RLG00000024007

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0001542
Physical Location & Seq
Forward (+)
30860847 .. 30939960
79114 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000024007

Sequence Viewer

Length: 1734 bp
ATGGTAACTGGGTTTTCTCAGAACTTGAGGTTCTTGGAGAGTTTCAAGGCTTTTTCCCAGATGAGAAGTGCTGGGGAGAGCCCGACCCAGTTTGCATTTGCAAGTGTCATCAAAGCTTGTGTGGTTCTTGGGTCGGTTGAGACTGCGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGCTTGGCTTGTGAGCTGTTTGTGGGTAGTAACTTGGCGGATATGTATTCGAAATGTGGGTTCATGGTTGATGCTTGTAAGGTTTTCGAGGAAATGCTGAGTAAGGATGCAATATCGTGGACTTCGATGATTGATGGATATGCAAATGCATTGAGTGCTTGTTCTGCACTGAAGGCTTGTCAGTTTGGAAAGTGTGTTCATTTGACGGTTGTGAAGTTAGGATTGGAAGTAGAGGTTGCTGTGGGAAATGCTCTGATTGATATGTACTCAAAATCAGGTGATATGGAGAGTGCTTTAAATGTGTTTCGGGTTGACCCTGAGTGCAGAAATATTGTGTCGTATTCCTCTCTGATTAATGGTTATGTTGAGAAGGATGAAATCGAGAAGGCTTTTAGTGTGTTTGTTGACTTACAGAGAAGGGGAGTTGAGCCTAATCAGTTCACTTTCTCTAGCTTGATCAAGGCTTGTGCCAACCAAGCTGCACTTGAACAAGGGATCCAACTTCATGCTCAGGTGGTCAAGTTTAATTTTGATACAGACGATTTTGTGTCCTCTGTTCTTGTTGATATGTACGGAAAATGTGGGTTACTTGATCATTCAATGCAAGTGTTTGACGAGATAGCCACCCCAACTGAAGTTGCATGGAATTCATTGCTAAGTGTATTTGCAGTTCATGGCTTAGGAAATTACGCCTTGAAAACTTTTAGTAGAATGGTCCAGGCAGGAGTGAAACCAAATGCAATAACATTTATCAGTCTTTTAACAGGTTGTAGCCATTCTGGATTGGTAGAGGAAGGTTTAAAGTACTTTTACTCTATGGACAAAACATATGGCATAGTACCTAGAGCTGGACATTACTCTTGCGTTATTGATTTACTTGGCAGGGCTGGAAGGCTTGAAGAGGCGGCAGAATTCATTAACAGCATGCCAATGCAGCCAAATGCTTTTGGATGGTGCTCTTTTCTTGGCGCTTGCACAATTCATGGTGATAAAGAGAGGGGCAAACTGGCAGCGGAGAAATTGATACAGCTTGAACCTGAGAATAGTGGAGCACATGTGTTGCTTTCAACGATATATGCAAAGGAGCAGAAATGGGAAGATTTCAGGGGTGTGAGGAAGATAATGAGGGATAGCAGCATGAAGAAATTGCCTGGTTATAGTTGGGTTGACATTGGAAACAAAACACACACGTTTGGAGCCGAAGATTGGTCTCATCCTCAGAAGAAAGAAATATATGAGAAACTTGATAGTCTTCTTGATCAGATAAAGAAAGCTGGATATGTTCCAAATACAGATCTTGTTCTTCATGATATGGACGACAATTCAAAGGTAGAGCTTCTTCACCATCATAGTGAGAGGATAGCGATTGCATTTGCACTGATAAGTATGCCTGCCGGGAAGCCAATCATTGTGAAGAAAAATATAAGGGTGTGCTTGGATTGCCATTCTGCAATCAAGTACATCTCCTTAGTTGTTGGAAGAAAGATTATTGTTAGGGATAATACTCGGTTTCACCATTTCGCAGATGGGTTGTGTTCATGTGGAGATTACTGGTAA
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
DYW_deaminase PPR PPR_2

Protein Analysis

578

Amino Acids

63.92

Weight (kDa)

6.32

Isoelectric Point (pI)

29.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 168 - 217 9.9e-16 PPR repeat family
PPR_3 PF13812 169 - 217 1.3e-06 Pentatricopeptide repeat domain
PPR PF01535 171 - 201 9.5e-06 PPR repeat
PPR_2 PF13041 269 - 317 4.9e-10 PPR repeat family
E_motif PF20431 387 - 449 4.7e-18 E motif
Eplus_motif PF20430 454 - 481 1.2e-09 E+ motif
DYW_deaminase PF14432 485 - 577 1.1e-39 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 215, 1082, 1190
AclWI GGATC 2 cut(s) 667, 680
AcsI RAATTY 2 cut(s) 823, 1088
AcuI CTGAAG 2 cut(s) 368, 831
AfaI GTAC 5 cut(s) 443, 749, 983, 1017, 1637
AfiI CCNNNNNNNGG 2 cut(s) 1025, 1383
AflIII ACRYGT 2 cut(s) 1231, 1365
AgsI TTSAA 9 cut(s) 46, 172, 665, 777, 874, 1076, 1211, 1245, 1503
AjnI CCWGG 2 cut(s) 894, 1327
AjuI GAANNNNNNNTTGG 4 cut(s) 164, 196, 383, 415
AloI GAACNNNNNNTCC 4 cut(s) 357, 389, 657, 689
AluBI AGCT 9 cut(s) 116, 154, 193, 630, 656, 1025, 1207, 1451, 1513
AluI AGCT 9 cut(s) 116, 154, 193, 630, 656, 1025, 1207, 1451, 1513
Alw21I GWGCWC 2 cut(s) 1136, 1231
Alw26I GTCTC 2 cut(s) 134, 1392
AlwI GGATC 2 cut(s) 667, 680
ApeKI GCWGC 6 cut(s) 151, 154, 656, 1111, 1187, 1311
ApoI RAATTY 2 cut(s) 823, 1088
AseI ATTAAT 1 cut(s) 531
AspLEI GCGC 1 cut(s) 1148
AspS9I GGNCC 1 cut(s) 892
AsuC2I CCSGG 1 cut(s) 1573
AsuHPI GGTGA 4 cut(s) 467, 1175, 1511, 1682
AsuII TTCGAA 1 cut(s) 227
AvaII GGWCC 1 cut(s) 892
BamHI GGATCC 1 cut(s) 672
BanII GRGCYC 1 cut(s) 83
BarI GAAGNNNNNNTAC 2 cut(s) 1500, 1532
BbsI GAAGAC 1 cut(s) 1421
Bbv12I GWGCWC 2 cut(s) 1136, 1231
BbvI GCAGC 6 cut(s) 141, 163, 643, 1123, 1199, 1323
BccI CCATC 4 cut(s) 305, 1122, 1530, 1697
BcgI CGANNNNNNTGC 2 cut(s) 136, 170
BciT130I CCWGG 2 cut(s) 896, 1329
BclI TGATCA 3 cut(s) 633, 769, 1435
BcnI CCSGG 1 cut(s) 1573
BcoDI GTCTC 2 cut(s) 134, 1392
BfaI CTAG 2 cut(s) 627, 1020
BfoI RGCGCY 1 cut(s) 1149
BglII AGATCT 1 cut(s) 1471
BisI GCNGC 7 cut(s) 152, 155, 657, 1083, 1112, 1188, 1312
BlsI GCNGC 7 cut(s) 153, 156, 658, 1084, 1113, 1189, 1313
BmcAI AGTACT 1 cut(s) 983
Bme1390I CCNGG 3 cut(s) 896, 1329, 1573
Bme18I GGWCC 1 cut(s) 892
BmgT120I GGNCC 1 cut(s) 892
BmiI GGNNCC 2 cut(s) 674, 1375
BmrFI CCNGG 3 cut(s) 896, 1329, 1573
BmrI ACTGGG 2 cut(s) 18, 82
BmsI GCATC 2 cut(s) 238, 274
BmuI ACTGGG 2 cut(s) 18, 82
BpiI GAAGAC 1 cut(s) 1421
Bpu10I CCTNAGC 2 cut(s) 687, 856
Bpu14I TTCGAA 1 cut(s) 227
BpuEI CTTGAG 1 cut(s) 46
BpuMI CCSGG 1 cut(s) 1573
BsaI GGTCTC 1 cut(s) 1392
BsaXI ACNNNNNCTCC 2 cut(s) 1218, 1248
Bsc4I CCNNNNNNNGG 2 cut(s) 1025, 1383
Bse1I ACTGG 4 cut(s) 13, 88, 1188, 1733
Bse3DI GCAATG 1 cut(s) 827
BseBI CCWGG 2 cut(s) 896, 1329
BseGI GGATG 4 cut(s) 289, 556, 1133, 1390
BseLI CCNNNNNNNGG 2 cut(s) 1025, 1383
BseMI GCAATG 1 cut(s) 827
BseMII CTCAG 6 cut(s) 32, 266, 486, 701, 1206, 1409
BseNI ACTGG 4 cut(s) 13, 88, 1188, 1733
BseXI GCAGC 6 cut(s) 141, 163, 643, 1123, 1199, 1323
BseYI CCCAGC 1 cut(s) 71
BsgI GTGCAG 3 cut(s) 327, 520, 642
BsiHKAI GWGCWC 2 cut(s) 1136, 1231
BsiSI CCGG 1 cut(s) 1572
BslI CCNNNNNNNGG 2 cut(s) 1025, 1383
BsmAI GTCTC 2 cut(s) 134, 1392
BsmI GAATGC 1 cut(s) 157
Bso31I GGTCTC 1 cut(s) 1392
Bsp119I TTCGAA 1 cut(s) 227
Bsp1286I GDGCHC 3 cut(s) 83, 1136, 1231
Bsp143I GATC 5 cut(s) 633, 672, 769, 1435, 1471
BspACI CCGC 3 cut(s) 215, 1082, 1190
BspCNI CTCAG 6 cut(s) 31, 267, 487, 700, 1207, 1408
BspHI TCATGA 1 cut(s) 1483
BspLI GGNNCC 2 cut(s) 674, 1375
BspPI GGATC 2 cut(s) 667, 680
BspT104I TTCGAA 1 cut(s) 227
BspTNI GGTCTC 1 cut(s) 1392
BsrDI GCAATG 1 cut(s) 827
BsrI ACTGG 4 cut(s) 13, 88, 1188, 1733
BssMI GATC 5 cut(s) 633, 672, 769, 1435, 1471
Bst2UI CCWGG 2 cut(s) 896, 1329
Bst4CI ACNGT 1 cut(s) 385
Bst6I CTCTTC 1 cut(s) 1071
BstAPI GCANNNNNTGC 1 cut(s) 332
BstBI TTCGAA 1 cut(s) 227
BstC8I GCNNGC 3 cut(s) 1103, 1150, 1569
BstDEI CTNAG 9 cut(s) 18, 275, 495, 687, 833, 856, 1215, 1395, 1645
BstF5I GGATG 4 cut(s) 289, 556, 1133, 1390
BstH2I RGCGCY 1 cut(s) 1149
BstHHI GCGC 1 cut(s) 1148
BstKTI GATC 5 cut(s) 636, 675, 772, 1438, 1474
BstMAI GTCTC 2 cut(s) 134, 1392
BstMBI GATC 5 cut(s) 633, 672, 769, 1435, 1471
BstMWI GCNNNNNNNGC 6 cut(s) 332, 341, 350, 653, 1111, 1617
BstNI CCWGG 2 cut(s) 896, 1329
BstNSI RCATGY 2 cut(s) 1105, 1235
BstSCI CCNGG 3 cut(s) 894, 1327, 1571
BstV1I GCAGC 6 cut(s) 141, 163, 643, 1123, 1199, 1323
BstV2I GAAGAC 1 cut(s) 1421
BstX2I RGATCY 2 cut(s) 672, 1471
BstYI RGATCY 2 cut(s) 672, 1471
BtsCI GGATG 4 cut(s) 289, 556, 1133, 1390
BtsIMutI CAGTG 2 cut(s) 344, 1553
Cac8I GCNNGC 3 cut(s) 1103, 1150, 1569
CciI TCATGA 1 cut(s) 1483
CfoI GCGC 1 cut(s) 1148
Cfr13I GGNCC 1 cut(s) 892
Csp6I GTAC 5 cut(s) 442, 748, 982, 1016, 1636
CviQI GTAC 5 cut(s) 442, 748, 982, 1016, 1636
DdeI CTNAG 9 cut(s) 18, 275, 495, 687, 833, 856, 1215, 1395, 1645
DpnI GATC 5 cut(s) 635, 674, 771, 1437, 1473
DpnII GATC 5 cut(s) 633, 672, 769, 1435, 1471
DraI TTTAAA 2 cut(s) 474, 978
Eam1104I CTCTTC 1 cut(s) 1071
EarI CTCTTC 1 cut(s) 1071
EciI GGCGGA 1 cut(s) 230
Eco24I GRGCYC 1 cut(s) 83
Eco31I GGTCTC 1 cut(s) 1392
Eco47I GGWCC 1 cut(s) 892
Eco57I CTGAAG 2 cut(s) 368, 831
EcoRI GAATTC 2 cut(s) 823, 1088
EcoRII CCWGG 2 cut(s) 894, 1327
EcoT22I ATGCAT 1 cut(s) 328
EcoT38I GRGCYC 1 cut(s) 83
FalI AAGNNNNNCTT 2 cut(s) 645, 677
FauNDI CATATG 1 cut(s) 1006
FbaI TGATCA 3 cut(s) 633, 769, 1435
Fnu4HI GCNGC 7 cut(s) 152, 155, 657, 1083, 1112, 1188, 1312
FokI GGATG 4 cut(s) 296, 563, 1140, 1377
FriOI GRGCYC 1 cut(s) 83
Fsp4HI GCNGC 7 cut(s) 152, 155, 657, 1083, 1112, 1188, 1312
FspBI CTAG 2 cut(s) 627, 1020
GlaI GCGC 1 cut(s) 1147
GluI GCNGC 7 cut(s) 152, 155, 657, 1083, 1112, 1188, 1312
GsaI CCCAGC 1 cut(s) 75
HaeII RGCGCY 1 cut(s) 1149
HapII CCGG 1 cut(s) 1572
HhaI GCGC 1 cut(s) 1148
Hin6I GCGC 1 cut(s) 1146
HinP1I GCGC 1 cut(s) 1146
HincII GTYRAC 3 cut(s) 490, 583, 1345
HindII GTYRAC 3 cut(s) 490, 583, 1345
HindIII AAGCTT 1 cut(s) 114
HpaII CCGG 1 cut(s) 1572
HphI GGTGA 4 cut(s) 467, 1175, 1511, 1682
Hpy166II GTNNAC 5 cut(s) 297, 490, 583, 618, 1345
Hpy188I TCNGA 5 cut(s) 21, 432, 528, 1398, 1440
Hpy188III TCNNGA 4 cut(s) 559, 957, 1433, 1484
Hpy8I GTNNAC 5 cut(s) 297, 490, 583, 618, 1345
HpyAV CCTTC 6 cut(s) 343, 541, 556, 588, 965, 1062
HpyCH4III ACNGT 1 cut(s) 385
HpyCH4IV ACGT 1 cut(s) 1367
HpyF10VI GCNNNNNNNGC 6 cut(s) 332, 341, 350, 653, 1111, 1617
HpyF3I CTNAG 9 cut(s) 18, 275, 495, 687, 833, 856, 1215, 1395, 1645
HpySE526I ACGT 1 cut(s) 1367
HspAI GCGC 1 cut(s) 1146
Ksp22I TGATCA 3 cut(s) 633, 769, 1435
Kzo9I GATC 5 cut(s) 633, 672, 769, 1435, 1471
LmnI GCTCC 3 cut(s) 1226, 1261, 1373
Lsp1109I GCAGC 6 cut(s) 141, 163, 643, 1123, 1199, 1323
LweI GCATC 2 cut(s) 238, 274
MaeI CTAG 2 cut(s) 627, 1020
MaeII ACGT 1 cut(s) 1367
MaeIII GTNAC 3 cut(s) 4, 206, 762
MalI GATC 5 cut(s) 635, 674, 771, 1437, 1473
MboI GATC 5 cut(s) 633, 672, 769, 1435, 1471
MflI RGATCY 2 cut(s) 672, 1471
MhlI GDGCHC 3 cut(s) 83, 1136, 1231
MluCI AATT 9 cut(s) 173, 703, 823, 862, 1088, 1155, 1196, 1322, 1498
MmeI TCCRAC 2 cut(s) 700, 1633
Mph1103I ATGCAT 1 cut(s) 328
MseI TTAA 6 cut(s) 473, 531, 702, 938, 977, 1095
MslI CAYNNNNRTG 2 cut(s) 1106, 1527
MspA1I CMGCKG 2 cut(s) 154, 1190
MspI CCGG 1 cut(s) 1572
MspR9I CCNGG 3 cut(s) 896, 1329, 1573
Mva1269I GAATGC 1 cut(s) 157
MvaI CCWGG 2 cut(s) 896, 1329
MwoI GCNNNNNNNGC 6 cut(s) 332, 341, 350, 653, 1111, 1617
NciI CCSGG 1 cut(s) 1573
NdeI CATATG 1 cut(s) 1006
NdeII GATC 5 cut(s) 633, 672, 769, 1435, 1471
NlaIV GGNNCC 2 cut(s) 674, 1375
NsiI ATGCAT 1 cut(s) 328
NspI RCATGY 2 cut(s) 1105, 1235
NspV TTCGAA 1 cut(s) 227
PaeI GCATGC 1 cut(s) 1105
PagI TCATGA 1 cut(s) 1483
PciI ACATGT 1 cut(s) 1231
PcsI WCGNNNNNNNCGW 1 cut(s) 299
PctI GAATGC 1 cut(s) 157
PkrI GCNGC 7 cut(s) 153, 156, 658, 1084, 1113, 1189, 1313
PscI ACATGT 1 cut(s) 1231
PshBI ATTAAT 1 cut(s) 531
Psp6I CCWGG 2 cut(s) 894, 1327
PspFI CCCAGC 1 cut(s) 71
PspGI CCWGG 2 cut(s) 894, 1327
PspN4I GGNNCC 2 cut(s) 674, 1375
PspPI GGNCC 1 cut(s) 892
PsrI GAACNNNNNNTAC 2 cut(s) 831, 863
PsuI RGATCY 2 cut(s) 672, 1471
PvuII CAGCTG 1 cut(s) 154
RsaI GTAC 5 cut(s) 443, 749, 983, 1017, 1637
RsaNI GTAC 5 cut(s) 442, 748, 982, 1016, 1636
RseI CAYNNNNRTG 2 cut(s) 1106, 1527
SaqAI TTAA 6 cut(s) 473, 531, 702, 938, 977, 1095
SatI GCNGC 7 cut(s) 152, 155, 657, 1083, 1112, 1188, 1312
Sau3AI GATC 5 cut(s) 633, 672, 769, 1435, 1471
Sau96I GGNCC 1 cut(s) 892
ScaI AGTACT 1 cut(s) 983
ScrFI CCNGG 3 cut(s) 896, 1329, 1573
SduI GDGCHC 3 cut(s) 83, 1136, 1231
SfaNI GCATC 2 cut(s) 238, 274
SfuI TTCGAA 1 cut(s) 227
SinI GGWCC 1 cut(s) 892
SmiMI CAYNNNNRTG 2 cut(s) 1106, 1527
SmlI CTYRAG 1 cut(s) 25
SmoI CTYRAG 1 cut(s) 25
SphI GCATGC 1 cut(s) 1105
Sse9I AATT 9 cut(s) 173, 703, 823, 862, 1088, 1155, 1196, 1322, 1498
SsiI CCGC 3 cut(s) 215, 1082, 1190
SspI AATATT 1 cut(s) 508
SspMI CTAG 2 cut(s) 627, 1020
StyD4I CCNGG 3 cut(s) 894, 1327, 1571
TaaI ACNGT 1 cut(s) 385
TaiI ACGT 1 cut(s) 1370
TaqI TCGA 4 cut(s) 227, 264, 302, 558
TasI AATT 9 cut(s) 173, 703, 823, 862, 1088, 1155, 1196, 1322, 1498
TatI WGTACW 3 cut(s) 441, 981, 1635
TauI GCSGC 1 cut(s) 1085
Tru1I TTAA 6 cut(s) 473, 531, 702, 938, 977, 1095
Tru9I TTAA 6 cut(s) 473, 531, 702, 938, 977, 1095
TscAI CASTG 2 cut(s) 351, 1560
TseI GCWGC 6 cut(s) 151, 154, 656, 1111, 1187, 1311
TspGWI ACGGA 1 cut(s) 765
TspRI CASTG 2 cut(s) 351, 1560
VpaK11BI GGWCC 1 cut(s) 892
VspI ATTAAT 1 cut(s) 531
XapI RAATTY 2 cut(s) 823, 1088
XceI RCATGY 2 cut(s) 1105, 1235
XcmI CCANNNNNNNNNTGG 1 cut(s) 1700
XspI CTAG 2 cut(s) 627, 1020
ZrmI AGTACT 1 cut(s) 983
Zsp2I ATGCAT 1 cut(s) 328
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.