGC 4 cut(s) 458, 811, 1040, 1073
BstNSI RCATGY 2 cut(s) 452, 465
BstSCI CCNGG 1 cut(s) 656
BstSFI CTRYAG 2 cut(s) 792, 1065
BstV1I GCAGC 4 cut(s) 481, 806, 1011, 1079
BstV2I GAAGAC 1 cut(s) 37
BstX2I RGATCY 2 cut(s) 312, 676
BstXI CCANNNNNNTGG 1 cut(s) 1022
BstYI RGATCY 2 cut(s) 312, 676
Bsu36I CCTNAGG 1 cut(s) 526
BsuRI GGCC 4 cut(s) 755, 991, 1034, 1043
BtgZI GCGATG 1 cut(s) 54
BtsCI GGATG 1 cut(s) 376
BtsI GCAGTG 1 cut(s) 573
BtsIMutI CAGTG 3 cut(s) 437, 573, 1078
Cac8I GCNNGC 3 cut(s) 37, 450, 918
Cfr10I RCCGGY 1 cut(s) 385
Cfr13I GGNCC 2 cut(s) 754, 1042
CseI GACGC 1 cut(s) 367
Csp6I GTAC 1 cut(s) 780
CspAI ACCGGT 1 cut(s) 385
CspCI CAANNNNNGTGG 2 cut(s) 283, 318
CviAII CATG 4 cut(s) 161, 326, 449, 462
CviQI GTAC 1 cut(s) 780
DdeI CTNAG 5 cut(s) 231, 271, 526, 552, 1049
DpnI GATC 4 cut(s) 75, 314, 678, 864
DpnII GATC 4 cut(s) 73, 312, 676, 862
DraIII CACNNNGTG 1 cut(s) 434
Ecl136II GAGCTC 1 cut(s) 119
Eco24I GRGCYC 1 cut(s) 121
Eco32I GATATC 1 cut(s) 331
Eco53kI GAGCTC 1 cut(s) 119
Eco57I CTGAAG 2 cut(s) 893, 1062
Eco81I CCTNAGG 1 cut(s) 526
EcoICRI GAGCTC 1 cut(s) 119
EcoRI GAATTC 1 cut(s) 290
EcoRV GATATC 1 cut(s) 331
EcoT38I GRGCYC 1 cut(s) 121
Esp3I CGTCTC 1 cut(s) 936
FaeI CATG 4 cut(s) 164, 329, 452, 465
FalI AAGNNNNNCTT 3 cut(s) 350, 382, 1098
FaqI GGGAC 1 cut(s) 727
FatI CATG 4 cut(s) 160, 325, 448, 461
FauI CCCGC 1 cut(s) 28
FblI GTMKAC 1 cut(s) 662
Fnu4HI GCNGC 7 cut(s) 470, 473, 795, 992, 1000, 1041, 1068
FokI GGATG 1 cut(s) 383
FriOI GRGCYC 1 cut(s) 121
Fsp4HI GCNGC 7 cut(s) 470, 473, 795, 992, 1000, 1041, 1068
FspBI CTAG 3 cut(s) 495, 1086, 1092
GluI GCNGC 7 cut(s) 470, 473, 795, 992, 1000, 1041, 1068
GsaI CCCAGC 2 cut(s) 456, 998
HaeIII GGCC 4 cut(s) 755, 991, 1034, 1043
HapII CCGG 4 cut(s) 386, 657, 680, 1035
HgaI GACGC 1 cut(s) 367
Hin1I GRCGYC 1 cut(s) 378
Hin1II CATG 4 cut(s) 164, 329, 452, 465
HincII GTYRAC 2 cut(s) 522, 663
HindII GTYRAC 2 cut(s) 522, 663
HindIII AAGCTT 1 cut(s) 1112
HinfI GANTC 5 cut(s) 62, 208, 307, 664, 1053
HpaII CCGG 4 cut(s) 386, 657, 680, 1035
HphI GGTGA 3 cut(s) 160, 313, 1048
Hpy166II GTNNAC 4 cut(s) 428, 437, 522, 663
Hpy188I TCNGA 8 cut(s) 78, 312, 414, 513, 555, 676, 873, 1050
Hpy188III TCNNGA 7 cut(s) 26, 71, 259, 295, 528, 883, 973
Hpy8I GTNNAC 4 cut(s) 428, 437, 522, 663
Hpy99I CGWCG 2 cut(s) 383, 621
HpyAV CCTTC 4 cut(s) 280, 292, 663, 1024
HpyCH4III ACNGT 1 cut(s) 432
HpyCH4IV ACGT 2 cut(s) 91, 184
HpyCH4V TGCA 7 cut(s) 160, 461, 794, 805, 814, 916, 1067
HpyF10VI GCNNNNNNNGC 4 cut(s) 458, 811, 1040, 1073
HpyF3I CTNAG 5 cut(s) 231, 271, 526, 552, 1049
HpySE526I ACGT 2 cut(s) 91, 184
Hsp92I GRCGYC 1 cut(s) 378
Hsp92II CATG 4 cut(s) 164, 329, 452, 465
Kzo9I GATC 4 cut(s) 73, 312, 676, 862
LmnI GCTCC 4 cut(s) 124, 718, 730, 1037
Lsp1109I GCAGC 4 cut(s) 481, 806, 1011, 1079
LweI GCATC 1 cut(s) 187
MaeI CTAG 3 cut(s) 495, 1086, 1092
MaeII ACGT 2 cut(s) 91, 184
MaeIII GTNAC 2 cut(s) 442, 964
MalI GATC 4 cut(s) 75, 314, 678, 864
MbiI CCGCTC 2 cut(s) 355, 1040
MboI GATC 4 cut(s) 73, 312, 676, 862
MflI RGATCY 2 cut(s) 312, 676
MhlI GDGCHC 1 cut(s) 121
MluCI AATT 6 cut(s) 170, 235, 290, 395, 401, 903
MlyI GAGTC 2 cut(s) 658, 1047
MmeI TCCRAC 2 cut(s) 919, 932
MroXI GAANNNNTTC 4 cut(s) 66, 290, 362, 878
MslI CAYNNNNRTG 2 cut(s) 183, 762
MspA1I CMGCKG 1 cut(s) 994
MspI CCGG 4 cut(s) 386, 657, 680, 1035
MspR9I CCNGG 1 cut(s) 658
Mva1269I GAATGC 1 cut(s) 721
MwoI GCNNNNNNNGC 4 cut(s) 458, 811, 1040, 1073
NciI CCSGG 1 cut(s) 658
NdeII GATC 4 cut(s) 73, 312, 676, 862
NlaIII CATG 4 cut(s) 164, 329, 452, 465
NlaIV GGNNCC 2 cut(s) 678, 1044
NmuCI GTSAC 2 cut(s) 442, 964
NspI RCATGY 2 cut(s) 452, 465
PaeI GCATGC 1 cut(s) 452
PctI GAATGC 1 cut(s) 721
PdmI GAANNNNTTC 4 cut(s) 66, 290, 362, 878
PfeI GAWTC 3 cut(s) 62, 208, 307
PinAI ACCGGT 1 cut(s) 385
PkrI GCNGC 7 cut(s) 471, 474, 796, 993, 1001, 1042, 1069
PleI GAGTC 2 cut(s) 658, 1047
PpsI GAGTC 2 cut(s) 658, 1047
Ppu21I YACGTR 2 cut(s) 92, 185
Psp124BI GAGCTC 1 cut(s) 121
PspFI CCCAGC 2 cut(s) 452, 994
PspN4I GGNNCC 2 cut(s) 678, 1044
PspPI GGNCC 2 cut(s) 754, 1042
PstI CTGCAG 2 cut(s) 796, 1069
PsuI RGATCY 2 cut(s) 312, 676
RsaI GTAC 1 cut(s) 781
RsaNI GTAC 1 cut(s) 780
RseI CAYNNNNRTG 2 cut(s) 183, 762
SacI GAGCTC 1 cut(s) 121
SalI GTCGAC 1 cut(s) 661
SatI GCNGC 7 cut(s) 470, 473, 795, 992, 1000, 1041, 1068
Sau3AI GATC 4 cut(s) 73, 312, 676, 862
Sau96I GGNCC 2 cut(s) 754, 1042
SchI GAGTC 2 cut(s) 658, 1047
ScrFI CCNGG 1 cut(s) 658
SduI GDGCHC 1 cut(s) 121
SfaNI GCATC 1 cut(s) 187
SfcI CTRYAG 2 cut(s) 792, 1065
SfiI GGCCNNNNNGGCC 1 cut(s) 1040
SmiMI CAYNNNNRTG 2 cut(s) 183, 762
SmlI CTYRAG 4 cut(s) 259, 350, 739, 971
SmoI CTYRAG 4 cut(s) 259, 350, 739, 971
SphI GCATGC 1 cut(s) 452
Sse9I AATT 6 cut(s) 170, 235, 290, 395, 401, 903
SsiI CCGC 5 cut(s) 35, 355, 473, 992, 1040
SspMI CTAG 3 cut(s) 495, 1086, 1092
SstI GAGCTC 1 cut(s) 121
StyD4I CCNGG 1 cut(s) 656
TaaI ACNGT 1 cut(s) 432
TaiI ACGT 2 cut(s) 94, 187
TaqI TCGA 2 cut(s) 381, 662
TasI AATT 6 cut(s) 170, 235, 290, 395, 401, 903
TauI GCSGC 3 cut(s) 475, 994, 1043
TfiI GAWTC 3 cut(s) 62, 208, 307
TscAI CASTG 3 cut(s) 437, 580, 1078
TseFI GTSAC 2 cut(s) 442, 964
TseI GCWGC 4 cut(s) 469, 794, 999, 1067
Tsp45I GTSAC 2 cut(s) 442, 964
TspDTI ATGAA 3 cut(s) 177, 237, 735
TspGWI ACGGA 2 cut(s) 477, 731
TspRI CASTG 3 cut(s) 437, 580, 1078
XapI RAATTY 3 cut(s) 235, 290, 903
XceI RCATGY 2 cut(s) 452, 465
XmiI GTMKAC 1 cut(s) 662
XmnI GAANNNNTTC 4 cut(s) 66, 290, 362, 878
XspI CTAG 3 cut(s) 495, 1086, 1092
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.