RLG00000002083

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0006792
Physical Location & Seq
Forward (+)
25209775 .. 25218312
8538 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000002083

Sequence Viewer

Length: 2043 bp
ATGTTGGGAATTACTCGGACAAAATCTACGCTTATCCTGCTATCTGTATCACCCTCACAAACCGAAATGGAGGTGTCGGCACTCGGTGTTGGTGTCCAACATGTCCTCTGCTGCAACTCGGTTCCATTTATTCCCTCAGTGACACCTTGGAGCACAAGACTGAATACTTCTCATGTTTGTTGTGCCACAACTCTTGACAAGGAGCCCCTCCGCCGGCAGCCTCCCAACTCTGACACTAGGAGGGTCACAAGGCCTCACTCCAAGCAATATTTGGCTAGACAGTCGGCAATTCTTCAAGTCCAACAGTCCTCTGACTTGGAATCTGCTCTTACAAGATTAGGTGGAAGTTTGAAGGTTCAAGACTTGAATGCCATAATACGCCATTTTGGGATGCTGAAAAGATGGCATGATCTTTCCCAGCTCTTTGAATGGATGCAACAGAATGGAAAAATTAGTGCGTCGTCATATAGCAGCTATATAAAATTCATGGGGAAGAGCCTCAATCCCGTAAAAGCACTAGAAATTTACAATACCATTCAAGATGAATCAACCAAAAAGAACGTTCACATATGCAATTCGGTTCTTGGTAGTCTGGTCAGGAGTGGCAAGTTTGATGGCAGTATTAAGTTATTTCACCAGATGAAGCAGGATGGCTTAACACCAGATGCTGTTACCTATAGTACGCTGCTTGCAGGTTGCATCAAATTCAAACACGGTTATTCGAAGGCATTAGAGCTAGTTCAAGAGTTACAGAATAATGAGCTGCAGATGGACAGGGTAATATATGGTACACTTTTGGCTATCTGTGCTTCAAATAATAAATGGGAGGAAGCAGAAAGTTATTTTAAGCAGATGAAGGATGAAGGTCATATACCAAATGAATTCCATTACAGCTCTTTGCTCAATGCTTACTCTATCAGCGGGAACTACAAAAAGGCTGACGATTTGGTGCAAGATATGAAATCTGCAGGGTTAGTACCTAATAAGGTTATTTTGACAACTTTATTGAAGGCTTATGTCAGAGGTGGGTTGTTTGAAAAATCAAGAGAATTATTAGCCGAACTGGAAGCTTTGGGATATGCTGAAGATGAGATGCCATACTGTCTATTGATGGATGCCCTTGCTAAGGCTGGGCGTCTACAAGATGCTAAATTGGTTTTTGATGAAATGAAGGAGAAATCCGTGCGATCAGATGGATATTCCTACAGTATCATGATTTCTGCTTTCTGCCGAGGTGGGCTTGTAGATGATGCAAAGCAGTTGGCTAAGGATTTTGAAAGAACTTATGACAAATATGATTTGGTTATGTTGAATACAATGATCTGTGCCTATTGCAGAGCAGGTGAAATGGATAGTGTAATGGAAATGCTGAGAAAAATGGATGAATTAAAAATCATACCTGATAATAATACCTTCCATATTCTAATAAAGTACTTCTGTAAGGAGAAGTTATACATGCTTGCTTATAAGACCATGGAGGACATGCACAACAAAGGCTACCCACCAGATGAGGAACTCTGTTCCTCCTTAATGTTTCATCTTGGTAAGATAAGAGCATATTCAGAAGCATACTCGATTTACAATATGCTAAGGTATAGTAAGCGAACCATGTGCAAGGCCCTTCATGAGAAGATTCTACACATTCTAGTAGCAGGAAGGCTTCTCAAAGATGCTTATGTAGTGGTCAAGGATAATCCGGGGTTGATTTCTAAGCCTGCTATAATGAAATTTGCAACTGCATTTATGAAATTGGGAAATATCAACTTGATAAATGATGTTTTGAAGGCAATTGATGGTTCTGGTTGCAAAATTGATCAGGGAATATTTCAGATGGCCATATCACGTTATATTTCGGACCCTGACAAGAAGGACCTGCTTCTTCAGTTACTACAGTGGATGCCGGGACAAGGTTATACTGTGGATTCATCTACAAGAAACCTAATACTGAAAAACTCTCACTTATTTGGTCGCCATCACATTGCCGAGATGCTATCAAAGCAGCATATGATATCAAAAGCTTCAAAATCTACTAAAGATAAGTGA
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

681

Amino Acids

76.95

Weight (kDa)

8.89

Isoelectric Point (pI)

40.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 169 - 285 5.3e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 186 - 235 7.8e-13 PPR repeat family
PPR_long PF17177 241 - 380 2.3e-12 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 246 - 304 3.3e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 258 - 304 1.5e-08 PPR repeat family
PPR PF01535 260 - 289 9.7e-06 PPR repeat
PPR_2 PF13041 292 - 340 1.5e-07 PPR repeat family
TPR_24 PF23276 348 - 458 9.3e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 369 - 411 4.1e-11 PPR repeat family
PPR_1 PF12854 398 - 421 8.2e-06 PPR repeat
PPR_2 PF13041 433 - 481 5.5e-11 PPR repeat family
PPR PF01535 435 - 463 6.1e-06 PPR repeat
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)
AanI TTATAA 1 cut(s) 1467
AarI CACCTGC 1 cut(s) 1331
Acc36I ACCTGC 3 cut(s) 683, 1331, 1881
AccI GTMKAC 1 cut(s) 1138
AciI CCGC 2 cut(s) 211, 921
AclI AACGTT 1 cut(s) 561
AcoI YGGCCR 1 cut(s) 1833
AcsI RAATTY 5 cut(s) 482, 522, 704, 881, 1727
AcuI CTGAAG 2 cut(s) 1104, 1865
AcyI GRCGYC 1 cut(s) 1135
AdeI CACNNNGTG 1 cut(s) 86
AfaI GTAC 4 cut(s) 682, 790, 978, 1433
AfiI CCNNNNNNNGG 3 cut(s) 213, 1126, 1907
AflIII ACRYGT 1 cut(s) 100
AluBI AGCT 7 cut(s) 421, 474, 736, 763, 894, 1070, 2018
AluI AGCT 7 cut(s) 421, 474, 736, 763, 894, 1070, 2018
Alw21I GWGCWC 1 cut(s) 155
AlwNI CAGNNNCTG 1 cut(s) 668
AoxI GGCC 3 cut(s) 251, 1617, 1833
ApeKI GCWGC 6 cut(s) 111, 217, 471, 685, 763, 1999
ApoI RAATTY 5 cut(s) 482, 522, 704, 881, 1727
AspS9I GGNCC 3 cut(s) 1618, 1855, 1870
AsuC2I CCSGG 2 cut(s) 1698, 1902
AsuHPI GGTGA 3 cut(s) 42, 626, 1355
AsuII TTCGAA 1 cut(s) 722
AvaII GGWCC 2 cut(s) 1855, 1870
BalI TGGCCA 1 cut(s) 1835
BanII GRGCYC 1 cut(s) 207
BarI GAAGNNNNNNTAC 2 cut(s) 855, 887
Bbv12I GWGCWC 1 cut(s) 155
BbvI GCAGC 6 cut(s) 98, 229, 483, 672, 750, 2011
BccI CCATC 9 cut(s) 396, 608, 644, 763, 1105, 1187, 1787, 1825, 1980
BcgI CGANNNNNNTGC 2 cut(s) 1593, 1627
BclI TGATCA 1 cut(s) 1813
BcnI CCSGG 2 cut(s) 1698, 1902
BfaI CTAG 5 cut(s) 237, 276, 518, 737, 1646
BfmI CTRYAG 5 cut(s) 676, 764, 966, 1204, 1889
BfuAI ACCTGC 3 cut(s) 683, 1331, 1881
BisI GCNGC 6 cut(s) 112, 218, 472, 686, 764, 2000
BlsI GCNGC 6 cut(s) 113, 219, 473, 687, 765, 2001
BmcAI AGTACT 1 cut(s) 1433
Bme1390I CCNGG 2 cut(s) 1698, 1902
Bme18I GGWCC 2 cut(s) 1855, 1870
BmgT120I GGNCC 3 cut(s) 1618, 1855, 1870
BmiI GGNNCC 3 cut(s) 123, 204, 1857
BmrFI CCNGG 2 cut(s) 1698, 1902
Bpu10I CCTNAGC 3 cut(s) 1125, 1266, 1589
Bpu14I TTCGAA 1 cut(s) 722
BpuMI CCSGG 2 cut(s) 1698, 1902
BsaHI GRCGYC 1 cut(s) 1135
BsaJI CCNNGG 4 cut(s) 146, 1231, 1473, 1697
Bsc4I CCNNNNNNNGG 3 cut(s) 213, 1126, 1907
Bse118I RCCGGY 1 cut(s) 213
Bse1I ACTGG 1 cut(s) 1068
Bse3DI GCAATG 1 cut(s) 1977
BseDI CCNNGG 4 cut(s) 146, 1231, 1473, 1697
BseGI GGATG 7 cut(s) 396, 438, 655, 865, 1120, 1387, 1902
BseLI CCNNNNNNNGG 3 cut(s) 213, 1126, 1907
BseMI GCAATG 1 cut(s) 1977
BseMII CTCAG 2 cut(s) 150, 1361
BseNI ACTGG 1 cut(s) 1068
BseXI GCAGC 6 cut(s) 98, 229, 483, 672, 750, 2011
BseYI CCCAGC 2 cut(s) 417, 1130
BshFI GGCC 3 cut(s) 253, 1619, 1835
BsiHKAI GWGCWC 1 cut(s) 155
BsiSI CCGG 3 cut(s) 214, 1697, 1901
BslFI GGGAC 1 cut(s) 1917
BslI CCNNNNNNNGG 3 cut(s) 213, 1126, 1907
BsmFI GGGAC 1 cut(s) 1917
BsmI GAATGC 1 cut(s) 373
BsnI GGCC 3 cut(s) 253, 1619, 1835
Bsp119I TTCGAA 1 cut(s) 722
Bsp1286I GDGCHC 2 cut(s) 155, 207
Bsp143I GATC 4 cut(s) 409, 1187, 1320, 1813
Bsp19I CCATGG 1 cut(s) 1473
BspACI CCGC 2 cut(s) 211, 921
BspANI GGCC 3 cut(s) 253, 1619, 1835
BspCNI CTCAG 2 cut(s) 149, 1362
BspHI TCATGA 2 cut(s) 1212, 1624
BspLI GGNNCC 3 cut(s) 123, 204, 1857
BspMAI CTGCAG 2 cut(s) 768, 970
BspMI ACCTGC 3 cut(s) 683, 1331, 1881
BspQI GCTCTTC 1 cut(s) 488
BspT104I TTCGAA 1 cut(s) 722
BsrDI GCAATG 1 cut(s) 1977
BsrFI RCCGGY 1 cut(s) 213
BsrI ACTGG 1 cut(s) 1068
BssAI RCCGGY 1 cut(s) 213
BssECI CCNNGG 4 cut(s) 146, 1231, 1473, 1697
BssMI GATC 4 cut(s) 409, 1187, 1320, 1813
BssNI GRCGYC 1 cut(s) 1135
BssT1I CCWWGG 2 cut(s) 146, 1473
Bst4CI ACNGT 7 cut(s) 282, 306, 716, 1103, 1208, 1893, 1918
Bst6I CTCTTC 1 cut(s) 488
BstACI GRCGYC 1 cut(s) 1135
BstBI TTCGAA 1 cut(s) 722
BstC8I GCNNGC 4 cut(s) 215, 690, 1461, 1716
BstDEI CTNAG 6 cut(s) 136, 1125, 1266, 1370, 1589, 1710
BstDSI CCRYGG 1 cut(s) 1473
BstENI CCTNNNNNAGG 1 cut(s) 1124
BstF5I GGATG 7 cut(s) 396, 438, 655, 865, 1120, 1387, 1902
BstKTI GATC 4 cut(s) 412, 1190, 1323, 1816
BstMBI GATC 4 cut(s) 409, 1187, 1320, 1813
BstMWI GCNNNNNNNGC 3 cut(s) 37, 806, 1996
BstNSI RCATGY 3 cut(s) 104, 1459, 1486
BstSCI CCNGG 2 cut(s) 1696, 1900
BstSFI CTRYAG 5 cut(s) 676, 764, 966, 1204, 1889
BstV1I GCAGC 6 cut(s) 98, 229, 483, 672, 750, 2011
BsuRI GGCC 3 cut(s) 253, 1619, 1835
BtgI CCRYGG 1 cut(s) 1473
BtsCI GGATG 7 cut(s) 396, 438, 655, 865, 1120, 1387, 1902
BtsIMutI CAGTG 2 cut(s) 144, 1898
BveI ACCTGC 3 cut(s) 683, 1331, 1881
Cac8I GCNNGC 4 cut(s) 215, 690, 1461, 1716
CaiI CAGNNNCTG 1 cut(s) 668
CciI TCATGA 2 cut(s) 1212, 1624
Cfr10I RCCGGY 1 cut(s) 213
Cfr13I GGNCC 3 cut(s) 1618, 1855, 1870
CseI GACGC 2 cut(s) 447, 1124
Csp6I GTAC 4 cut(s) 681, 789, 977, 1432
CspCI CAANNNNNGTGG 2 cut(s) 175, 210
CviQI GTAC 4 cut(s) 681, 789, 977, 1432
DdeI CTNAG 6 cut(s) 136, 1125, 1266, 1370, 1589, 1710
DpnI GATC 4 cut(s) 411, 1189, 1322, 1815
DpnII GATC 4 cut(s) 409, 1187, 1320, 1813
DraIII CACNNNGTG 1 cut(s) 86
EaeI YGGCCR 1 cut(s) 1833
Eam1104I CTCTTC 1 cut(s) 488
EarI CTCTTC 1 cut(s) 488
EciI GGCGGA 1 cut(s) 200
Eco130I CCWWGG 2 cut(s) 146, 1473
Eco147I AGGCCT 1 cut(s) 253
Eco24I GRGCYC 1 cut(s) 207
Eco32I GATATC 1 cut(s) 2010
Eco47I GGWCC 2 cut(s) 1855, 1870
Eco57I CTGAAG 2 cut(s) 1104, 1865
EcoNI CCTNNNNNAGG 1 cut(s) 1124
EcoO109I RGGNCCY 2 cut(s) 1618, 1870
EcoRI GAATTC 1 cut(s) 881
EcoRV GATATC 1 cut(s) 2010
EcoT14I CCWWGG 2 cut(s) 146, 1473
EcoT38I GRGCYC 1 cut(s) 207
ErhI CCWWGG 2 cut(s) 146, 1473
FaqI GGGAC 1 cut(s) 1917
FauI CCCGC 1 cut(s) 914
FauNDI CATATG 2 cut(s) 569, 2004
FbaI TGATCA 1 cut(s) 1813
FblI GTMKAC 1 cut(s) 1138
Fnu4HI GCNGC 6 cut(s) 112, 218, 472, 686, 764, 2000
FokI GGATG 7 cut(s) 403, 445, 662, 872, 1127, 1394, 1909
FriOI GRGCYC 1 cut(s) 207
Fsp4HI GCNGC 6 cut(s) 112, 218, 472, 686, 764, 2000
FspBI CTAG 5 cut(s) 237, 276, 518, 737, 1646
GluI GCNGC 6 cut(s) 112, 218, 472, 686, 764, 2000
GsaI CCCAGC 2 cut(s) 421, 1134
HaeIII GGCC 3 cut(s) 253, 1619, 1835
HapII CCGG 3 cut(s) 214, 1697, 1901
HgaI GACGC 2 cut(s) 447, 1124
Hin1I GRCGYC 1 cut(s) 1135
HindIII AAGCTT 2 cut(s) 1068, 2016
HinfI GANTC 4 cut(s) 320, 545, 1633, 1922
HpaII CCGG 3 cut(s) 214, 1697, 1901
HphI GGTGA 3 cut(s) 42, 626, 1355
Hpy166II GTNNAC 3 cut(s) 565, 791, 1139
Hpy188I TCNGA 8 cut(s) 18, 232, 313, 1022, 1192, 1564, 1830, 1855
Hpy188III TCNNGA 8 cut(s) 194, 359, 539, 598, 743, 1044, 1213, 1625
Hpy8I GTNNAC 3 cut(s) 565, 791, 1139
Hpy99I CGWCG 1 cut(s) 463
HpyCH4III ACNGT 7 cut(s) 282, 306, 716, 1103, 1208, 1893, 1918
HpyCH4IV ACGT 2 cut(s) 561, 1843
HpyF10VI GCNNNNNNNGC 3 cut(s) 37, 806, 1996
HpyF3I CTNAG 6 cut(s) 136, 1125, 1266, 1370, 1589, 1710
HpySE526I ACGT 2 cut(s) 561, 1843
Hsp92I GRCGYC 1 cut(s) 1135
KroI GCCGGC 1 cut(s) 213
KroNI GCCGGC 1 cut(s) 215
Ksp22I TGATCA 1 cut(s) 1813
Kzo9I GATC 4 cut(s) 409, 1187, 1320, 1813
LguI GCTCTTC 1 cut(s) 488
LmnI GCTCC 2 cut(s) 150, 202
Lsp1109I GCAGC 6 cut(s) 98, 229, 483, 672, 750, 2011
MaeI CTAG 5 cut(s) 237, 276, 518, 737, 1646
MaeII ACGT 2 cut(s) 561, 1843
MaeIII GTNAC 5 cut(s) 139, 244, 670, 747, 1884
MalI GATC 4 cut(s) 411, 1189, 1322, 1815
MboI GATC 4 cut(s) 409, 1187, 1320, 1813
MboII GAAGA 5 cut(s) 284, 505, 1097, 1642, 1871
MfeI CAATTG 1 cut(s) 1788
MhlI GDGCHC 2 cut(s) 155, 207
MlsI TGGCCA 1 cut(s) 1835
MluNI TGGCCA 1 cut(s) 1835
MmeI TCCRAC 2 cut(s) 121, 325
Mox20I TGGCCA 1 cut(s) 1835
MroNI GCCGGC 1 cut(s) 213
MscI TGGCCA 1 cut(s) 1835
MseI TTAA 5 cut(s) 624, 656, 846, 1388, 1529
Msp20I TGGCCA 1 cut(s) 1835
MspA1I CMGCKG 1 cut(s) 921
MspI CCGG 3 cut(s) 214, 1697, 1901
MspR9I CCNGG 2 cut(s) 1698, 1902
MunI CAATTG 1 cut(s) 1788
Mva1269I GAATGC 1 cut(s) 373
MwoI GCNNNNNNNGC 3 cut(s) 37, 806, 1996
NaeI GCCGGC 1 cut(s) 215
NciI CCSGG 2 cut(s) 1698, 1902
NcoI CCATGG 1 cut(s) 1473
NdeI CATATG 2 cut(s) 569, 2004
NdeII GATC 4 cut(s) 409, 1187, 1320, 1813
NgoMIV GCCGGC 1 cut(s) 213
NlaIV GGNNCC 3 cut(s) 123, 204, 1857
NmeAIII GCCGAG 2 cut(s) 1256, 2008
NmuCI GTSAC 2 cut(s) 139, 244
NspI RCATGY 3 cut(s) 104, 1459, 1486
NspV TTCGAA 1 cut(s) 722
PagI TCATGA 2 cut(s) 1212, 1624
PaqCI CACCTGC 1 cut(s) 1331
PceI AGGCCT 1 cut(s) 253
PciI ACATGT 1 cut(s) 100
PciSI GCTCTTC 1 cut(s) 488
PctI GAATGC 1 cut(s) 373
PdiI GCCGGC 1 cut(s) 215
PfeI GAWTC 4 cut(s) 320, 545, 1633, 1922
PkrI GCNGC 6 cut(s) 113, 219, 473, 687, 765, 2001
PpuMI RGGWCCY 1 cut(s) 1870
PscI ACATGT 1 cut(s) 100
PsiI TTATAA 1 cut(s) 1467
Psp1406I AACGTT 1 cut(s) 561
Psp5II RGGWCCY 1 cut(s) 1870
PspFI CCCAGC 2 cut(s) 417, 1130
PspN4I GGNNCC 3 cut(s) 123, 204, 1857
PspPI GGNCC 3 cut(s) 1618, 1855, 1870
PspPPI RGGWCCY 1 cut(s) 1870
PstI CTGCAG 2 cut(s) 768, 970
PstNI CAGNNNCTG 1 cut(s) 668
RsaI GTAC 4 cut(s) 682, 790, 978, 1433
RsaNI GTAC 4 cut(s) 681, 789, 977, 1432
SapI GCTCTTC 1 cut(s) 488
SaqAI TTAA 5 cut(s) 624, 656, 846, 1388, 1529
SatI GCNGC 6 cut(s) 112, 218, 472, 686, 764, 2000
Sau3AI GATC 4 cut(s) 409, 1187, 1320, 1813
Sau96I GGNCC 3 cut(s) 1618, 1855, 1870
ScaI AGTACT 1 cut(s) 1433
ScrFI CCNGG 2 cut(s) 1698, 1902
SduI GDGCHC 2 cut(s) 155, 207
SfcI CTRYAG 5 cut(s) 676, 764, 966, 1204, 1889
SfuI TTCGAA 1 cut(s) 722
SinI GGWCC 2 cut(s) 1855, 1870
SseBI AGGCCT 1 cut(s) 253
SsiI CCGC 2 cut(s) 211, 921
SspI AATATT 2 cut(s) 269, 1824
SspMI CTAG 5 cut(s) 237, 276, 518, 737, 1646
StuI AGGCCT 1 cut(s) 253
StyD4I CCNGG 2 cut(s) 1696, 1900
StyI CCWWGG 2 cut(s) 146, 1473
TaaI ACNGT 7 cut(s) 282, 306, 716, 1103, 1208, 1893, 1918
TaiI ACGT 2 cut(s) 564, 1846
TaqI TCGA 2 cut(s) 722, 1574
TatI WGTACW 1 cut(s) 1431
TfiI GAWTC 4 cut(s) 320, 545, 1633, 1922
Tru1I TTAA 5 cut(s) 624, 656, 846, 1388, 1529
Tru9I TTAA 5 cut(s) 624, 656, 846, 1388, 1529
TscAI CASTG 2 cut(s) 144, 1898
TseFI GTSAC 2 cut(s) 139, 244
TseI GCWGC 6 cut(s) 111, 217, 471, 685, 763, 1999
Tsp45I GTSAC 2 cut(s) 139, 244
TspGWI ACGGA 1 cut(s) 1171
TspRI CASTG 2 cut(s) 144, 1898
VpaK11BI GGWCC 2 cut(s) 1855, 1870
XagI CCTNNNNNAGG 1 cut(s) 1124
XapI RAATTY 5 cut(s) 482, 522, 704, 881, 1727
XceI RCATGY 3 cut(s) 104, 1459, 1486
XcmI CCANNNNNNNNNTGG 1 cut(s) 268
XmiI GTMKAC 1 cut(s) 1138
XspI CTAG 5 cut(s) 237, 276, 518, 737, 1646
ZrmI AGTACT 1 cut(s) 1433
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.