RLG00000003422

Pentatricopeptide repeat-containing protein At4g16835

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
Physical Location & Seq
Reverse (-)
48257585 .. 48259609
2025 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000003422

Sequence Viewer

Length: 1734 bp
ATGAGATGTCTTAGAAGAGCACAGCCCTCACTGCTGCTCAAAACTTTCCCCAATGCCAAAAACCAAAGCTCTTCCCTCTCCACCATCACAATCCAAAACCCACAACCCAATCAAAACAACCACCCCATTCCTCCACACAAAACCCACTTGGTTTCCACCAGTAACATGACCCAGAAACTCACACCAACCCAATTTTGTAATGAGTCTACACACTTTGATCCCCACCAATTTCGCAATGTCATTGCGTCGAACAAGTTGATCACCAGCTACATTCGTTCCGGGGATTTAGATTCTGCACTTCAGGTGTTTGAGAAAATGACTGTTAGAACCACAACTAGTTGGAATTCGATTTTAGCCGGGTATGCGAAAATTCCTGGGAAAGTGAAAGAAGCCCGCCAACTGTTTGATAAAATTCCTCAACCAGACACTTGCTCATATAATAGTATGCTGGCTTGTTATTTACGTAATCTTGGTGTTGGCTCTGCTATGGAGTTCTTTGATTTGATGCCTGTTAAGGACATTGCATCTTGGAATACCATGATATCGGGTTTTGCTCAGAATGGGGAGATGAGGCAAGCACAGAAGTTGTTTTTGTTGATGCCTGAGAAGAACAGTGTCTCGTGGAGTGCGTTGGTTTCGGGGTATGTGAAATGTGGGGATTTGGACTCGGCGGTGAAGTGGTTTGAGGTTGCACCGGTTAAGAGTGTTGTGGCTTGGACGGCTATGGTTACTGGGTATATGAAGTTTGGGAAGATTGATGTAGCAGAGAAGTTGTTTAGAGAGATGCCTGAGAAAAATTTAGTAACATGGAATGCTATGGTTGCGGGGTATGTGGAAAACTGTCAAGCTGAAGAGGGTTTGAAGTTTTTCAGGTCAATGATTGGATATGGGGTTAGGCCAAATGCATCAAGTTTGAGTAGTGCTCTACTGGGTTGTAGCAACCTGTCTGCGCTGCAAATGGGTAGGCAAGTACATCAGCTGCTCTATAAGTTTGAATTATATAATGATACAACTTCAGGAACTGCATTGGTTAGTATGTATTGTAAGTGTGGGAATTTGGAGGATGCGTGGAAGTTTTTCATTGAGATGACACGAAAAGATGTTGTTACTTGGAATGCAATGATTGCTGGCTATGCTCAACATGGGGAAGGTTTAAAAGCTCTCAGTTTGTTTGACCAGATGAGGAATGAGGGAGTAAAACCAGATTGGATAACGTTTGTTTCTGTGTTAATGGCTTGCAATCATGCAGGACTTGTAGATCTTGGGGTTCAATATTTTGATTCCATGGCAAGACAGTATCGAGTTGAAGCTAAGCCAGAGCACTATACATGTATGGTAGACCTTCTTGGTCGTGCTGGTAAGCTAGTTGAAGCTGTAGCTTTGATAAAGAAAATGCCATTTGAACCACATTCTGCCATTTTTGGAACTCTATTGGGTAAAATGAAGTTGGCAGGCTATGTTCCAGATCTTGAATTTGCATTACATGATGTTGGGGAAGAGCAGAAACAGCAGCTGCTATTATGGCACAGTGAAAAACTAGCAATTGCTTTTGGGCTTATACATGTGCCTTTAGGGATGCCAATTCGCATTTTCAAAAACTTGAGAGTATGTGGGGATTGCCATCATGCGGTCAAGTATATATCAGCAATTGAGAAAAGAGAAATCATTCTCAGAGACACTACAAGGTTCCATCATTTCAAAAATGGGGTTTGTTCTTGTGGTGATTACTGGTAG

Protein Analysis

578

Amino Acids

64.91

Weight (kDa)

8.85

Isoelectric Point (pI)

35.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 172 - 204 5.6e-06 PPR repeat family
PPR PF01535 176 - 204 5.1e-07 PPR repeat
PPR_2 PF13041 235 - 266 1.4e-06 PPR repeat family
PPR PF01535 237 - 266 8e-07 PPR repeat
PPR_2 PF13041 266 - 313 1.7e-07 PPR repeat family
PPR_2 PF13041 366 - 413 5.2e-14 PPR repeat family
PPR_3 PF13812 366 - 413 3.4e-06 Pentatricopeptide repeat domain
PPR PF01535 369 - 399 2.3e-09 PPR repeat
DYW_deaminase PF14432 485 - 577 8.5e-44 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Orthologous Genes (Group: OG0015809)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G16835
fragaria_vesca FvH4_5g20040
malus_domestica MD04G1050300.v1.1 MD06G1049600.v1.1
prunus_persica Prupe.5G060100_v2.0.a1
pyrus_communis pycom06g04210
rosa_chinensis RchiOBHm_Chr7g0204911
rosa_laevigata RLG00000003422
rosa_multiflora Rmu_co8139782.1_g000001 Rmu_co8234171.1_g000001 Rmu_sc0002180.1_g000004
rosa_roxburghii Rroxscaffold_3G00252680
rosa_rugosa Rorug07G0086500
rosa_samantha Rh7BG214100
rosa_wichuraiana Rw7G018830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 206, 1338
AciI CCGC 4 cut(s) 394, 671, 824, 1628
AclI AACGTT 1 cut(s) 1214
AclWI GGATC 1 cut(s) 212
AcsI RAATTY 6 cut(s) 343, 369, 411, 796, 1054, 1472
AcuI CTGAAG 3 cut(s) 284, 870, 999
AfaI GTAC 1 cut(s) 972
AfiI CCNNNNNNNGG 1 cut(s) 1627
AflIII ACRYGT 2 cut(s) 1328, 1561
AgeI ACCGGT 1 cut(s) 694
AgsI TTSAA 9 cut(s) 862, 995, 1271, 1307, 1370, 1403, 1472, 1594, 1699
AhlI ACTAGT 1 cut(s) 335
AjnI CCWGG 1 cut(s) 373
Alw21I GWGCWC 3 cut(s) 22, 925, 1323
Alw26I GTCTC 2 cut(s) 622, 1668
AlwI GGATC 1 cut(s) 212
AlwNI CAGNNNCTG 2 cut(s) 1022, 1513
AoxI GGCC 1 cut(s) 896
ApeKI GCWGC 5 cut(s) 34, 952, 979, 1510, 1513
ApoI RAATTY 6 cut(s) 343, 369, 411, 796, 1054, 1472
AsiGI ACCGGT 1 cut(s) 694
Asp700I GAANNNNTTC 3 cut(s) 866, 1076, 1665
AspLEI GCGC 1 cut(s) 952
AsuC2I CCSGG 2 cut(s) 280, 358
AsuHPI GGTGA 3 cut(s) 253, 685, 1733
BauI CACGAG 1 cut(s) 619
Bbv12I GWGCWC 3 cut(s) 22, 925, 1323
BbvI GCAGC 5 cut(s) 21, 939, 966, 1500, 1522
BccI CCATC 3 cut(s) 92, 1629, 1698
BceAI ACGGC 1 cut(s) 735
BciT130I CCWGG 1 cut(s) 375
BclI TGATCA 1 cut(s) 258
BcnI CCSGG 2 cut(s) 280, 358
BcoDI GTCTC 2 cut(s) 622, 1668
BcuI ACTAGT 1 cut(s) 335
BfaI CTAG 3 cut(s) 336, 1364, 1538
BfmI CTRYAG 1 cut(s) 1374
BglII AGATCT 2 cut(s) 1258, 1465
BisI GCNGC 5 cut(s) 35, 953, 980, 1511, 1514
BlpI GCTNAGC 1 cut(s) 1311
BlsI GCNGC 5 cut(s) 36, 954, 981, 1512, 1515
Bme1390I CCNGG 3 cut(s) 280, 358, 375
BmiI GGNNCC 1 cut(s) 1688
BmrFI CCNGG 3 cut(s) 280, 358, 375
BmrI ACTGGG 2 cut(s) 741, 938
BmsI GCATC 7 cut(s) 495, 533, 588, 774, 914, 1054, 1566
BmuI ACTGGG 2 cut(s) 741, 938
BplI GAGNNNNNCTC 2 cut(s) 907, 939
Bpu1102I GCTNAGC 1 cut(s) 1311
BpuEI CTTGAG 1 cut(s) 1621
BpuMI CCSGG 2 cut(s) 280, 358
BsaAI YACGTR 1 cut(s) 464
BsaBI GATNNNNATC 1 cut(s) 1620
BsaJI CCNNGG 3 cut(s) 279, 374, 1284
BsaWI WCCGGW 1 cut(s) 694
BsaXI ACNNNNNCTCC 2 cut(s) 1052, 1082
Bsc4I CCNNNNNNNGG 1 cut(s) 1627
Bse118I RCCGGY 1 cut(s) 694
Bse1I ACTGG 4 cut(s) 159, 736, 933, 1733
Bse3DI GCAATG 4 cut(s) 240, 241, 519, 1125
Bse8I GATNNNNATC 1 cut(s) 1620
BseBI CCWGG 1 cut(s) 375
BseDI CCNNGG 3 cut(s) 279, 374, 1284
BseGI GGATG 2 cut(s) 1069, 1581
BseJI GATNNNNATC 1 cut(s) 1620
BseLI CCNNNNNNNGG 1 cut(s) 1627
BseMI GCAATG 4 cut(s) 240, 241, 519, 1125
BseMII CTCAG 5 cut(s) 569, 594, 780, 1177, 1684
BseNI ACTGG 4 cut(s) 159, 736, 933, 1733
BseXI GCAGC 5 cut(s) 21, 939, 966, 1500, 1522
BsgI GTGCAG 1 cut(s) 279
BshFI GGCC 1 cut(s) 898
BshTI ACCGGT 1 cut(s) 694
BsiHKAI GWGCWC 3 cut(s) 22, 925, 1323
BsiSI CCGG 3 cut(s) 279, 357, 695
BslI CCNNNNNNNGG 1 cut(s) 1627
BsmAI GTCTC 2 cut(s) 622, 1668
BsmI GAATGC 2 cut(s) 817, 1120
BsnI GGCC 1 cut(s) 898
Bsp1286I GDGCHC 3 cut(s) 22, 925, 1323
Bsp143I GATC 4 cut(s) 217, 258, 1258, 1465
Bsp1720I GCTNAGC 1 cut(s) 1311
Bsp19I CCATGG 1 cut(s) 1284
BspACI CCGC 4 cut(s) 394, 671, 824, 1628
BspANI GGCC 1 cut(s) 898
BspCNI CTCAG 5 cut(s) 568, 595, 781, 1176, 1683
BspLI GGNNCC 1 cut(s) 1688
BspPI GGATC 1 cut(s) 212
BspQI GCTCTTC 3 cut(s) 10, 76, 1491
BsrDI GCAATG 4 cut(s) 240, 241, 519, 1125
BsrFI RCCGGY 1 cut(s) 694
BsrI ACTGG 4 cut(s) 159, 736, 933, 1733
BssAI RCCGGY 1 cut(s) 694
BssECI CCNNGG 3 cut(s) 279, 374, 1284
BssMI GATC 4 cut(s) 217, 258, 1258, 1465
BssSI CACGAG 1 cut(s) 619
BssT1I CCWWGG 1 cut(s) 1284
Bst2BI CACGAG 1 cut(s) 619
Bst2UI CCWGG 1 cut(s) 375
Bst4CI ACNGT 6 cut(s) 322, 402, 614, 842, 1296, 1529
Bst6I CTCTTC 4 cut(s) 10, 76, 846, 1491
BstAPI GCANNNNNTGC 1 cut(s) 1124
BstBAI YACGTR 1 cut(s) 464
BstC8I GCNNGC 6 cut(s) 394, 450, 576, 1129, 1237, 1453
BstDEI CTNAG 7 cut(s) 11, 555, 603, 789, 1163, 1311, 1670
BstDSI CCRYGG 1 cut(s) 1284
BstF5I GGATG 2 cut(s) 1069, 1581
BstHHI GCGC 1 cut(s) 952
BstKTI GATC 4 cut(s) 220, 261, 1261, 1468
BstMAI GTCTC 2 cut(s) 622, 1668
BstMBI GATC 4 cut(s) 217, 258, 1258, 1465
BstMWI GCNNNNNNNGC 8 cut(s) 31, 362, 719, 821, 1124, 1133, 1507, 1522
BstNI CCWGG 1 cut(s) 375
BstNSI RCATGY 2 cut(s) 1332, 1565
BstSCI CCNGG 3 cut(s) 278, 356, 373
BstSFI CTRYAG 1 cut(s) 1374
BstSNI TACGTA 1 cut(s) 464
BstV1I GCAGC 5 cut(s) 21, 939, 966, 1500, 1522
BstX2I RGATCY 2 cut(s) 1258, 1465
BstYI RGATCY 2 cut(s) 1258, 1465
BsuRI GGCC 1 cut(s) 898
BtgI CCRYGG 1 cut(s) 1284
BtsCI GGATG 2 cut(s) 1069, 1581
BtsI GCAGTG 1 cut(s) 29
BtsIMutI CAGTG 3 cut(s) 29, 619, 1534
Cac8I GCNNGC 6 cut(s) 394, 450, 576, 1129, 1237, 1453
CaiI CAGNNNCTG 2 cut(s) 1022, 1513
CfoI GCGC 1 cut(s) 952
Cfr10I RCCGGY 1 cut(s) 694
CseI GACGC 1 cut(s) 234
Csp6I GTAC 1 cut(s) 971
CspAI ACCGGT 1 cut(s) 694
CviQI GTAC 1 cut(s) 971
DdeI CTNAG 7 cut(s) 11, 555, 603, 789, 1163, 1311, 1670
DpnI GATC 4 cut(s) 219, 260, 1260, 1467
DpnII GATC 4 cut(s) 217, 258, 1258, 1465
DraI TTTAAA 1 cut(s) 1155
Eam1104I CTCTTC 4 cut(s) 10, 76, 846, 1491
EarI CTCTTC 4 cut(s) 10, 76, 846, 1491
Eco105I TACGTA 1 cut(s) 464
Eco130I CCWWGG 1 cut(s) 1284
Eco32I GATATC 1 cut(s) 543
Eco57I CTGAAG 3 cut(s) 284, 870, 999
EcoRI GAATTC 1 cut(s) 343
EcoRII CCWGG 1 cut(s) 373
EcoRV GATATC 1 cut(s) 543
EcoT14I CCWWGG 1 cut(s) 1284
EcoT22I ATGCAT 1 cut(s) 907
ErhI CCWWGG 1 cut(s) 1284
FauI CCCGC 2 cut(s) 401, 817
FbaI TGATCA 1 cut(s) 258
FblI GTMKAC 2 cut(s) 206, 1338
Fnu4HI GCNGC 5 cut(s) 35, 953, 980, 1511, 1514
FokI GGATG 2 cut(s) 1076, 1588
Fsp4HI GCNGC 5 cut(s) 35, 953, 980, 1511, 1514
FspBI CTAG 3 cut(s) 336, 1364, 1538
GlaI GCGC 1 cut(s) 951
GluI GCNGC 5 cut(s) 35, 953, 980, 1511, 1514
HaeIII GGCC 1 cut(s) 898
HapII CCGG 3 cut(s) 279, 357, 695
HgaI GACGC 1 cut(s) 234
HhaI GCGC 1 cut(s) 952
Hin6I GCGC 1 cut(s) 950
HinP1I GCGC 1 cut(s) 950
HinfI GANTC 4 cut(s) 203, 290, 665, 1280
HpaII CCGG 3 cut(s) 279, 357, 695
HphI GGTGA 3 cut(s) 253, 685, 1733
Hpy166II GTNNAC 2 cut(s) 207, 1339
Hpy188I TCNGA 2 cut(s) 558, 1673
Hpy188III TCNNGA 3 cut(s) 1017, 1463, 1469
Hpy8I GTNNAC 2 cut(s) 207, 1339
Hpy99I CGWCG 1 cut(s) 250
HpyAV CCTTC 2 cut(s) 1142, 1352
HpyCH4III ACNGT 6 cut(s) 322, 402, 614, 842, 1296, 1529
HpyCH4IV ACGT 2 cut(s) 463, 1214
HpyF10VI GCNNNNNNNGC 8 cut(s) 31, 362, 719, 821, 1124, 1133, 1507, 1522
HpyF3I CTNAG 7 cut(s) 11, 555, 603, 789, 1163, 1311, 1670
HpySE526I ACGT 2 cut(s) 463, 1214
HspAI GCGC 1 cut(s) 950
Ksp22I TGATCA 1 cut(s) 258
Kzo9I GATC 4 cut(s) 217, 258, 1258, 1465
LguI GCTCTTC 3 cut(s) 10, 76, 1491
Lsp1109I GCAGC 5 cut(s) 21, 939, 966, 1500, 1522
LweI GCATC 7 cut(s) 495, 533, 588, 774, 914, 1054, 1566
MaeI CTAG 3 cut(s) 336, 1364, 1538
MaeII ACGT 2 cut(s) 463, 1214
MaeIII GTNAC 4 cut(s) 161, 727, 802, 1105
MalI GATC 4 cut(s) 219, 260, 1260, 1467
MboI GATC 4 cut(s) 217, 258, 1258, 1465
MboII GAAGA 6 cut(s) 27, 63, 619, 763, 863, 1508
MfeI CAATTG 2 cut(s) 1542, 1647
MflI RGATCY 2 cut(s) 1258, 1465
MhlI GDGCHC 3 cut(s) 22, 925, 1323
MlyI GAGTC 2 cut(s) 212, 659
MmeI TCCRAC 1 cut(s) 320
Mph1103I ATGCAT 1 cut(s) 907
MroXI GAANNNNTTC 3 cut(s) 866, 1076, 1665
MseI TTAA 4 cut(s) 513, 699, 1154, 1229
MslI CAYNNNNRTG 1 cut(s) 1085
MspA1I CMGCKG 2 cut(s) 979, 1513
MspI CCGG 3 cut(s) 279, 357, 695
MspR9I CCNGG 3 cut(s) 280, 358, 375
MunI CAATTG 2 cut(s) 1542, 1647
Mva1269I GAATGC 2 cut(s) 817, 1120
MvaI CCWGG 1 cut(s) 375
MwoI GCNNNNNNNGC 8 cut(s) 31, 362, 719, 821, 1124, 1133, 1507, 1522
NciI CCSGG 2 cut(s) 280, 358
NcoI CCATGG 1 cut(s) 1284
NdeII GATC 4 cut(s) 217, 258, 1258, 1465
NlaIV GGNNCC 1 cut(s) 1688
NmeAIII GCCGAG 1 cut(s) 647
NsiI ATGCAT 1 cut(s) 907
NspI RCATGY 2 cut(s) 1332, 1565
PciI ACATGT 2 cut(s) 1328, 1561
PciSI GCTCTTC 3 cut(s) 10, 76, 1491
PcsI WCGNNNNNNNCGW 1 cut(s) 626
PctI GAATGC 2 cut(s) 817, 1120
PdmI GAANNNNTTC 3 cut(s) 866, 1076, 1665
PfeI GAWTC 2 cut(s) 290, 1280
PinAI ACCGGT 1 cut(s) 694
PkrI GCNGC 5 cut(s) 36, 954, 981, 1512, 1515
PleI GAGTC 2 cut(s) 211, 659
PpsI GAGTC 2 cut(s) 211, 659
Ppu21I YACGTR 1 cut(s) 464
PscI ACATGT 2 cut(s) 1328, 1561
Psp1406I AACGTT 1 cut(s) 1214
Psp6I CCWGG 1 cut(s) 373
PspGI CCWGG 1 cut(s) 373
PspN4I GGNNCC 1 cut(s) 1688
PstNI CAGNNNCTG 2 cut(s) 1022, 1513
PsuI RGATCY 2 cut(s) 1258, 1465
PvuII CAGCTG 2 cut(s) 979, 1513
RsaI GTAC 1 cut(s) 972
RsaNI GTAC 1 cut(s) 971
RseI CAYNNNNRTG 1 cut(s) 1085
SapI GCTCTTC 3 cut(s) 10, 76, 1491
SaqAI TTAA 4 cut(s) 513, 699, 1154, 1229
SatI GCNGC 5 cut(s) 35, 953, 980, 1511, 1514
Sau3AI GATC 4 cut(s) 217, 258, 1258, 1465
SchI GAGTC 2 cut(s) 212, 659
ScrFI CCNGG 3 cut(s) 280, 358, 375
SduI GDGCHC 3 cut(s) 22, 925, 1323
SfaNI GCATC 7 cut(s) 495, 533, 588, 774, 914, 1054, 1566
SfcI CTRYAG 1 cut(s) 1374
SmiMI CAYNNNNRTG 1 cut(s) 1085
SmlI CTYRAG 1 cut(s) 1600
SmoI CTYRAG 1 cut(s) 1600
SnaBI TACGTA 1 cut(s) 464
SpeI ACTAGT 1 cut(s) 335
SsiI CCGC 4 cut(s) 394, 671, 824, 1628
SspI AATATT 1 cut(s) 1274
SspMI CTAG 3 cut(s) 336, 1364, 1538
StyD4I CCNGG 3 cut(s) 278, 356, 373
StyI CCWWGG 1 cut(s) 1284
TaaI ACNGT 6 cut(s) 322, 402, 614, 842, 1296, 1529
TaiI ACGT 2 cut(s) 466, 1217
TaqI TCGA 3 cut(s) 248, 347, 1300
TatI WGTACW 1 cut(s) 970
TfiI GAWTC 2 cut(s) 290, 1280
Tru1I TTAA 4 cut(s) 513, 699, 1154, 1229
Tru9I TTAA 4 cut(s) 513, 699, 1154, 1229
TscAI CASTG 3 cut(s) 36, 619, 1534
TseI GCWGC 5 cut(s) 34, 952, 979, 1510, 1513
TspDTI ATGAA 3 cut(s) 755, 1069, 1457
TspRI CASTG 3 cut(s) 36, 619, 1534
XapI RAATTY 6 cut(s) 343, 369, 411, 796, 1054, 1472
XceI RCATGY 2 cut(s) 1332, 1565
XmiI GTMKAC 2 cut(s) 206, 1338
XmnI GAANNNNTTC 3 cut(s) 866, 1076, 1665
XspI CTAG 3 cut(s) 336, 1364, 1538
Zsp2I ATGCAT 1 cut(s) 907
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.