RLG00000023208

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0005202
Physical Location & Seq
Reverse (-)
19972922 .. 19975584
2663 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000023208

Sequence Viewer

Length: 1791 bp
ATGAGCAGACTCGTTTTCAAGTCAAACCCACACCCTCCTCCCTGTCTTCTTCTTCTTCAAACATGTTCAAGCATGAACCAACTCAAGCAAATCCATGCCCACACCCTCATCACCGGCCTAGCTCGTTTCACCTACATCACCAGCAAGCTCTTAGCCTTCTCCGCCTTATCGGAACACGGTGATTTACGCCACGCAGAGACTCTATTCAATCGAATTCCGGCACCCAATGTCTTTGATTTCAATTCCATGATCATGGGTTTCTTGAAAAACTCACATTCCGAAAAGTGTCTCTCTGTTTTTACCAAAATGAGAAGGGTAGGCGCTGACCCAAATGCTCGAACTTTCACAGTTTTGGTTAAAGCTTGTGTTGGGGTGCCTTTGCTTGATCAGATATATGGTCAGATAATGAAGTTTGGACATGAGTGTGATGTTTATGTTACTAGCTCAGTTATTAGTGTGTACTGTAAATTGAGAGCTGTGGAATTTGCTCGGAGAGTGTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTATTGTGGCAATGGGTTGGTTGATGACGCCCGTGACCTGTTCGATAAAATGCCTGAGAGAAATGATGTGTCTTACAGTGCAATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTCACCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACGGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTAAAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTACTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAGGAAGGGACCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTATAGCATTGCTCCAGAGATTGAGCACTATGGGTGCATGGTTGCTCTCTTGGCCCGTGCTGGGCGAGTGAAAGAGGCAGAGATATTGATAAGAAGTATGGCAATGGAACCAGACGGAGCTATATGGGGGTCTTTACTTAACGGGTGTTTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCAAACATGTATGCCAAAATGGAAAACTGGGAGGATGTGTTGAGGCTAAGGAAAATGATGAAGGATAAAGAGTGGAATCGGAAAGGTCAATCCAAAGCAAGCATGTCATCGCAAACTGCTTGTTATTCAATCACTATTCTTCTGCTGATGATCCTGGCGGAAGTTAGTTATTGCAAAGGAAACAGACAAGTGGACATCCTGTGCTCTTGTGTGTCCTCGAGTCATAAGCTTCTCCAAGGGACTGAGACTTATATAAAGCTTCATCAGATTGTGGATGAAACTGTCAAGAAGCTTCAAGCTGAAGTATTTGGCTTACCTGTTAATATGCGCAGGGTTATATTGACAAATTTGGCTGAAGTATTTGGCTTACCTGTTAATATGCGCAGGGTTATACTTCGCAATGAGTGGCGTATTATGTCACACAAGAAAACATAA
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
PPR PPR_2

Protein Analysis

597

Amino Acids

67.23

Weight (kDa)

8.94

Isoelectric Point (pI)

40.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 75 - 123 7.5e-11 PPR repeat family
PPR_3 PF13812 75 - 124 7.9e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 172 - 201 3.2e-09 PPR repeat
PPR_2 PF13041 173 - 205 4.4e-07 PPR repeat family
PPR PF01535 176 - 205 9.3e-08 PPR repeat
PPR_2 PF13041 307 - 354 4.1e-10 PPR repeat family
PPR PF01535 311 - 339 8.8e-06 PPR repeat
E_motif PF20431 426 - 476 1.5e-10 E motif
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)
Acc16I TGCGCA 2 cut(s) 1685, 1739
AccB1I GGYRCC 2 cut(s) 220, 373
AccII CGCG 1 cut(s) 916
AciI CCGC 3 cut(s) 162, 914, 1514
AclWI GGATC 1 cut(s) 1501
AcoI YGGCCR 1 cut(s) 1276
AcsI RAATTY 4 cut(s) 213, 482, 1116, 1702
AcuI CTGAAG 2 cut(s) 1677, 1731
AcyI GRCGYC 1 cut(s) 579
AfaI GTAC 2 cut(s) 461, 844
AfiI CCNNNNNNNGG 1 cut(s) 1179
AflIII ACRYGT 2 cut(s) 62, 1362
AhlI ACTAGT 1 cut(s) 536
AjnI CCWGG 1 cut(s) 1509
AloI GAACNNNNNNTCC 2 cut(s) 1332, 1364
Alw21I GWGCWC 3 cut(s) 840, 1146, 1562
Alw26I GTCTC 4 cut(s) 191, 293, 735, 1595
AlwI GGATC 1 cut(s) 1501
Ama87I CYCGRG 1 cut(s) 1573
AoxI GGCC 3 cut(s) 115, 1170, 1276
ApoI RAATTY 4 cut(s) 213, 482, 1116, 1702
ArsI GACNNNNNNTTYG 2 cut(s) 803, 835
AspLEI GCGC 3 cut(s) 323, 1686, 1740
AspS9I GGNCC 2 cut(s) 1016, 1171
AsuHPI GGTGA 6 cut(s) 103, 121, 130, 191, 695, 980
AvaI CYCGRG 1 cut(s) 1573
AvaII GGWCC 1 cut(s) 1016
BalI TGGCCA 1 cut(s) 1278
BanI GGYRCC 2 cut(s) 220, 373
BanII GRGCYC 1 cut(s) 840
BbsI GAAGAC 1 cut(s) 38
Bbv12I GWGCWC 3 cut(s) 840, 1146, 1562
BceAI ACGGC 1 cut(s) 861
BcgI CGANNNNNNTGC 2 cut(s) 621, 655
BciT130I CCWGG 1 cut(s) 1511
BclI TGATCA 3 cut(s) 249, 385, 945
BcoDI GTCTC 4 cut(s) 191, 293, 735, 1595
BcuI ACTAGT 1 cut(s) 536
BfaI CTAG 3 cut(s) 119, 441, 537
BfoI RGCGCY 1 cut(s) 324
BisI GCNGC 1 cut(s) 914
BlsI GCNGC 1 cut(s) 915
Bme1390I CCNGG 1 cut(s) 1511
Bme18I GGWCC 1 cut(s) 1016
BmeT110I CYCGRG 1 cut(s) 1573
BmgT120I GGNCC 2 cut(s) 1016, 1171
BmiI GGNNCC 4 cut(s) 222, 375, 1017, 1227
BmrFI CCNGG 1 cut(s) 1511
BmrI ACTGGG 1 cut(s) 1393
BmsI GCATC 2 cut(s) 877, 900
BmuI ACTGGG 1 cut(s) 1393
BpiI GAAGAC 1 cut(s) 38
BpmI CTGGAG 1 cut(s) 1116
Bpu10I CCTNAGC 1 cut(s) 1403
BpuEI CTTGAG 2 cut(s) 68, 854
BsaHI GRCGYC 1 cut(s) 579
BsaJI CCNNGG 2 cut(s) 814, 1591
BsaXI ACNNNNNCTCC 2 cut(s) 1379, 1409
Bsc4I CCNNNNNNNGG 1 cut(s) 1179
Bse118I RCCGGY 2 cut(s) 113, 1292
Bse1I ACTGG 1 cut(s) 1388
Bse3DI GCAATG 5 cut(s) 568, 639, 1125, 1227, 1762
BseBI CCWGG 1 cut(s) 1511
BseDI CCNNGG 2 cut(s) 814, 1591
BseGI GGATG 4 cut(s) 814, 1396, 1551, 1636
BseLI CCNNNNNNNGG 1 cut(s) 1179
BseMI GCAATG 5 cut(s) 568, 639, 1125, 1227, 1762
BseMII CTCAG 3 cut(s) 459, 597, 1590
BseNI ACTGG 1 cut(s) 1388
BseRI GAGGAG 1 cut(s) 27
BseYI CCCAGC 1 cut(s) 1178
Bsh1236I CGCG 1 cut(s) 916
BshFI GGCC 3 cut(s) 117, 1172, 1278
BshNI GGYRCC 2 cut(s) 220, 373
BsiHKAI GWGCWC 3 cut(s) 840, 1146, 1562
BsiHKCI CYCGRG 1 cut(s) 1573
BsiSI CCGG 3 cut(s) 114, 218, 1293
BslFI GGGAC 3 cut(s) 1029, 1116, 1609
BslI CCNNNNNNNGG 1 cut(s) 1179
BsmAI GTCTC 4 cut(s) 191, 293, 735, 1595
BsmFI GGGAC 3 cut(s) 1029, 1116, 1609
BsmI GAATGC 2 cut(s) 661, 773
BsnI GGCC 3 cut(s) 117, 1172, 1278
BsoBI CYCGRG 1 cut(s) 1573
Bsp1286I GDGCHC 3 cut(s) 840, 1146, 1562
Bsp143I GATC 4 cut(s) 249, 385, 945, 1506
Bsp19I CCATGG 1 cut(s) 814
BspACI CCGC 3 cut(s) 162, 914, 1514
BspANI GGCC 3 cut(s) 117, 1172, 1278
BspCNI CTCAG 3 cut(s) 458, 598, 1591
BspFNI CGCG 1 cut(s) 916
BspLI GGNNCC 4 cut(s) 222, 375, 1017, 1227
BspPI GGATC 1 cut(s) 1501
BspT107I GGYRCC 2 cut(s) 220, 373
BsrDI GCAATG 5 cut(s) 568, 639, 1125, 1227, 1762
BsrFI RCCGGY 2 cut(s) 113, 1292
BsrI ACTGG 1 cut(s) 1388
BssAI RCCGGY 2 cut(s) 113, 1292
BssECI CCNNGG 2 cut(s) 814, 1591
BssMI GATC 4 cut(s) 249, 385, 945, 1506
BssNI GRCGYC 1 cut(s) 579
BssT1I CCWWGG 2 cut(s) 814, 1591
Bst2UI CCWGG 1 cut(s) 1511
Bst4CI ACNGT 6 cut(s) 179, 349, 464, 629, 707, 1639
BstACI GRCGYC 1 cut(s) 579
BstC8I GCNNGC 2 cut(s) 146, 1456
BstDEI CTNAG 5 cut(s) 151, 445, 606, 1403, 1599
BstDSI CCRYGG 1 cut(s) 814
BstF5I GGATG 4 cut(s) 814, 1396, 1551, 1636
BstFNI CGCG 1 cut(s) 916
BstH2I RGCGCY 1 cut(s) 324
BstHHI GCGC 3 cut(s) 323, 1686, 1740
BstKTI GATC 4 cut(s) 252, 388, 948, 1509
BstMAI GTCTC 4 cut(s) 191, 293, 735, 1595
BstMBI GATC 4 cut(s) 249, 385, 945, 1506
BstMWI GCNNNNNNNGC 2 cut(s) 161, 1169
BstNI CCWGG 1 cut(s) 1511
BstNSI RCATGY 4 cut(s) 66, 1062, 1366, 1462
BstSCI CCNGG 1 cut(s) 1509
BstUI CGCG 1 cut(s) 916
BstV2I GAAGAC 1 cut(s) 38
BstXI CCANNNNNNTGG 1 cut(s) 253
BsuRI GGCC 3 cut(s) 117, 1172, 1278
BtgI CCRYGG 1 cut(s) 814
BtgZI GCGATG 1 cut(s) 1449
BtsCI GGATG 4 cut(s) 814, 1396, 1551, 1636
BtsI GCAGTG 1 cut(s) 1053
BtsIMutI CAGTG 2 cut(s) 634, 1053
Cac8I GCNNGC 2 cut(s) 146, 1456
CfoI GCGC 3 cut(s) 323, 1686, 1740
Cfr10I RCCGGY 2 cut(s) 113, 1292
Cfr13I GGNCC 2 cut(s) 1016, 1171
CseI GACGC 2 cut(s) 587, 689
Csp6I GTAC 2 cut(s) 460, 843
CviQI GTAC 2 cut(s) 460, 843
DdeI CTNAG 5 cut(s) 151, 445, 606, 1403, 1599
DpnI GATC 4 cut(s) 251, 387, 947, 1508
DpnII GATC 4 cut(s) 249, 385, 945, 1506
EaeI YGGCCR 1 cut(s) 1276
EciI GGCGGA 2 cut(s) 151, 1529
Ecl136II GAGCTC 1 cut(s) 838
Eco130I CCWWGG 2 cut(s) 814, 1591
Eco24I GRGCYC 1 cut(s) 840
Eco47I GGWCC 1 cut(s) 1016
Eco53kI GAGCTC 1 cut(s) 838
Eco57I CTGAAG 2 cut(s) 1677, 1731
Eco88I CYCGRG 1 cut(s) 1573
EcoICRI GAGCTC 1 cut(s) 838
EcoO109I RGGNCCY 1 cut(s) 1016
EcoRI GAATTC 1 cut(s) 213
EcoRII CCWGG 1 cut(s) 1509
EcoT14I CCWWGG 2 cut(s) 814, 1591
EcoT38I GRGCYC 1 cut(s) 840
ErhI CCWWGG 2 cut(s) 814, 1591
FalI AAGNNNNNCTT 2 cut(s) 717, 749
FaqI GGGAC 3 cut(s) 1029, 1116, 1609
FbaI TGATCA 3 cut(s) 249, 385, 945
Fnu4HI GCNGC 1 cut(s) 914
FokI GGATG 4 cut(s) 821, 1403, 1538, 1643
FriOI GRGCYC 1 cut(s) 840
Fsp4HI GCNGC 1 cut(s) 914
FspBI CTAG 3 cut(s) 119, 441, 537
FspI TGCGCA 2 cut(s) 1685, 1739
GlaI GCGC 3 cut(s) 322, 1685, 1739
GluI GCNGC 1 cut(s) 914
GsaI CCCAGC 1 cut(s) 1182
GsuI CTGGAG 1 cut(s) 1116
HaeII RGCGCY 1 cut(s) 324
HaeIII GGCC 3 cut(s) 117, 1172, 1278
HapII CCGG 3 cut(s) 114, 218, 1293
HgaI GACGC 2 cut(s) 587, 689
HhaI GCGC 3 cut(s) 323, 1686, 1740
Hin1I GRCGYC 1 cut(s) 579
Hin6I GCGC 3 cut(s) 321, 1684, 1738
HinP1I GCGC 3 cut(s) 321, 1684, 1738
HindIII AAGCTT 5 cut(s) 360, 1307, 1583, 1613, 1646
HinfI GANTC 7 cut(s) 9, 199, 728, 793, 876, 1432, 1576
HpaII CCGG 3 cut(s) 114, 218, 1293
HphI GGTGA 6 cut(s) 103, 121, 130, 191, 695, 980
Hpy166II GTNNAC 2 cut(s) 460, 1549
Hpy188I TCNGA 9 cut(s) 172, 280, 390, 402, 492, 654, 798, 1437, 1623
Hpy188III TCNNGA 4 cut(s) 262, 689, 1133, 1642
Hpy8I GTNNAC 2 cut(s) 460, 1549
HpyAV CCTTC 6 cut(s) 166, 306, 776, 1006, 1335, 1411
HpyCH4III ACNGT 6 cut(s) 179, 349, 464, 629, 707, 1639
HpyCH4IV ACGT 1 cut(s) 1105
HpyCH4V TGCA 6 cut(s) 632, 773, 866, 1058, 1155, 1530
HpyF10VI GCNNNNNNNGC 2 cut(s) 161, 1169
HpyF3I CTNAG 5 cut(s) 151, 445, 606, 1403, 1599
HpySE526I ACGT 1 cut(s) 1105
Hsp92I GRCGYC 1 cut(s) 579
HspAI GCGC 3 cut(s) 321, 1684, 1738
Ksp22I TGATCA 3 cut(s) 249, 385, 945
Kzo9I GATC 4 cut(s) 249, 385, 945, 1506
LmnI GCTCC 2 cut(s) 1135, 1235
LweI GCATC 2 cut(s) 877, 900
MaeI CTAG 3 cut(s) 119, 441, 537
MaeII ACGT 1 cut(s) 1105
MaeIII GTNAC 6 cut(s) 436, 584, 701, 925, 1033, 1773
MalI GATC 4 cut(s) 251, 387, 947, 1508
MboI GATC 4 cut(s) 249, 385, 945, 1506
MboII GAAGA 5 cut(s) 38, 41, 44, 47, 1487
MhlI GDGCHC 3 cut(s) 840, 1146, 1562
MlsI TGGCCA 1 cut(s) 1278
MluCI AATT 7 cut(s) 213, 241, 467, 482, 1116, 1319, 1702
MluNI TGGCCA 1 cut(s) 1278
MlyI GAGTC 4 cut(s) 3, 193, 737, 1585
MmeI TCCRAC 2 cut(s) 512, 1024
Mox20I TGGCCA 1 cut(s) 1278
MscI TGGCCA 1 cut(s) 1278
MseI TTAA 6 cut(s) 357, 750, 882, 1257, 1677, 1731
MslI CAYNNNNRTG 2 cut(s) 251, 423
Msp20I TGGCCA 1 cut(s) 1278
MspI CCGG 3 cut(s) 114, 218, 1293
MspR9I CCNGG 1 cut(s) 1511
Mva1269I GAATGC 2 cut(s) 661, 773
MvaI CCWGG 1 cut(s) 1511
MvnI CGCG 1 cut(s) 916
MwoI GCNNNNNNNGC 2 cut(s) 161, 1169
NcoI CCATGG 1 cut(s) 814
NdeII GATC 4 cut(s) 249, 385, 945, 1506
NlaIV GGNNCC 4 cut(s) 222, 375, 1017, 1227
NmuCI GTSAC 4 cut(s) 584, 701, 1033, 1773
NsbI TGCGCA 2 cut(s) 1685, 1739
NspI RCATGY 4 cut(s) 66, 1062, 1366, 1462
PaeR7I CTCGAG 1 cut(s) 1573
PciI ACATGT 2 cut(s) 62, 1362
PctI GAATGC 2 cut(s) 661, 773
PfeI GAWTC 3 cut(s) 793, 876, 1432
PkrI GCNGC 1 cut(s) 915
PleI GAGTC 4 cut(s) 3, 193, 736, 1584
PpsI GAGTC 4 cut(s) 3, 193, 736, 1584
PpuMI RGGWCCY 1 cut(s) 1016
PscI ACATGT 2 cut(s) 62, 1362
Psp124BI GAGCTC 1 cut(s) 840
Psp5II RGGWCCY 1 cut(s) 1016
Psp6I CCWGG 1 cut(s) 1509
PspFI CCCAGC 1 cut(s) 1178
PspGI CCWGG 1 cut(s) 1509
PspN4I GGNNCC 4 cut(s) 222, 375, 1017, 1227
PspPI GGNCC 2 cut(s) 1016, 1171
PspPPI RGGWCCY 1 cut(s) 1016
PspXI VCTCGAGB 1 cut(s) 1573
RsaI GTAC 2 cut(s) 461, 844
RsaNI GTAC 2 cut(s) 460, 843
RseI CAYNNNNRTG 2 cut(s) 251, 423
SacI GAGCTC 1 cut(s) 840
SaqAI TTAA 6 cut(s) 357, 750, 882, 1257, 1677, 1731
SatI GCNGC 1 cut(s) 914
Sau3AI GATC 4 cut(s) 249, 385, 945, 1506
Sau96I GGNCC 2 cut(s) 1016, 1171
SchI GAGTC 4 cut(s) 3, 193, 737, 1585
ScrFI CCNGG 1 cut(s) 1511
SduI GDGCHC 3 cut(s) 840, 1146, 1562
SfaNI GCATC 2 cut(s) 877, 900
Sfr274I CTCGAG 1 cut(s) 1573
SinI GGWCC 1 cut(s) 1016
SlaI CTCGAG 1 cut(s) 1573
SmiMI CAYNNNNRTG 2 cut(s) 251, 423
SmlI CTYRAG 3 cut(s) 83, 833, 1573
SmoI CTYRAG 3 cut(s) 83, 833, 1573
SpeI ACTAGT 1 cut(s) 536
Sse9I AATT 7 cut(s) 213, 241, 467, 482, 1116, 1319, 1702
SsiI CCGC 3 cut(s) 162, 914, 1514
SspMI CTAG 3 cut(s) 119, 441, 537
SstI GAGCTC 1 cut(s) 840
StyD4I CCNGG 1 cut(s) 1509
StyI CCWWGG 2 cut(s) 814, 1591
TaaI ACNGT 6 cut(s) 179, 349, 464, 629, 707, 1639
TaiI ACGT 1 cut(s) 1108
TaqI TCGA 5 cut(s) 211, 337, 594, 777, 1574
TasI AATT 7 cut(s) 213, 241, 467, 482, 1116, 1319, 1702
TatI WGTACW 1 cut(s) 459
TauI GCSGC 1 cut(s) 916
TfiI GAWTC 3 cut(s) 793, 876, 1432
Tru1I TTAA 6 cut(s) 357, 750, 882, 1257, 1677, 1731
Tru9I TTAA 6 cut(s) 357, 750, 882, 1257, 1677, 1731
TscAI CASTG 2 cut(s) 634, 1060
TseFI GTSAC 4 cut(s) 584, 701, 1033, 1773
Tsp45I GTSAC 4 cut(s) 584, 701, 1033, 1773
TspDTI ATGAA 8 cut(s) 89, 422, 519, 868, 1098, 1430, 1607, 1647
TspGWI ACGGA 1 cut(s) 1248
TspRI CASTG 2 cut(s) 634, 1060
VpaK11BI GGWCC 1 cut(s) 1016
XapI RAATTY 4 cut(s) 213, 482, 1116, 1702
XceI RCATGY 4 cut(s) 66, 1062, 1366, 1462
XhoI CTCGAG 1 cut(s) 1573
XspI CTAG 3 cut(s) 119, 441, 537
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.