RLG00000001010

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0002831
Physical Location & Seq
Forward (+)
9181125 .. 9185022
3898 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000001010

Sequence Viewer

Length: 1752 bp
ATGTCGCCTGAGCCTAGCTCACTCCGGCTGCTGTCGTTCTTGAGGAAGAAGCAGGTGCCGCCAGAGAACATGTGCAGGAGGGGATCTCTGCTAGTGATTGCCATGTGGGAAGAGATCGACCACTCCGACCGTCGACGACTCACTTCAGCCACTGAACTCCTTCTGGGTTGCAGGGCCCTTAAAACAGCTGCAGTTTTCATGAATCTAAGGAGAGTTCATTTTAGTTGGTGCCGTTGGTTCTCTTCCTCTCCTTCGACAATCTCATCATCTGTTTCATGGATCTCTCCTCTTCAGTTATCAAAATTCAATGCTCACAAACCAGATCCCCCTCCCGAAACCACAACCACAAGGACAGAAGCTAGGAGGAAATCCAAATATATTTCTCATGATGCTGCCATCAACTTAATTAAACGTGAGAGTGATCCACAACTTGCCTTGGAAATATTTAACATGGTTTCGGAGCAAAAGGGTTTCAACCACAATAATGCCACCTATGCAACTATCCTCAATAAGCTTGCTCAGTCCAAGAAGTTCAAGGCTGTTGATGCAGTTCTCTATCAAATGAAGTACGATACCTGCAAATATCATGAGGGTATATTCCTTAATCTCATGAAGCATTTTTCAAATTCATCTATGCATGAAAGAGTGCTTGAAATGTTCTATGCTATCCAGCCAATAGTTCGGGAAAAGCCGTCTCTCAAATGCATTAGTACTTGTCTAAATCTACTGATTGAAGCGAATCAGGTTGATTTGGCCCAACAGTTTCTCATGCATTTGAAGAAGAGTCTTAACTTGAAGCTGAATACATGCATTGTCAACATCTTGGTTAAGCACCATTGCAAAAATGGGGATCTTGAATCTGCCTTTGAGGTTGTAAAGGAAATGAAAAAGTCTAAGCTTTCCTATCCTAATTTGATTACTTACTCGACTCTAATTGATGGTTTATGTCAAAGTGGAAGACTGACAGAAGCAATGGACCTGTTTGAGGAAATGATCTCAAAGGATCAGATATTGCCTGATGTGCTAACGTACAACATTTTGATTAACGGTTTTTGCCGTGGTGGGAAAGTTGATAGGGCAAGGAAGATATTGGATTTTATGAAGAGCAAAGGATGCAACCCAAATGTATTCAACTACTCAGCTCTGATGAATGGATTCTGTAAGGAGGAAAGGTTGGAAGAGGCCAAGGAGCTTTTGGATGAAATGAAGAGCTTTGGTATCAAACCAGATACAGTTGTCTACACAACTTTAATTGATTGCTACTTTAGGACTGGGAGAGTTGATGAAGCGATAGAGTTGCTCAAAGAGATGAAAGAAAGACGGTGCAAAGCTGATACTGTGACTTTCAATGTGATACTTGGAGGACTATGTAGAGAAGGTAGAATTGAGGATGCGCTTGAGATGCTGGACAAACTTCCTTATGAGGGTATCTATCTGAATAAGGGAAGCTACAGGATTGTGTTGAATTCATTGTGTCAGAAAGGCGAACTAAACAAAGCTAAAGAGTTGTTGAGATTGATGATGGGTAGGGGGTTTGTACCACATTATGCAACTTCAAACGAGTTGCTAGTTAGCCTTTGTGAGGCTGGAATGGCAGATGATGCAATTATGGCTTTATTTGGATTGGTGGAGATGGGATTCAAGCCACTGCCTGATTCCTGGACTCTTTTTGTTGAATCAATTTGCAGAGAAAGAAAGCTGCTGCCTGCATTTGAACTGCTCGATGAATTAGTTAATGAAGAGTTCGATTAA

Protein Analysis

584

Amino Acids

66.7

Weight (kDa)

8.4

Isoelectric Point (pI)

42.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 262 - 313 1.2e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 264 - 296 7.5e-07 PPR repeat
PPR_long PF17177 266 - 335 3.5e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 268 - 317 6.1e-14 PPR repeat family
PPR_2 PF13041 303 - 353 2.7e-17 PPR repeat family
PPR_1 PF12854 303 - 331 4.2e-13 PPR repeat
PPR PF01535 306 - 334 2.5e-09 PPR repeat
PPR_long PF17177 318 - 471 3.7e-10 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 328 - 386 1.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 337 - 368 4.1e-13 PPR repeat
PPR_2 PF13041 339 - 388 1.8e-17 PPR repeat family
PPR PF01535 343 - 372 1.7e-08 PPR repeat
PPR_1 PF12854 370 - 403 9.1e-13 PPR repeat
PPR_2 PF13041 374 - 419 5.5e-14 PPR repeat family
TPR_24 PF23276 378 - 468 5e-08 Fungal tetratrico peptide repeats
PPR PF01535 379 - 407 3.9e-08 PPR repeat
PPR_long PF17177 392 - 504 8.4e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 398 - 454 3.1e-13 Pentatricopeptide repeat domain
PPR_1 PF12854 406 - 438 7.4e-13 PPR repeat
PPR_2 PF13041 409 - 458 3.2e-18 PPR repeat family
PPR PF01535 412 - 442 8.3e-10 PPR repeat
PPR_1 PF12854 441 - 471 1.1e-09 PPR repeat
PPR_2 PF13041 445 - 493 5.7e-11 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 43
Acc36I ACCTGC 2 cut(s) 43, 584
AccB1I GGYRCC 2 cut(s) 55, 228
AccI GTMKAC 2 cut(s) 133, 1239
AciI CCGC 1 cut(s) 59
AclWI GGATC 6 cut(s) 91, 287, 317, 416, 858, 1011
AcsI RAATTY 3 cut(s) 302, 625, 1465
AcuI CTGAAG 2 cut(s) 129, 275
AfaI GTAC 4 cut(s) 569, 712, 1031, 1539
AfiI CCNNNNNNNGG 3 cut(s) 985, 1424, 1582
AflIII ACRYGT 1 cut(s) 69
AjnI CCWGG 1 cut(s) 1658
Alw26I GTCTC 1 cut(s) 699
AlwI GGATC 6 cut(s) 91, 287, 317, 416, 858, 1011
AlwNI CAGNNNCTG 1 cut(s) 152
AoxI GGCC 3 cut(s) 174, 753, 1182
ApaI GGGCCC 1 cut(s) 178
ApeKI GCWGC 5 cut(s) 28, 188, 392, 1699, 1702
ApoI RAATTY 3 cut(s) 302, 625, 1465
Asp700I GAANNNNTTC 2 cut(s) 159, 1154
AspLEI GCGC 1 cut(s) 1396
AspS9I GGNCC 4 cut(s) 174, 175, 754, 976
AvaII GGWCC 1 cut(s) 976
BaeGI GKGCMC 1 cut(s) 178
BaeI ACNNNNGTAYC 2 cut(s) 1221, 1254
BanI GGYRCC 2 cut(s) 55, 228
BanII GRGCYC 1 cut(s) 178
BbsI GAAGAC 1 cut(s) 964
BbvI GCAGC 5 cut(s) 15, 175, 379, 1686, 1689
BccI CCATC 4 cut(s) 404, 932, 1516, 1627
BceAI ACGGC 3 cut(s) 216, 676, 1041
BcgI CGANNNNNNTGC 2 cut(s) 1279, 1313
BciT130I CCWGG 1 cut(s) 1660
BcoDI GTCTC 1 cut(s) 699
BfaI CTAG 4 cut(s) 15, 92, 360, 1568
BfmI CTRYAG 2 cut(s) 189, 1450
BfuAI ACCTGC 2 cut(s) 43, 584
BisI GCNGC 6 cut(s) 29, 59, 189, 393, 1700, 1703
BlsI GCNGC 6 cut(s) 30, 60, 190, 394, 1701, 1704
BmcAI AGTACT 1 cut(s) 712
Bme1390I CCNGG 1 cut(s) 1660
Bme18I GGWCC 1 cut(s) 976
BmgT120I GGNCC 4 cut(s) 174, 175, 754, 976
BmiI GGNNCC 3 cut(s) 57, 176, 230
BmrFI CCNGG 1 cut(s) 1660
BmrI ACTGGG 1 cut(s) 1281
BmsI GCATC 6 cut(s) 379, 535, 1103, 1381, 1392, 1591
BmuI ACTGGG 1 cut(s) 1281
BpiI GAAGAC 1 cut(s) 964
BplI GAGNNNNNCTC 3 cut(s) 34, 70, 102
Bpu10I CCTNAGC 1 cut(s) 9
BpuEI CTTGAG 2 cut(s) 61, 1418
BsaJI CCNNGG 3 cut(s) 435, 1057, 1185
BsaXI ACNNNNNCTCC 2 cut(s) 1157, 1187
Bsc4I CCNNNNNNNGG 3 cut(s) 985, 1424, 1582
Bse1I ACTGG 1 cut(s) 1276
Bse3DI GCAATG 2 cut(s) 835, 978
BseBI CCWGG 1 cut(s) 1660
BseDI CCNNGG 3 cut(s) 435, 1057, 1185
BseGI GGATG 3 cut(s) 1118, 1204, 1396
BseLI CCNNNNNNNGG 3 cut(s) 985, 1424, 1582
BseMI GCAATG 2 cut(s) 835, 978
BseMII CTCAG 2 cut(s) 533, 1152
BseNI ACTGG 1 cut(s) 1276
BseRI GAGGAG 1 cut(s) 276
BseSI GKGCMC 1 cut(s) 178
BseXI GCAGC 5 cut(s) 15, 175, 379, 1686, 1689
BsgI GTGCAG 1 cut(s) 94
Bsh1285I CGRYCG 1 cut(s) 130
BshFI GGCC 3 cut(s) 176, 755, 1184
BshNI GGYRCC 2 cut(s) 55, 228
BsiEI CGRYCG 1 cut(s) 130
BsiSI CCGG 1 cut(s) 25
BslI CCNNNNNNNGG 3 cut(s) 985, 1424, 1582
BsmAI GTCTC 1 cut(s) 699
BsmBI CGTCTC 1 cut(s) 699
BsnI GGCC 3 cut(s) 176, 755, 1184
Bsp120I GGGCCC 1 cut(s) 174
Bsp1286I GDGCHC 1 cut(s) 178
Bsp143I GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
BspACI CCGC 1 cut(s) 59
BspANI GGCC 3 cut(s) 176, 755, 1184
BspCNI CTCAG 2 cut(s) 532, 1151
BspHI TCATGA 4 cut(s) 198, 385, 586, 609
BspLI GGNNCC 3 cut(s) 57, 176, 230
BspMAI CTGCAG 1 cut(s) 193
BspMI ACCTGC 2 cut(s) 43, 584
BspPI GGATC 6 cut(s) 91, 287, 317, 416, 858, 1011
BspQI GCTCTTC 2 cut(s) 1097, 1202
BspT107I GGYRCC 2 cut(s) 55, 228
BsrDI GCAATG 2 cut(s) 835, 978
BsrI ACTGG 1 cut(s) 1276
BssECI CCNNGG 3 cut(s) 435, 1057, 1185
BssMI GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
BssT1I CCWWGG 2 cut(s) 435, 1185
Bst2UI CCWGG 1 cut(s) 1660
Bst4CI ACNGT 6 cut(s) 131, 762, 1049, 1234, 1323, 1339
Bst6I CTCTTC 8 cut(s) 105, 247, 294, 776, 1097, 1173, 1202, 1734
BstAPI GCANNNNNTGC 2 cut(s) 1113, 1601
BstC8I GCNNGC 2 cut(s) 516, 1707
BstDEI CTNAG 5 cut(s) 9, 206, 519, 894, 1138
BstDSI CCRYGG 1 cut(s) 1057
BstENI CCTNNNNNAGG 2 cut(s) 983, 1580
BstF5I GGATG 3 cut(s) 1118, 1204, 1396
BstHHI GCGC 1 cut(s) 1396
BstKTI GATC 8 cut(s) 86, 117, 282, 325, 424, 853, 996, 1006
BstMAI GTCTC 1 cut(s) 699
BstMBI GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
BstMCI CGRYCG 1 cut(s) 130
BstMWI GCNNNNNNNGC 9 cut(s) 58, 494, 545, 1021, 1113, 1402, 1592, 1601, 1610
BstNI CCWGG 1 cut(s) 1660
BstNSI RCATGY 2 cut(s) 73, 810
BstSCI CCNGG 1 cut(s) 1658
BstSFI CTRYAG 2 cut(s) 189, 1450
BstSLI GKGCMC 1 cut(s) 178
BstV1I GCAGC 5 cut(s) 15, 175, 379, 1686, 1689
BstV2I GAAGAC 1 cut(s) 964
BstX2I RGATCY 4 cut(s) 83, 279, 322, 850
BstYI RGATCY 4 cut(s) 83, 279, 322, 850
BsuRI GGCC 3 cut(s) 176, 755, 1184
BtgI CCRYGG 1 cut(s) 1057
BtsCI GGATG 3 cut(s) 1118, 1204, 1396
BtsI GCAGTG 1 cut(s) 1646
BtsIMutI CAGTG 2 cut(s) 150, 1646
BveI ACCTGC 2 cut(s) 43, 584
Cac8I GCNNGC 2 cut(s) 516, 1707
CaiI CAGNNNCTG 1 cut(s) 152
CciI TCATGA 4 cut(s) 198, 385, 586, 609
CfoI GCGC 1 cut(s) 1396
Cfr13I GGNCC 4 cut(s) 174, 175, 754, 976
Csp6I GTAC 4 cut(s) 568, 711, 1030, 1538
CviQI GTAC 4 cut(s) 568, 711, 1030, 1538
DdeI CTNAG 5 cut(s) 9, 206, 519, 894, 1138
DpnI GATC 8 cut(s) 85, 116, 281, 324, 423, 852, 995, 1005
DpnII GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
Eam1104I CTCTTC 8 cut(s) 105, 247, 294, 776, 1097, 1173, 1202, 1734
EarI CTCTTC 8 cut(s) 105, 247, 294, 776, 1097, 1173, 1202, 1734
Eco130I CCWWGG 2 cut(s) 435, 1185
Eco24I GRGCYC 1 cut(s) 178
Eco47I GGWCC 1 cut(s) 976
Eco57I CTGAAG 2 cut(s) 129, 275
EcoNI CCTNNNNNAGG 2 cut(s) 983, 1580
EcoO109I RGGNCCY 2 cut(s) 174, 175
EcoRI GAATTC 1 cut(s) 1465
EcoRII CCWGG 1 cut(s) 1658
EcoT14I CCWWGG 2 cut(s) 435, 1185
EcoT22I ATGCAT 4 cut(s) 639, 707, 774, 812
EcoT38I GRGCYC 1 cut(s) 178
ErhI CCWWGG 2 cut(s) 435, 1185
Esp3I CGTCTC 1 cut(s) 699
FblI GTMKAC 2 cut(s) 133, 1239
Fnu4HI GCNGC 6 cut(s) 29, 59, 189, 393, 1700, 1703
FokI GGATG 3 cut(s) 1125, 1211, 1403
FriOI GRGCYC 1 cut(s) 178
Fsp4HI GCNGC 6 cut(s) 29, 59, 189, 393, 1700, 1703
FspBI CTAG 4 cut(s) 15, 92, 360, 1568
GlaI GCGC 1 cut(s) 1395
GluI GCNGC 6 cut(s) 29, 59, 189, 393, 1700, 1703
HaeIII GGCC 3 cut(s) 176, 755, 1184
HapII CCGG 1 cut(s) 25
HhaI GCGC 1 cut(s) 1396
Hin6I GCGC 1 cut(s) 1394
HinP1I GCGC 1 cut(s) 1394
HincII GTYRAC 2 cut(s) 134, 817
HindII GTYRAC 2 cut(s) 134, 817
HindIII AAGCTT 2 cut(s) 512, 896
HpaII CCGG 1 cut(s) 25
Hpy166II GTNNAC 3 cut(s) 134, 817, 1240
Hpy188I TCNGA 6 cut(s) 127, 460, 1008, 1146, 1437, 1479
Hpy188III TCNNGA 8 cut(s) 40, 199, 332, 386, 587, 610, 683, 854
Hpy8I GTNNAC 3 cut(s) 134, 817, 1240
Hpy99I CGWCG 2 cut(s) 135, 138
HpyAV CCTTC 3 cut(s) 170, 261, 1370
HpyCH4III ACNGT 6 cut(s) 131, 762, 1049, 1234, 1323, 1339
HpyCH4IV ACGT 2 cut(s) 412, 1028
HpyF10VI GCNNNNNNNGC 9 cut(s) 58, 494, 545, 1021, 1113, 1402, 1592, 1601, 1610
HpyF3I CTNAG 5 cut(s) 9, 206, 519, 894, 1138
HpySE526I ACGT 2 cut(s) 412, 1028
HspAI GCGC 1 cut(s) 1394
Kzo9I GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
LguI GCTCTTC 2 cut(s) 1097, 1202
LmnI GCTCC 2 cut(s) 460, 1189
Lsp1109I GCAGC 5 cut(s) 15, 175, 379, 1686, 1689
LweI GCATC 6 cut(s) 379, 535, 1103, 1381, 1392, 1591
MaeI CTAG 4 cut(s) 15, 92, 360, 1568
MaeII ACGT 2 cut(s) 412, 1028
MaeIII GTNAC 1 cut(s) 1339
MalI GATC 8 cut(s) 85, 116, 281, 324, 423, 852, 995, 1005
MboI GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
MflI RGATCY 4 cut(s) 83, 279, 322, 850
MhlI GDGCHC 1 cut(s) 178
MlyI GAGTC 4 cut(s) 132, 793, 922, 1657
MmeI TCCRAC 2 cut(s) 150, 1155
Mph1103I ATGCAT 4 cut(s) 639, 707, 774, 812
MroXI GAANNNNTTC 2 cut(s) 159, 1154
MslI CAYNNNNRTG 1 cut(s) 483
MspA1I CMGCKG 1 cut(s) 188
MspI CCGG 1 cut(s) 25
MspR9I CCNGG 1 cut(s) 1660
MvaI CCWGG 1 cut(s) 1660
MwoI GCNNNNNNNGC 9 cut(s) 58, 494, 545, 1021, 1113, 1402, 1592, 1601, 1610
NdeII GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
NlaIV GGNNCC 3 cut(s) 57, 176, 230
NmuCI GTSAC 1 cut(s) 1339
NsiI ATGCAT 4 cut(s) 639, 707, 774, 812
NspI RCATGY 2 cut(s) 73, 810
PacI TTAATTAA 1 cut(s) 408
PagI TCATGA 4 cut(s) 198, 385, 586, 609
PaqCI CACCTGC 1 cut(s) 43
PciI ACATGT 1 cut(s) 69
PciSI GCTCTTC 2 cut(s) 1097, 1202
PcsI WCGNNNNNNNCGW 1 cut(s) 123
PdmI GAANNNNTTC 2 cut(s) 159, 1154
PfeI GAWTC 7 cut(s) 202, 739, 857, 1155, 1638, 1655, 1676
PfoI TCCNGGA 1 cut(s) 1658
PkrI GCNGC 6 cut(s) 30, 60, 190, 394, 1701, 1704
PleI GAGTC 4 cut(s) 132, 792, 922, 1657
PpsI GAGTC 4 cut(s) 132, 792, 922, 1657
PscI ACATGT 1 cut(s) 69
Psp6I CCWGG 1 cut(s) 1658
PspGI CCWGG 1 cut(s) 1658
PspN4I GGNNCC 3 cut(s) 57, 176, 230
PspOMI GGGCCC 1 cut(s) 174
PspPI GGNCC 4 cut(s) 174, 175, 754, 976
PstI CTGCAG 1 cut(s) 193
PstNI CAGNNNCTG 1 cut(s) 152
PsuI RGATCY 4 cut(s) 83, 279, 322, 850
PvuII CAGCTG 1 cut(s) 188
RsaI GTAC 4 cut(s) 569, 712, 1031, 1539
RsaNI GTAC 4 cut(s) 568, 711, 1030, 1538
RseI CAYNNNNRTG 1 cut(s) 483
SalI GTCGAC 1 cut(s) 132
SapI GCTCTTC 2 cut(s) 1097, 1202
SatI GCNGC 6 cut(s) 29, 59, 189, 393, 1700, 1703
Sau3AI GATC 8 cut(s) 83, 114, 279, 322, 421, 850, 993, 1003
Sau96I GGNCC 4 cut(s) 174, 175, 754, 976
ScaI AGTACT 1 cut(s) 712
SchI GAGTC 4 cut(s) 132, 793, 922, 1657
ScrFI CCNGG 1 cut(s) 1660
SduI GDGCHC 1 cut(s) 178
SfaNI GCATC 6 cut(s) 379, 535, 1103, 1381, 1392, 1591
SfcI CTRYAG 2 cut(s) 189, 1450
SgrDI CGTCGACG 1 cut(s) 132
SinI GGWCC 1 cut(s) 976
SmiMI CAYNNNNRTG 1 cut(s) 483
SmlI CTYRAG 2 cut(s) 40, 1397
SmoI CTYRAG 2 cut(s) 40, 1397
SsiI CCGC 1 cut(s) 59
SspI AATATT 1 cut(s) 444
SspMI CTAG 4 cut(s) 15, 92, 360, 1568
StyD4I CCNGG 1 cut(s) 1658
StyI CCWWGG 2 cut(s) 435, 1185
TaaI ACNGT 6 cut(s) 131, 762, 1049, 1234, 1323, 1339
TaiI ACGT 2 cut(s) 415, 1031
TaqI TCGA 6 cut(s) 117, 133, 254, 926, 1722, 1746
TatI WGTACW 1 cut(s) 710
TauI GCSGC 1 cut(s) 61
TfiI GAWTC 7 cut(s) 202, 739, 857, 1155, 1638, 1655, 1676
TscAI CASTG 2 cut(s) 157, 1653
TseFI GTSAC 1 cut(s) 1339
TseI GCWGC 5 cut(s) 28, 188, 392, 1699, 1702
Tsp45I GTSAC 1 cut(s) 1339
TspRI CASTG 2 cut(s) 157, 1653
VpaK11BI GGWCC 1 cut(s) 976
XagI CCTNNNNNAGG 2 cut(s) 983, 1580
XapI RAATTY 3 cut(s) 302, 625, 1465
XceI RCATGY 2 cut(s) 73, 810
XcmI CCANNNNNNNNNTGG 2 cut(s) 842, 1192
XmiI GTMKAC 2 cut(s) 133, 1239
XmnI GAANNNNTTC 2 cut(s) 159, 1154
XspI CTAG 4 cut(s) 15, 92, 360, 1568
ZrmI AGTACT 1 cut(s) 712
Zsp2I ATGCAT 4 cut(s) 639, 707, 774, 812
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.