RLG00000024485

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0016022
Physical Location & Seq
Reverse (-)
36325357 .. 36326905
1549 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000024485

Sequence Viewer

Length: 1230 bp
ATGAAACCCGTATTGTGCAGATTGAGAGAGGTACAAAGGACAGTTCACACTTCAGCTTGTGCCCTTCTTACTGAAACCCAGAAAGCTAATGCCTTTCTTGTTAGACATTCAAAGACCTCAGAGACATTCTTGACTGCCCACCAAGTGTTCGACGAAGCGCCTGACTTAAACGTGGTCTCGGCCACAACAATAATAGGCAGCTTTGCTCGGCAGCACCATCATGAACAAGCTGTGTATCTCTTTTCAAGAATGCTTGTTTTGAATATTCCACCCAACGAGTACACATTTGGCACTGTCATTCACTCCTCGACCGCGCTTGGAGATTTGAATATAGGCAAGCAACTTCATGCATGTGCAACAAAGATGGGTTTGCATTCGAATGTCTTTGTGGGTAGTGCAATTTTGGATCTTTATGCGAAGCTGAGCATAATCCAGGATGCTCGAAGAGCTTTCGAAGATACCCAGAAGCCGAATGTGGTTTCCTACACTACATTGATATGTGCTTACCTGAAAAAGGAGATGCTTGAAGATGCTCTCGAGCTTTTCCGAGTGATGCCAGAGAGGAATGTAGTTTCATGGAATGCGATGATTGGAGGGTATAGCCAAACAGGCCACAATGAAGAGGCTGTGAATCTTTTCATTGAGATGCTTCGAAATGGGTTGGTGCCGAGTCAGTCTACTTTTCCTTGTGCTATAATTGCAGCCGCCAATATAGCAGCACTAGGAATTGGGAGAAGCTTTCATGCCTGTGCTGTCAAGGCCTTGGGTAAGTTTGATGTGTTTATTAGCAATTCTCTAATAAGCTTTTATGCAAAATGTGGGAGCATGGAAGATAGTCTCTTGGTTTTTGATAAGCTCAGGGGAAGAAACATTGTTTCTTGGAATGCTGTGATTTGTGGGTATGCTCAAAATGGTAGAGGAGAGGAAGCCATAAGCTTTTTCGAAAAGATGAGGGTCTCAGATTATAAACCCAATAGTGTTACACTTCTTGGGTTATTGTGGGCGTGTAATCATGCTGGTCTTGTTGACAAGGGCTACTCCTATTTTAACCAGGCAAGAATGGAGGACGCTGGCATTCTAAAGCCCGAGCATTACGCTTGTATGGTTGATTTACTCTCGCGCTCAGGGTGTTTCAGACAAGCTGAGGAGTTTATTAATGATTTGCCTTTTGAACCAGAGCATTTGAGGGAGAATAAATCGAGAGGAGAAAATTGTCTTGATGATATTTAA

Protein Analysis

410

Amino Acids

45.53

Weight (kDa)

6.4

Isoelectric Point (pI)

48.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 57 - 101 4.8e-09 PPR repeat family
PPR_1 PF12854 156 - 185 5e-07 PPR repeat
PPR_2 PF13041 157 - 190 1.8e-08 PPR repeat family
PPR PF01535 160 - 190 5.3e-07 PPR repeat
PPR_2 PF13041 188 - 229 2.6e-11 PPR repeat family
PPR PF01535 191 - 221 1e-08 PPR repeat
PPR_2 PF13041 289 - 333 3.9e-11 PPR repeat family
PPR PF01535 292 - 320 1.5e-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: OG0016022)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42450 AT5G42450
fragaria_vesca FvH4_6g14440 FvH4_6g14560
malus_domestica MD12G1136500.v1.1
prunus_persica Prupe.6G248900_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0467611
rosa_laevigata RLG00000024485
rosa_multiflora Rmu_sc0011632.1_g000010
rosa_roxburghii Rroxscaffold_6G00413550
rosa_rugosa Rorug03G0088500
rosa_samantha Rh3AG136800 Rh3BG158600 Rh3DG159100
rosa_wichuraiana Rw3G012960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 966
AccB1I GGYRCC 1 cut(s) 664
AccI GTMKAC 1 cut(s) 677
AccII CGCG 2 cut(s) 314, 1120
AciI CCGC 2 cut(s) 312, 705
AclWI GGATC 1 cut(s) 414
AcoI YGGCCR 1 cut(s) 180
AcuI CTGAAG 1 cut(s) 36
AdeI CACNNNGTG 1 cut(s) 145
AfaI GTAC 2 cut(s) 33, 281
AfiI CCNNNNNNNGG 1 cut(s) 514
AgsI TTSAA 6 cut(s) 111, 246, 262, 328, 527, 1172
AjnI CCWGG 2 cut(s) 432, 1050
Alw26I GTCTC 4 cut(s) 116, 181, 842, 961
AlwI GGATC 1 cut(s) 414
Ama87I CYCGRG 2 cut(s) 536, 1085
AoxI GGCC 3 cut(s) 180, 610, 759
ApeKI GCWGC 4 cut(s) 198, 211, 701, 716
AseI ATTAAT 1 cut(s) 1155
Asp700I GAANNNNTTC 1 cut(s) 635
AspLEI GCGC 3 cut(s) 160, 316, 1122
AsuII TTCGAA 4 cut(s) 377, 453, 652, 942
AvaI CYCGRG 2 cut(s) 536, 1085
BaeGI GKGCMC 1 cut(s) 64
BanI GGYRCC 1 cut(s) 664
BbvCI CCTCAGC 1 cut(s) 1143
BbvI GCAGC 4 cut(s) 210, 223, 713, 728
BccI CCATC 2 cut(s) 225, 358
BciT130I CCWGG 2 cut(s) 434, 1052
BcoDI GTCTC 4 cut(s) 116, 181, 842, 961
BfaI CTAG 1 cut(s) 722
BfoI RGCGCY 1 cut(s) 161
BglI GCCNNNNNGGC 1 cut(s) 609
BisI GCNGC 5 cut(s) 199, 212, 702, 705, 717
BlpI GCTNAGC 1 cut(s) 422
BlsI GCNGC 5 cut(s) 200, 213, 703, 706, 718
Bme1390I CCNGG 2 cut(s) 434, 1052
BmeT110I CYCGRG 2 cut(s) 536, 1085
BmiI GGNNCC 1 cut(s) 666
BmrFI CCNGG 2 cut(s) 434, 1052
BmsI GCATC 5 cut(s) 427, 510, 520, 543, 636
Bpu10I CCTNAGC 3 cut(s) 857, 1123, 1143
Bpu1102I GCTNAGC 1 cut(s) 422
Bpu14I TTCGAA 4 cut(s) 377, 453, 652, 942
BsaI GGTCTC 2 cut(s) 181, 961
BsaJI CCNNGG 1 cut(s) 762
Bsc4I CCNNNNNNNGG 1 cut(s) 514
BseBI CCWGG 2 cut(s) 434, 1052
BseDI CCNNGG 1 cut(s) 762
BseGI GGATG 1 cut(s) 442
BseLI CCNNNNNNNGG 1 cut(s) 514
BseMII CTCAG 6 cut(s) 132, 413, 871, 972, 1134, 1137
BseRI GAGGAG 4 cut(s) 295, 933, 1160, 1218
BseSI GKGCMC 1 cut(s) 64
BseXI GCAGC 4 cut(s) 210, 223, 713, 728
BsgI GTGCAG 1 cut(s) 37
Bsh1236I CGCG 2 cut(s) 314, 1120
Bsh1285I CGRYCG 1 cut(s) 312
BshFI GGCC 3 cut(s) 182, 612, 761
BshNI GGYRCC 1 cut(s) 664
BsiEI CGRYCG 1 cut(s) 312
BsiHKCI CYCGRG 2 cut(s) 536, 1085
BslI CCNNNNNNNGG 1 cut(s) 514
BsmAI GTCTC 4 cut(s) 116, 181, 842, 961
BsmI GAATGC 5 cut(s) 255, 373, 586, 889, 1074
BsnI GGCC 3 cut(s) 182, 612, 761
Bso31I GGTCTC 2 cut(s) 181, 961
BsoBI CYCGRG 2 cut(s) 536, 1085
Bsp119I TTCGAA 4 cut(s) 377, 453, 652, 942
Bsp1286I GDGCHC 1 cut(s) 64
Bsp143I GATC 1 cut(s) 406
Bsp1720I GCTNAGC 1 cut(s) 422
BspACI CCGC 2 cut(s) 312, 705
BspANI GGCC 3 cut(s) 182, 612, 761
BspCNI CTCAG 6 cut(s) 131, 414, 870, 971, 1135, 1136
BspFNI CGCG 2 cut(s) 314, 1120
BspHI TCATGA 1 cut(s) 220
BspLI GGNNCC 1 cut(s) 666
BspPI GGATC 1 cut(s) 414
BspQI GCTCTTC 1 cut(s) 439
BspT104I TTCGAA 4 cut(s) 377, 453, 652, 942
BspT107I GGYRCC 1 cut(s) 664
BspTNI GGTCTC 2 cut(s) 181, 961
BssECI CCNNGG 1 cut(s) 762
BssMI GATC 1 cut(s) 406
BssT1I CCWWGG 1 cut(s) 762
Bst2UI CCWGG 2 cut(s) 434, 1052
Bst4CI ACNGT 2 cut(s) 43, 295
Bst6I CTCTTC 2 cut(s) 439, 615
BstBI TTCGAA 4 cut(s) 377, 453, 652, 942
BstC8I GCNNGC 2 cut(s) 338, 1072
BstDEI CTNAG 6 cut(s) 118, 422, 857, 958, 1123, 1143
BstENI CCTNNNNNAGG 1 cut(s) 512
BstF5I GGATG 1 cut(s) 442
BstFNI CGCG 2 cut(s) 314, 1120
BstH2I RGCGCY 1 cut(s) 161
BstHHI GCGC 3 cut(s) 160, 316, 1122
BstKTI GATC 1 cut(s) 409
BstMAI GTCTC 4 cut(s) 116, 181, 842, 961
BstMBI GATC 1 cut(s) 406
BstMCI CGRYCG 1 cut(s) 312
BstMWI GCNNNNNNNGC 5 cut(s) 446, 609, 698, 713, 758
BstNI CCWGG 2 cut(s) 434, 1052
BstNSI RCATGY 1 cut(s) 354
BstSCI CCNGG 2 cut(s) 432, 1050
BstSLI GKGCMC 1 cut(s) 64
BstUI CGCG 2 cut(s) 314, 1120
BstV1I GCAGC 4 cut(s) 210, 223, 713, 728
BstX2I RGATCY 1 cut(s) 406
BstYI RGATCY 1 cut(s) 406
BsuRI GGCC 3 cut(s) 182, 612, 761
BtgZI GCGATG 1 cut(s) 599
BtsCI GGATG 1 cut(s) 442
BtsIMutI CAGTG 1 cut(s) 291
Cac8I GCNNGC 2 cut(s) 338, 1072
CciI TCATGA 1 cut(s) 220
CfoI GCGC 3 cut(s) 160, 316, 1122
CseI GACGC 1 cut(s) 1076
Csp6I GTAC 2 cut(s) 32, 280
CviAII CATG 7 cut(s) 221, 347, 351, 576, 743, 826, 1013
CviQI GTAC 2 cut(s) 32, 280
DdeI CTNAG 6 cut(s) 118, 422, 857, 958, 1123, 1143
DpnI GATC 1 cut(s) 408
DpnII GATC 1 cut(s) 406
DraIII CACNNNGTG 1 cut(s) 145
EaeI YGGCCR 1 cut(s) 180
Eam1104I CTCTTC 2 cut(s) 439, 615
EarI CTCTTC 2 cut(s) 439, 615
Eco130I CCWWGG 1 cut(s) 762
Eco147I AGGCCT 1 cut(s) 761
Eco31I GGTCTC 2 cut(s) 181, 961
Eco57I CTGAAG 1 cut(s) 36
Eco88I CYCGRG 2 cut(s) 536, 1085
EcoNI CCTNNNNNAGG 1 cut(s) 512
EcoRII CCWGG 2 cut(s) 432, 1050
EcoT14I CCWWGG 1 cut(s) 762
EcoT22I ATGCAT 1 cut(s) 352
ErhI CCWWGG 1 cut(s) 762
FaeI CATG 7 cut(s) 224, 350, 354, 579, 746, 829, 1016
FatI CATG 7 cut(s) 220, 346, 350, 575, 742, 825, 1012
FblI GTMKAC 1 cut(s) 677
Fnu4HI GCNGC 5 cut(s) 199, 212, 702, 705, 717
FokI GGATG 1 cut(s) 449
Fsp4HI GCNGC 5 cut(s) 199, 212, 702, 705, 717
FspBI CTAG 1 cut(s) 722
GlaI GCGC 3 cut(s) 159, 315, 1121
GluI GCNGC 5 cut(s) 199, 212, 702, 705, 717
HaeII RGCGCY 1 cut(s) 161
HaeIII GGCC 3 cut(s) 182, 612, 761
HgaI GACGC 1 cut(s) 1076
HhaI GCGC 3 cut(s) 160, 316, 1122
Hin1II CATG 7 cut(s) 224, 350, 354, 579, 746, 829, 1016
Hin6I GCGC 3 cut(s) 158, 314, 1120
HinP1I GCGC 3 cut(s) 158, 314, 1120
HincII GTYRAC 1 cut(s) 1027
HindII GTYRAC 1 cut(s) 1027
HindIII AAGCTT 3 cut(s) 736, 802, 934
HinfI GANTC 2 cut(s) 631, 670
Hpy166II GTNNAC 4 cut(s) 46, 282, 678, 1027
Hpy188I TCNGA 4 cut(s) 121, 548, 961, 1136
Hpy188III TCNNGA 6 cut(s) 130, 221, 246, 536, 1200, 1217
Hpy8I GTNNAC 4 cut(s) 46, 282, 678, 1027
Hpy99I CGWCG 1 cut(s) 155
HpyAV CCTTC 1 cut(s) 74
HpyCH4III ACNGT 2 cut(s) 43, 295
HpyCH4IV ACGT 1 cut(s) 171
HpyCH4V TGCA 7 cut(s) 18, 350, 356, 373, 398, 701, 812
HpyF10VI GCNNNNNNNGC 5 cut(s) 446, 609, 698, 713, 758
HpyF3I CTNAG 6 cut(s) 118, 422, 857, 958, 1123, 1143
HpySE526I ACGT 1 cut(s) 171
Hsp92II CATG 7 cut(s) 224, 350, 354, 579, 746, 829, 1016
HspAI GCGC 3 cut(s) 158, 314, 1120
Kzo9I GATC 1 cut(s) 406
LguI GCTCTTC 1 cut(s) 439
LmnI GCTCC 1 cut(s) 822
Lsp1109I GCAGC 4 cut(s) 210, 223, 713, 728
LweI GCATC 5 cut(s) 427, 510, 520, 543, 636
MaeI CTAG 1 cut(s) 722
MaeII ACGT 1 cut(s) 171
MaeIII GTNAC 1 cut(s) 979
MalI GATC 1 cut(s) 408
MboI GATC 1 cut(s) 406
MboII GAAGA 6 cut(s) 456, 467, 539, 632, 842, 876
MflI RGATCY 1 cut(s) 406
MhlI GDGCHC 1 cut(s) 64
MluCI AATT 5 cut(s) 399, 696, 726, 790, 1210
MlyI GAGTC 1 cut(s) 679
Mph1103I ATGCAT 1 cut(s) 352
MroXI GAANNNNTTC 1 cut(s) 635
MseI TTAA 4 cut(s) 167, 1047, 1155, 1228
MslI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
MspR9I CCNGG 2 cut(s) 434, 1052
Mva1269I GAATGC 5 cut(s) 255, 373, 586, 889, 1074
MvaI CCWGG 2 cut(s) 434, 1052
MvnI CGCG 2 cut(s) 314, 1120
MwoI GCNNNNNNNGC 5 cut(s) 446, 609, 698, 713, 758
NdeII GATC 1 cut(s) 406
NlaIII CATG 7 cut(s) 224, 350, 354, 579, 746, 829, 1016
NlaIV GGNNCC 1 cut(s) 666
NmeAIII GCCGAG 3 cut(s) 158, 187, 693
NsiI ATGCAT 1 cut(s) 352
NspI RCATGY 1 cut(s) 354
NspV TTCGAA 4 cut(s) 377, 453, 652, 942
PaeR7I CTCGAG 1 cut(s) 536
PagI TCATGA 1 cut(s) 220
PceI AGGCCT 1 cut(s) 761
PciSI GCTCTTC 1 cut(s) 439
PctI GAATGC 5 cut(s) 255, 373, 586, 889, 1074
PdmI GAANNNNTTC 1 cut(s) 635
PfeI GAWTC 1 cut(s) 631
PfoI TCCNGGA 1 cut(s) 432
PkrI GCNGC 5 cut(s) 200, 213, 703, 706, 718
PleI GAGTC 1 cut(s) 678
PpsI GAGTC 1 cut(s) 678
PshBI ATTAAT 1 cut(s) 1155
PsiI TTATAA 1 cut(s) 966
Psp6I CCWGG 2 cut(s) 432, 1050
PspGI CCWGG 2 cut(s) 432, 1050
PspN4I GGNNCC 1 cut(s) 666
PsuI RGATCY 1 cut(s) 406
RsaI GTAC 2 cut(s) 33, 281
RsaNI GTAC 2 cut(s) 32, 280
RseI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
SapI GCTCTTC 1 cut(s) 439
SaqAI TTAA 4 cut(s) 167, 1047, 1155, 1228
SatI GCNGC 5 cut(s) 199, 212, 702, 705, 717
Sau3AI GATC 1 cut(s) 406
SchI GAGTC 1 cut(s) 679
ScrFI CCNGG 2 cut(s) 434, 1052
SduI GDGCHC 1 cut(s) 64
SfaNI GCATC 5 cut(s) 427, 510, 520, 543, 636
Sfr274I CTCGAG 1 cut(s) 536
SfuI TTCGAA 4 cut(s) 377, 453, 652, 942
SlaI CTCGAG 1 cut(s) 536
SmiMI CAYNNNNRTG 6 cut(s) 219, 351, 378, 496, 644, 747
SmlI CTYRAG 1 cut(s) 536
SmoI CTYRAG 1 cut(s) 536
Sse9I AATT 5 cut(s) 399, 696, 726, 790, 1210
SseBI AGGCCT 1 cut(s) 761
SsiI CCGC 2 cut(s) 312, 705
SspI AATATT 1 cut(s) 265
SspMI CTAG 1 cut(s) 722
StuI AGGCCT 1 cut(s) 761
StyD4I CCNGG 2 cut(s) 432, 1050
StyI CCWWGG 1 cut(s) 762
TaaI ACNGT 2 cut(s) 43, 295
TaiI ACGT 1 cut(s) 174
TaqI TCGA 9 cut(s) 150, 308, 377, 442, 453, 537, 652, 942, 1199
TasI AATT 5 cut(s) 399, 696, 726, 790, 1210
TatI WGTACW 1 cut(s) 279
TauI GCSGC 1 cut(s) 707
TfiI GAWTC 1 cut(s) 631
Tru1I TTAA 4 cut(s) 167, 1047, 1155, 1228
Tru9I TTAA 4 cut(s) 167, 1047, 1155, 1228
TscAI CASTG 1 cut(s) 298
TseI GCWGC 4 cut(s) 198, 211, 701, 716
TspDTI ATGAA 7 cut(s) 17, 237, 335, 564, 628, 633, 731
TspRI CASTG 1 cut(s) 298
VspI ATTAAT 1 cut(s) 1155
XagI CCTNNNNNAGG 1 cut(s) 512
XceI RCATGY 1 cut(s) 354
XhoI CTCGAG 1 cut(s) 536
XmiI GTMKAC 1 cut(s) 677
XmnI GAANNNNTTC 1 cut(s) 635
XspI CTAG 1 cut(s) 722
Zsp2I ATGCAT 1 cut(s) 352
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.