RLG00000004699

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0016933
Physical Location & Seq
Reverse (-)
61514970 .. 61516763
1794 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000004699

Sequence Viewer

Length: 1794 bp
ATGCGAATCCCAACAACAAAATCAAAATGGCTAACTCTGTTACAAAATTGCACACCAGAGAAGCCCAACCAGTTCAATCAAATCATATCCCACGCCATTGTTTCCGGCGTGTTAGCAAATGACCCATTCATATCAAGCCAAATCCTACTCCACTCACTCCCTCCCGGCCTCGATTTTTCCCGCGCTATTTTCTCTCAAATCCAAAACCCAAATGTCTTCGCCTGCAACTTCATCTTCAAAGCCTACTCCAACAGCCCAACCCCTCGAGAGACCCTCTCGCTCTACAACCTCGTGCGACGTCGTTTCACACATGTCTTGCCGGACAAGTATTCCTTTCCGTTTCTCTTTAAGGCCTGCGGTCGGGTTCAGCTCACTCGTAAAGGCCAAGAGCTTCACGCTTTGAGTTTCGCTCTCGGAGTTGATGGGGATGTTTTCGTTCAAAATGGGCTTATTTCTATGTACTCTGCTTGTGGGGAGCTTCAATCTGCGTTCAAAGTCTTTGAATTGATTCCGGTTTTCGTTCGGGACGTGGTGTCATGGAACAGCATTGTTAGTGGGTGTTTACAGAGTCATCGGAATTGGGACGCACTCCAGGTGTTTGTGAAAATGCTTGCTGATGGTTTGGCCAGGCCTGATGCGGTGGCTTTGGTCAATGCTCTGAATGCTTGTGCAAGGCTTGGTTCTGTTGATTTGGGGAGGAAGATTCATGCGTTGGTGTTGAGAAATGGATTTGATCTGGATGTGTTCTTGGGTTCGTCTTTGGTTGATATGTATGCAAAGTGCGGTGACATGGATGGTGCTCGAAAAGTTTTTGATAGAATGGGGAGAAGGAATGTGGTGTCTTGGACTTGTATGATTGCTGGTTATGTGCAGTCACATTGGTTCAAGGAAGCGATTGAGTTGTTCAGGGAGATGCAGCTAGATGGAGTTAAAGCAGACTCGGCATTGGTTGCTTGTGTTGTATCCGCGTGTGGGAATGCGGGTGCATTAGATCACGGAAGGTGGGTGCATACATACTGCGAGAGAAGTGGCATTGAGATGAACCTCTCGGTGAAGAATGCTTTGATCGACATGTATTCAAAGTGCGGCGACATTGAAAAGGCTCTTTTAATTTTTCGTGACATGAGCATGAGAGATGTTGTTACATGGACTGCCATGATTATTGGTCTTGCTATGAATGGGGAATCTGATAGAGCACTAGAAACGTTTTCAGAAATGGAAGGGACAGGTTATGTTAGGCCAAATGAGGTCACATTCCTGGGGGTATTGTCTGCGTGCAGTCATGGAGGGTTTGTAAACAAGGGTTTGGGCTATTTGGAAGCCATGTCTGAAACATATAAGCTTACTCCTCGTGTTGATCACTATGGCTGTGTGATTGATCTTCTTGGTCGCGCTAATCTGTTGAATGAAGCTGCAAGGTTCATTAGTGCTATGCCTATCCAACCTGACGTCGTTATCTGGCGGTCTCTGCTTTTTGCTTGTAGGACATATCAGAACTTAGAGCTGGCAGAGTTTGTTGCAAGAAAGATTGAGGAATTGGAACCAAGAAAGGGCGAGTCAAGTGTTTTGTTATCCCATCTATATGCTTCAGCATCAAGGTGGCTTGACGTGAACAAGATGAGGAAAGGTATGCCTCTTCAGGGAATCCAGAAGAAGCCTGGTTGCTCTCTCATAGAAGTAGATGGTATTGTTCATGAATTCACTGTTGCCGATTGTTCACATTGTGAAAGTAGCTCTATGTACGAAACACTTGGAGCAATTAATAGAGTTATACAATCTGAAAGATTTTCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04110 ko04114 ko04914 ko05100 ko05131 map04110 map04114 map04914 map05100 map05131
Pfam Domains
Protein Families
HORMA PPR PPR_2

Protein Analysis

598

Amino Acids

66.48

Weight (kDa)

7.5

Isoelectric Point (pI)

41.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 216 - 331 4e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 277 - 314 1.1e-07 PPR repeat family
PPR PF01535 280 - 310 1.5e-07 PPR repeat
PPR_2 PF13041 378 - 427 8.4e-08 PPR repeat family
PPR PF01535 381 - 408 1e-05 PPR repeat
E_motif PF20431 497 - 559 4.7e-16 E motif
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: OG0016933)

Species Orthologous Gene IDs
malus_domestica MD00G1076200.v1.1 MD14G1144800.v1.1
prunus_persica Prupe.5G139200_v2.0.a1
pyrus_communis pycom06g11950 pycom14g12030
rosa_chinensis RchiOBHm_Chr7g0188361
rosa_laevigata RLG00000004699 RLG00000004705
rosa_multiflora Rmu_co8471191.1_g000001
rosa_roxburghii Rroxscaffold_3G00266450
rosa_rugosa Rorug06G0490100
rosa_samantha Rh7BG096300 Rh7CG096800
rosa_wichuraiana Rw7G008170

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 2 cut(s) 301, 1452
AccII CGCG 3 cut(s) 183, 968, 1392
AciI CCGC 8 cut(s) 181, 357, 638, 783, 966, 980, 1086, 1462
AclI AACGTT 1 cut(s) 1205
AcoI YGGCCR 1 cut(s) 624
AcsI RAATTY 1 cut(s) 1697
AcuI CTGAAG 2 cut(s) 1572, 1622
AcyI GRCGYC 2 cut(s) 298, 1449
AdeI CACNNNGTG 1 cut(s) 1724
AfaI GTAC 2 cut(s) 461, 1742
AfiI CCNNNNNNNGG 4 cut(s) 360, 972, 1550, 1640
AflIII ACRYGT 2 cut(s) 310, 1071
AhdI GACNNNNNGTC 1 cut(s) 532
AjiI CACGTC 2 cut(s) 529, 1609
AjnI CCWGG 4 cut(s) 591, 626, 1257, 1657
AluBI AGCT 8 cut(s) 370, 391, 478, 919, 1342, 1412, 1504, 1734
AluI AGCT 8 cut(s) 370, 391, 478, 919, 1342, 1412, 1504, 1734
Alw21I GWGCWC 2 cut(s) 802, 1198
Alw26I GTCTC 2 cut(s) 263, 1470
Ama87I CYCGRG 1 cut(s) 264
AoxI GGCC 6 cut(s) 166, 351, 382, 624, 629, 1238
ApeKI GCWGC 2 cut(s) 916, 1412
ApoI RAATTY 1 cut(s) 1697
AseI ATTAAT 1 cut(s) 1761
Asp700I GAANNNNTTC 1 cut(s) 507
AspLEI GCGC 2 cut(s) 185, 1394
AsuC2I CCSGG 1 cut(s) 165
AsuHPI GGTGA 2 cut(s) 797, 1063
AvaI CYCGRG 1 cut(s) 264
BalI TGGCCA 1 cut(s) 626
BauI CACGAG 2 cut(s) 290, 1350
BbsI GAAGAC 1 cut(s) 208
Bbv12I GWGCWC 2 cut(s) 802, 1198
BbvI GCAGC 2 cut(s) 928, 1399
BccI CCATC 6 cut(s) 416, 611, 788, 917, 1584, 1676
BciT130I CCWGG 4 cut(s) 593, 628, 1259, 1659
BciVI GTATCC 1 cut(s) 973
BclI TGATCA 1 cut(s) 1357
BcnI CCSGG 1 cut(s) 165
BcoDI GTCTC 2 cut(s) 263, 1470
BfaI CTAG 2 cut(s) 920, 1199
BfuI GTATCC 1 cut(s) 973
BisI GCNGC 3 cut(s) 917, 1087, 1413
BlsI GCNGC 3 cut(s) 918, 1088, 1414
Bme1390I CCNGG 5 cut(s) 165, 593, 628, 1259, 1659
BmeRI GACNNNNNGTC 1 cut(s) 532
BmeT110I CYCGRG 1 cut(s) 264
BmgBI CACGTC 2 cut(s) 529, 1609
BmiI GGNNCC 1 cut(s) 1542
BmrFI CCNGG 5 cut(s) 165, 593, 628, 1259, 1659
BmsI GCATC 3 cut(s) 625, 903, 1601
BpiI GAAGAC 1 cut(s) 208
BplI GAGNNNNNCTC 6 cut(s) 258, 290, 260, 292, 394, 426
BpmI CTGGAG 1 cut(s) 575
BpuMI CCSGG 1 cut(s) 165
BsaHI GRCGYC 2 cut(s) 298, 1449
BsaI GGTCTC 2 cut(s) 263, 1470
BsaJI CCNNGG 1 cut(s) 1258
BsaWI WCCGGW 1 cut(s) 511
BsaXI ACNNNNNCTCC 2 cut(s) 1278, 1308
Bsc4I CCNNNNNNNGG 4 cut(s) 360, 972, 1550, 1640
Bse1I ACTGG 1 cut(s) 70
BseBI CCWGG 4 cut(s) 593, 628, 1259, 1659
BseDI CCNNGG 1 cut(s) 1258
BseGI GGATG 3 cut(s) 433, 745, 799
BseLI CCNNNNNNNGG 4 cut(s) 360, 972, 1550, 1640
BseNI ACTGG 1 cut(s) 70
BseRI GAGGAG 1 cut(s) 1338
BseXI GCAGC 2 cut(s) 928, 1399
BsgI GTGCAG 2 cut(s) 890, 1297
Bsh1236I CGCG 3 cut(s) 183, 968, 1392
Bsh1285I CGRYCG 1 cut(s) 361
BshFI GGCC 6 cut(s) 168, 353, 384, 626, 631, 1240
BsiEI CGRYCG 1 cut(s) 361
BsiHKAI GWGCWC 2 cut(s) 802, 1198
BsiHKCI CYCGRG 1 cut(s) 264
BsiSI CCGG 4 cut(s) 105, 165, 320, 512
BslFI GGGAC 3 cut(s) 539, 596, 1237
BslI CCNNNNNNNGG 4 cut(s) 360, 972, 1550, 1640
BsmAI GTCTC 2 cut(s) 263, 1470
BsmFI GGGAC 3 cut(s) 539, 596, 1237
BsmI GAATGC 3 cut(s) 667, 982, 1063
BsnI GGCC 6 cut(s) 168, 353, 384, 626, 631, 1240
Bso31I GGTCTC 2 cut(s) 263, 1470
BsoBI CYCGRG 1 cut(s) 264
Bsp1286I GDGCHC 2 cut(s) 802, 1198
Bsp143I GATC 5 cut(s) 733, 991, 1065, 1357, 1378
BspACI CCGC 8 cut(s) 181, 357, 638, 783, 966, 980, 1086, 1462
BspANI GGCC 6 cut(s) 168, 353, 384, 626, 631, 1240
BspFNI CGCG 3 cut(s) 183, 968, 1392
BspHI TCATGA 1 cut(s) 1693
BspLI GGNNCC 1 cut(s) 1542
BspTNI GGTCTC 2 cut(s) 263, 1470
BsrI ACTGG 1 cut(s) 70
BssECI CCNNGG 1 cut(s) 1258
BssMI GATC 5 cut(s) 733, 991, 1065, 1357, 1378
BssNI GRCGYC 2 cut(s) 298, 1449
BssSI CACGAG 2 cut(s) 290, 1350
Bst2BI CACGAG 2 cut(s) 290, 1350
Bst2UI CCWGG 4 cut(s) 593, 628, 1259, 1659
Bst4CI ACNGT 1 cut(s) 1705
Bst6I CTCTTC 1 cut(s) 1641
BstACI GRCGYC 2 cut(s) 298, 1449
BstAPI GCANNNNNTGC 1 cut(s) 950
BstC8I GCNNGC 5 cut(s) 223, 355, 612, 1276, 1506
BstDEI CTNAG 2 cut(s) 1498, 1791
BstF5I GGATG 3 cut(s) 433, 745, 799
BstFNI CGCG 3 cut(s) 183, 968, 1392
BstHHI GCGC 2 cut(s) 185, 1394
BstKTI GATC 5 cut(s) 736, 994, 1068, 1360, 1381
BstMAI GTCTC 2 cut(s) 263, 1470
BstMBI GATC 5 cut(s) 733, 991, 1065, 1357, 1378
BstMCI CGRYCG 1 cut(s) 361
BstMWI GCNNNNNNNGC 4 cut(s) 662, 941, 950, 1468
BstNI CCWGG 4 cut(s) 593, 628, 1259, 1659
BstNSI RCATGY 2 cut(s) 314, 1075
BstSCI CCNGG 5 cut(s) 163, 591, 626, 1257, 1657
BstUI CGCG 3 cut(s) 183, 968, 1392
BstV1I GCAGC 2 cut(s) 928, 1399
BstV2I GAAGAC 1 cut(s) 208
BsuI GTATCC 1 cut(s) 973
BsuRI GGCC 6 cut(s) 168, 353, 384, 626, 631, 1240
BtrI CACGTC 2 cut(s) 529, 1609
BtsCI GGATG 3 cut(s) 433, 745, 799
BtsIMutI CAGTG 1 cut(s) 1701
Cac8I GCNNGC 5 cut(s) 223, 355, 612, 1276, 1506
CciI TCATGA 1 cut(s) 1693
CfoI GCGC 2 cut(s) 185, 1394
CseI GACGC 1 cut(s) 593
Csp6I GTAC 2 cut(s) 460, 1741
CviQI GTAC 2 cut(s) 460, 1741
DdeI CTNAG 2 cut(s) 1498, 1791
DpnI GATC 5 cut(s) 735, 993, 1067, 1359, 1380
DpnII GATC 5 cut(s) 733, 991, 1065, 1357, 1378
DraIII CACNNNGTG 1 cut(s) 1724
DriI GACNNNNNGTC 1 cut(s) 532
EaeI YGGCCR 1 cut(s) 624
Eam1104I CTCTTC 1 cut(s) 1641
Eam1105I GACNNNNNGTC 1 cut(s) 532
EarI CTCTTC 1 cut(s) 1641
Eco147I AGGCCT 2 cut(s) 353, 631
Eco31I GGTCTC 2 cut(s) 263, 1470
Eco57I CTGAAG 2 cut(s) 1572, 1622
Eco88I CYCGRG 1 cut(s) 264
EcoRI GAATTC 1 cut(s) 1697
EcoRII CCWGG 4 cut(s) 591, 626, 1257, 1657
FalI AAGNNNNNCTT 3 cut(s) 317, 349, 1774
FaqI GGGAC 3 cut(s) 539, 596, 1237
FauI CCCGC 2 cut(s) 188, 973
FbaI TGATCA 1 cut(s) 1357
Fnu4HI GCNGC 3 cut(s) 917, 1087, 1413
FokI GGATG 3 cut(s) 440, 752, 806
Fsp4HI GCNGC 3 cut(s) 917, 1087, 1413
FspBI CTAG 2 cut(s) 920, 1199
GlaI GCGC 2 cut(s) 184, 1393
GluI GCNGC 3 cut(s) 917, 1087, 1413
GsuI CTGGAG 1 cut(s) 575
HaeIII GGCC 6 cut(s) 168, 353, 384, 626, 631, 1240
HapII CCGG 4 cut(s) 105, 165, 320, 512
HgaI GACGC 1 cut(s) 593
HhaI GCGC 2 cut(s) 185, 1394
Hin1I GRCGYC 2 cut(s) 298, 1449
Hin6I GCGC 2 cut(s) 183, 1392
HinP1I GCGC 2 cut(s) 183, 1392
HindIII AAGCTT 1 cut(s) 1340
HinfI GANTC 8 cut(s) 6, 508, 568, 703, 938, 1184, 1556, 1644
HpaII CCGG 4 cut(s) 105, 165, 320, 512
HphI GGTGA 2 cut(s) 797, 1063
Hpy166II GTNNAC 4 cut(s) 563, 1297, 1612, 1718
Hpy188I TCNGA 8 cut(s) 416, 576, 660, 1189, 1213, 1330, 1494, 1780
Hpy188III TCNNGA 6 cut(s) 266, 524, 737, 1118, 1648, 1694
Hpy8I GTNNAC 4 cut(s) 563, 1297, 1612, 1718
Hpy99I CGWCG 3 cut(s) 300, 303, 1454
HpyAV CCTTC 3 cut(s) 822, 993, 1214
HpyCH4III ACNGT 1 cut(s) 1705
HpyCH4IV ACGT 5 cut(s) 298, 528, 1205, 1449, 1608
HpyF10VI GCNNNNNNNGC 4 cut(s) 662, 941, 950, 1468
HpyF3I CTNAG 2 cut(s) 1498, 1791
HpySE526I ACGT 5 cut(s) 298, 528, 1205, 1449, 1608
Hsp92I GRCGYC 2 cut(s) 298, 1449
HspAI GCGC 2 cut(s) 183, 1392
Ksp22I TGATCA 1 cut(s) 1357
Kzo9I GATC 5 cut(s) 733, 991, 1065, 1357, 1378
LmnI GCTCC 2 cut(s) 475, 1754
Lsp1109I GCAGC 2 cut(s) 928, 1399
LweI GCATC 3 cut(s) 625, 903, 1601
MaeI CTAG 2 cut(s) 920, 1199
MaeII ACGT 5 cut(s) 298, 528, 1205, 1449, 1608
MaeIII GTNAC 6 cut(s) 39, 785, 873, 1118, 1141, 1249
MalI GATC 5 cut(s) 735, 993, 1067, 1359, 1380
MboI GATC 5 cut(s) 733, 991, 1065, 1357, 1378
MboII GAAGA 7 cut(s) 208, 226, 712, 1066, 1373, 1628, 1663
MhlI GDGCHC 2 cut(s) 802, 1198
MlsI TGGCCA 1 cut(s) 626
MluCI AATT 7 cut(s) 46, 503, 577, 1110, 1535, 1697, 1758
MluNI TGGCCA 1 cut(s) 626
MlyI GAGTC 3 cut(s) 577, 932, 1565
MmeI TCCRAC 2 cut(s) 273, 1465
Mox20I TGGCCA 1 cut(s) 626
MroXI GAANNNNTTC 1 cut(s) 507
MscI TGGCCA 1 cut(s) 626
MseI TTAA 4 cut(s) 348, 930, 1109, 1761
MslI CAYNNNNRTG 4 cut(s) 1037, 1127, 1581, 1597
Msp20I TGGCCA 1 cut(s) 626
MspI CCGG 4 cut(s) 105, 165, 320, 512
MspR9I CCNGG 5 cut(s) 165, 593, 628, 1259, 1659
Mva1269I GAATGC 3 cut(s) 667, 982, 1063
MvaI CCWGG 4 cut(s) 593, 628, 1259, 1659
MvnI CGCG 3 cut(s) 183, 968, 1392
MwoI GCNNNNNNNGC 4 cut(s) 662, 941, 950, 1468
NciI CCSGG 1 cut(s) 165
NdeII GATC 5 cut(s) 733, 991, 1065, 1357, 1378
NlaIV GGNNCC 1 cut(s) 1542
NmeAIII GCCGAG 1 cut(s) 920
NmuCI GTSAC 4 cut(s) 785, 873, 1118, 1249
NspI RCATGY 2 cut(s) 314, 1075
PaeR7I CTCGAG 1 cut(s) 264
PagI TCATGA 1 cut(s) 1693
PceI AGGCCT 2 cut(s) 353, 631
PciI ACATGT 2 cut(s) 310, 1071
PcsI WCGNNNNNNNCGW 1 cut(s) 525
PctI GAATGC 3 cut(s) 667, 982, 1063
PdmI GAANNNNTTC 1 cut(s) 507
PfeI GAWTC 5 cut(s) 6, 508, 703, 1184, 1644
PkrI GCNGC 3 cut(s) 918, 1088, 1414
PleI GAGTC 3 cut(s) 576, 932, 1564
PpsI GAGTC 3 cut(s) 576, 932, 1564
PscI ACATGT 2 cut(s) 310, 1071
PshBI ATTAAT 1 cut(s) 1761
Psp1406I AACGTT 1 cut(s) 1205
Psp6I CCWGG 4 cut(s) 591, 626, 1257, 1657
PspGI CCWGG 4 cut(s) 591, 626, 1257, 1657
PspN4I GGNNCC 1 cut(s) 1542
RsaI GTAC 2 cut(s) 461, 1742
RsaNI GTAC 2 cut(s) 460, 1741
RseI CAYNNNNRTG 4 cut(s) 1037, 1127, 1581, 1597
SaqAI TTAA 4 cut(s) 348, 930, 1109, 1761
SatI GCNGC 3 cut(s) 917, 1087, 1413
Sau3AI GATC 5 cut(s) 733, 991, 1065, 1357, 1378
SchI GAGTC 3 cut(s) 577, 932, 1565
ScrFI CCNGG 5 cut(s) 165, 593, 628, 1259, 1659
SduI GDGCHC 2 cut(s) 802, 1198
SfaNI GCATC 3 cut(s) 625, 903, 1601
Sfr274I CTCGAG 1 cut(s) 264
SlaI CTCGAG 1 cut(s) 264
SmiMI CAYNNNNRTG 4 cut(s) 1037, 1127, 1581, 1597
SmlI CTYRAG 1 cut(s) 264
SmoI CTYRAG 1 cut(s) 264
Sse9I AATT 7 cut(s) 46, 503, 577, 1110, 1535, 1697, 1758
SseBI AGGCCT 2 cut(s) 353, 631
SsiI CCGC 8 cut(s) 181, 357, 638, 783, 966, 980, 1086, 1462
SspMI CTAG 2 cut(s) 920, 1199
StuI AGGCCT 2 cut(s) 353, 631
StyD4I CCNGG 5 cut(s) 163, 591, 626, 1257, 1657
TaaI ACNGT 1 cut(s) 1705
TaiI ACGT 5 cut(s) 301, 531, 1208, 1452, 1611
TaqI TCGA 4 cut(s) 171, 265, 802, 1068
TasI AATT 7 cut(s) 46, 503, 577, 1110, 1535, 1697, 1758
TatI WGTACW 1 cut(s) 459
TauI GCSGC 1 cut(s) 1089
TfiI GAWTC 5 cut(s) 6, 508, 703, 1184, 1644
Tru1I TTAA 4 cut(s) 348, 930, 1109, 1761
Tru9I TTAA 4 cut(s) 348, 930, 1109, 1761
TscAI CASTG 1 cut(s) 1708
TseFI GTSAC 4 cut(s) 785, 873, 1118, 1249
TseI GCWGC 2 cut(s) 916, 1412
Tsp45I GTSAC 4 cut(s) 785, 873, 1118, 1249
TspDTI ATGAA 9 cut(s) 118, 220, 695, 1055, 1190, 1411, 1422, 1682, 1710
TspGWI ACGGA 2 cut(s) 327, 1011
TspRI CASTG 1 cut(s) 1708
VspI ATTAAT 1 cut(s) 1761
XapI RAATTY 1 cut(s) 1697
XceI RCATGY 2 cut(s) 314, 1075
XcmI CCANNNNNNNNNTGG 1 cut(s) 1655
XhoI CTCGAG 1 cut(s) 264
XmnI GAANNNNTTC 1 cut(s) 507
XspI CTAG 2 cut(s) 920, 1199
ZraI GACGTC 2 cut(s) 299, 1450
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.