Rh6AG509400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0007813
Physical Location & Seq
Forward (+)
68089409 .. 68094938
5530 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG509400.1

Sequence Viewer

Length: 2184 bp
ATGCTGGAACGGGATGTTGTGTTGTGGAACACAATGCTGAAGGCATATGTGGAAATGGGTCTTCAGGAAGAAGCACTTGCTCTTTTCTCCAAGTTTCATCAAAGTGGATTAGGTCCTGACCATGTTAGTGTGCGTTGTGTTCTTAGTGGGATTCACAAAGTTGATTATGTTGAAGGCAAGAGGTACATGGAGGAGGTTCAAGCATATGCAGCAAAGCTGGGGGAGTTTATTATAACTAATGTGGATGATGATGCCCATCCAACGAGTTTATGTGATCCTACTACTAATTCCGACATATTTCTGTGGAACAAGAAGTTGTCTAAGTATATCCGAGCTGGTGAAAATTGGGCTGCAATAGATTGCTTTAGAAATATGATTATATCGAAAGTTGGATATGACAAGGTGACATTAGTTATCATTCTATCTGCGATTGTGGACACAAATAATTTGGAGGTGGGGAAACAGATTCATGGTGCTGCTTTGAAATCAGATTTTGATTCTGTTCTTTTGGTAGCAAATAGCCTTATCAACATGTATTCAAAGGCTCGCTGTGTTCACTTTGCGAGAGAAGTATTCAATCACATGAAAGAAGTGGACCTAGTTTCATGGAACTCGATGATATCATGTTATGTGCAAAGCGGTTCAGGAGAGGAATCAGTAAACCTATTTATTGGTTTATTACGGGATGGTCTAAGACCTGATCAATTTACAATTGCAAGTATTTTAAGGGCTTGCTCCTCTCTTCAAGAAGGGCTGCATCTCAGTAAACAGGTTCATGTTCATGCAATAAAAACTGGTATTGCTGCTGACAGATTTGTTTCAACAGCTCTTATTGATGTTTATTCCAGAAGTGGAAAGATGGAGGAAGTGGAGCCCCTTTTAGAAAACAAAGTTAATTTCGATCTGCCATCTTGGAATGCATTGATGTTTGGGTACATAAAGAGTAATGACGGTCACAAAGCACTACAACTTATGAGGATGATTCATGAAGGTGGAAAGAGGGGAGACGAGATTACTTTGGCAACTGTTGCTAAGGCCACTAGTTGCCTGGTAGCGTTGGTACCGGGGAAGCAAATTCATGCTCATGTCATAAAAACAGGGTATTCAAAGGACTTATATGTTAACAGCAGTATTCTAGATATGTACATAAAATGTGGAGACATGGGAAGTGCGCACACAGTTTTCAATGACATTCCTGCACCTGATGATGTTGCGTGGACAACTCTAATCTCAGGATGTCTAGAAAATGGAGATGAAGGGCGCTCAGTGTCTATATACCATCAGATGAGGCAGTCAGGAGTTCATCCCGATGAATACACCTTAGCTACCCTCGTCAAAGCCGCCTCTTGTCTGACAGCATTGGAACAAGGGAAACAGATACATGCAGATGCAATAAAGTTGGAATATTCCTCAGACCCTTATGTTGCGACATCACTTGTTGACATGTATGCCAAGTGCGGTAATATAGAAGATGCATATCGTTTATTTAGAAGGATGGATGTCGGGAGCATTGTCCTGTGGAATGCCATGTTGGTGGGCTTTGCTCAACATGGAGACGCTGAAGAAGCACTAAATCTTTTCAGAGTCATGAAATCTAATAACATTTTGCCTGATAGAGTTACTTTCATTGGAGTTCTTTCTGCTTGCAGCCACTCTGGTTTAGTTTCTGAAGCTTACGAGCATTTTTCTTCAATGCAAAGAGATTACGGCATTGAACCTGAGATCGAGCACTACTCTTGTCTAGTCAATGCCCTTAGCCGCGCAGGGCGTGTTCAAGAGGCAGAAAAGCTGATAGCATCAATGCCATTTGAAGCTTCTGCTTCAATGTACAGAGCCCTGCTTGGTGCTTGCAGGGTTCAAGGGGACACAGAAACAGGAAAACGAGTAGCAGAACAGCTCTTGGCTATTGAGCCAACTGACTCATTGGCTTATGTTCTCATATCCAATATGAATGCTGCTGCCAACCAGTGGGATGCTGTGAAAGATGCTCGACGAATGATGAAACAGAAGAATGTAAAGAAAGAACCAGGTTTCAGTTGGATAGATGTGAAGAACAAGGTCCATTTGTTTCTGGTAGATGATAAATCCCATCCTGAAGCCGATTTGATATACGACAAGTTGGAGGACTTGATGAGATGGATCAGCGAAGAAGGGTATGTCCCTGATACAGAGTGTGCTTGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF1771 PAM2 PPR PPR_2 Smr

Protein Analysis

727

Amino Acids

80.87

Weight (kDa)

5.57

Isoelectric Point (pI)

39.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 4 - 51 5.2e-07 PPR repeat family
PPR_2 PF13041 199 - 246 5.1e-07 PPR repeat family
PPR_2 PF13041 401 - 447 8.1e-09 PPR repeat family
PPR_2 PF13041 503 - 550 1.8e-10 PPR repeat family
PPR PF01535 505 - 535 1.1e-06 PPR repeat
E_motif PF20431 622 - 682 9.1e-15 E motif
Eplus_motif PF20430 687 - 712 2.9e-08 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 233
Acc16I TGCGCA 1 cut(s) 1173
Acc65I GGTACC 1 cut(s) 1060
AccB1I GGYRCC 1 cut(s) 1060
AccB7I CCANNNNNTGG 1 cut(s) 1968
AccII CGCG 1 cut(s) 1761
AciI CCGC 4 cut(s) 639, 1341, 1458, 1759
AclWI GGATC 2 cut(s) 269, 2147
AcsI RAATTY 1 cut(s) 1074
AcuI CTGAAG 5 cut(s) 47, 59, 1581, 1689, 2115
AfaI GTAC 5 cut(s) 185, 935, 1062, 1145, 1829
AfiI CCNNNNNNNGG 1 cut(s) 1968
AflIII ACRYGT 2 cut(s) 531, 1443
AhlI ACTAGT 1 cut(s) 1040
AjnI CCWGG 2 cut(s) 1047, 2026
AjuI GAANNNNNNNTTGG 2 cut(s) 1514, 1546
AluBI AGCT 8 cut(s) 217, 335, 827, 1325, 1673, 1789, 1814, 1897
AluI AGCT 8 cut(s) 217, 335, 827, 1325, 1673, 1789, 1814, 1897
Alw21I GWGCWC 1 cut(s) 1731
Alw26I GTCTC 3 cut(s) 999, 1152, 1548
AlwI GGATC 2 cut(s) 269, 2147
AoxI GGCC 1 cut(s) 1035
ApeKI GCWGC 8 cut(s) 209, 350, 476, 754, 803, 1647, 1955, 1958
ApoI RAATTY 1 cut(s) 1074
Asp718I GGTACC 1 cut(s) 1060
AspLEI GCGC 3 cut(s) 1174, 1263, 1763
AspS9I GGNCC 3 cut(s) 113, 595, 2059
AsuC2I CCSGG 1 cut(s) 1065
AsuHPI GGTGA 2 cut(s) 350, 415
AvaII GGWCC 3 cut(s) 113, 595, 2059
BanI GGYRCC 1 cut(s) 1060
BanII GRGCYC 2 cut(s) 876, 1837
BbsI GAAGAC 1 cut(s) 53
Bbv12I GWGCWC 1 cut(s) 1731
BbvI GCAGC 8 cut(s) 221, 337, 463, 741, 790, 1659, 1942, 1945
BccI CCATC 8 cut(s) 264, 680, 853, 916, 1287, 1489, 2097, 2130
BceAI ACGGC 1 cut(s) 1723
BciT130I CCWGG 2 cut(s) 1049, 2028
BclI TGATCA 1 cut(s) 700
BcnI CCSGG 1 cut(s) 1065
BcoDI GTCTC 3 cut(s) 999, 1152, 1548
BcuI ACTAGT 1 cut(s) 1040
BfaI CTAG 5 cut(s) 599, 1041, 1136, 1241, 1742
BfoI RGCGCY 1 cut(s) 1264
Bme1390I CCNGG 3 cut(s) 1049, 1065, 2028
Bme18I GGWCC 3 cut(s) 113, 595, 2059
BmgT120I GGNCC 3 cut(s) 113, 595, 2059
BmiI GGNNCC 2 cut(s) 873, 1062
BmrFI CCNGG 3 cut(s) 1049, 1065, 2028
BmsI GCATC 7 cut(s) 241, 766, 1378, 1462, 1805, 1963, 1975
BpiI GAAGAC 1 cut(s) 53
BplI GAGNNNNNCTC 2 cut(s) 1718, 1750
Bpu10I CCTNAGC 3 cut(s) 1032, 1321, 1754
BpuMI CCSGG 1 cut(s) 1065
BsaBI GATNNNNATC 2 cut(s) 255, 1476
BsaJI CCNNGG 1 cut(s) 1064
Bsc4I CCNNNNNNNGG 1 cut(s) 1968
Bse1I ACTGG 2 cut(s) 799, 1966
Bse8I GATNNNNATC 2 cut(s) 255, 1476
BseBI CCWGG 2 cut(s) 1049, 2028
BseDI CCNNGG 1 cut(s) 1064
BseJI GATNNNNATC 2 cut(s) 255, 1476
BseLI CCNNNNNNNGG 1 cut(s) 1968
BseMII CTCAG 5 cut(s) 775, 1245, 1278, 1425, 1710
BseNI ACTGG 2 cut(s) 799, 1966
BseRI GAGGAG 2 cut(s) 206, 727
BseXI GCAGC 8 cut(s) 221, 337, 463, 741, 790, 1659, 1942, 1945
BseYI CCCAGC 1 cut(s) 217
BsgI GTGCAG 1 cut(s) 1182
Bsh1236I CGCG 1 cut(s) 1761
BshFI GGCC 1 cut(s) 1037
BshNI GGYRCC 1 cut(s) 1060
BsiHKAI GWGCWC 1 cut(s) 1731
BsiSI CCGG 1 cut(s) 1064
BslFI GGGAC 2 cut(s) 1877, 2144
BslI CCNNNNNNNGG 1 cut(s) 1968
BsmAI GTCTC 3 cut(s) 999, 1152, 1548
BsmBI CGTCTC 2 cut(s) 999, 1548
BsmFI GGGAC 2 cut(s) 1877, 2144
BsmI GAATGC 3 cut(s) 922, 1528, 1957
BsnI GGCC 1 cut(s) 1037
Bsp1286I GDGCHC 3 cut(s) 876, 1731, 1837
Bsp1407I TGTACA 2 cut(s) 1143, 1827
Bsp143I GATC 5 cut(s) 274, 700, 901, 1722, 2139
BspACI CCGC 4 cut(s) 639, 1341, 1458, 1759
BspANI GGCC 1 cut(s) 1037
BspCNI CTCAG 5 cut(s) 774, 1244, 1277, 1424, 1711
BspFNI CGCG 1 cut(s) 1761
BspHI TCATGA 2 cut(s) 985, 1587
BspLI GGNNCC 2 cut(s) 873, 1062
BspPI GGATC 2 cut(s) 269, 2147
BspT107I GGYRCC 1 cut(s) 1060
BsrGI TGTACA 2 cut(s) 1143, 1827
BsrI ACTGG 2 cut(s) 799, 1966
BssECI CCNNGG 1 cut(s) 1064
BssMI GATC 5 cut(s) 274, 700, 901, 1722, 2139
Bst2UI CCWGG 2 cut(s) 1049, 2028
Bst4CI ACNGT 3 cut(s) 953, 1027, 1180
Bst6I CTCTTC 1 cut(s) 747
BstAPI GCANNNNNTGC 1 cut(s) 1028
BstAUI TGTACA 2 cut(s) 1143, 1827
BstC8I GCNNGC 5 cut(s) 547, 733, 1645, 1849, 2179
BstFNI CGCG 1 cut(s) 1761
BstH2I RGCGCY 1 cut(s) 1264
BstHHI GCGC 3 cut(s) 1174, 1263, 1763
BstKTI GATC 5 cut(s) 277, 703, 904, 1725, 2142
BstMAI GTCTC 3 cut(s) 999, 1152, 1548
BstMBI GATC 5 cut(s) 274, 700, 901, 1722, 2139
BstMWI GCNNNNNNNGC 3 cut(s) 209, 1028, 1565
BstNI CCWGG 2 cut(s) 1049, 2028
BstNSI RCATGY 3 cut(s) 535, 1385, 1447
BstSCI CCNGG 3 cut(s) 1047, 1063, 2026
BstUI CGCG 1 cut(s) 1761
BstV1I GCAGC 8 cut(s) 221, 337, 463, 741, 790, 1659, 1942, 1945
BstV2I GAAGAC 1 cut(s) 53
BstXI CCANNNNNNTGG 1 cut(s) 1534
BsuRI GGCC 1 cut(s) 1037
BtsIMutI CAGTG 2 cut(s) 1272, 1973
Cac8I GCNNGC 5 cut(s) 547, 733, 1645, 1849, 2179
CciI TCATGA 2 cut(s) 985, 1587
CfoI GCGC 3 cut(s) 1174, 1263, 1763
Cfr13I GGNCC 3 cut(s) 113, 595, 2059
CseI GACGC 1 cut(s) 1565
CsiI ACCWGGT 1 cut(s) 2026
Csp6I GTAC 5 cut(s) 184, 934, 1061, 1144, 1828
CviQI GTAC 5 cut(s) 184, 934, 1061, 1144, 1828
DpnI GATC 5 cut(s) 276, 702, 903, 1724, 2141
DpnII GATC 5 cut(s) 274, 700, 901, 1722, 2139
Eam1104I CTCTTC 1 cut(s) 747
EarI CTCTTC 1 cut(s) 747
Eco24I GRGCYC 2 cut(s) 876, 1837
Eco32I GATATC 1 cut(s) 621
Eco47I GGWCC 3 cut(s) 113, 595, 2059
Eco57I CTGAAG 5 cut(s) 47, 59, 1581, 1689, 2115
EcoO109I RGGNCCY 1 cut(s) 113
EcoRII CCWGG 2 cut(s) 1047, 2026
EcoRV GATATC 1 cut(s) 621
EcoT22I ATGCAT 2 cut(s) 922, 1477
EcoT38I GRGCYC 2 cut(s) 876, 1837
Esp3I CGTCTC 2 cut(s) 999, 1548
FalI AAGNNNNNCTT 2 cut(s) 60, 92
FaqI GGGAC 2 cut(s) 1877, 2144
FauNDI CATATG 2 cut(s) 46, 205
FbaI TGATCA 1 cut(s) 700
FriOI GRGCYC 2 cut(s) 876, 1837
FspAI RTGCGCAY 1 cut(s) 1173
FspBI CTAG 5 cut(s) 599, 1041, 1136, 1241, 1742
FspI TGCGCA 1 cut(s) 1173
GlaI GCGC 3 cut(s) 1173, 1262, 1762
GsaI CCCAGC 1 cut(s) 221
HaeII RGCGCY 1 cut(s) 1264
HaeIII GGCC 1 cut(s) 1037
HapII CCGG 1 cut(s) 1064
HgaI GACGC 1 cut(s) 1565
HhaI GCGC 3 cut(s) 1174, 1263, 1763
Hin6I GCGC 3 cut(s) 1172, 1261, 1761
HinP1I GCGC 3 cut(s) 1172, 1261, 1761
HincII GTYRAC 2 cut(s) 1123, 1441
HindII GTYRAC 2 cut(s) 1123, 1441
HindIII AAGCTT 2 cut(s) 1671, 1812
HinfI GANTC 7 cut(s) 151, 466, 497, 653, 982, 1584, 1919
HpaI GTTAAC 1 cut(s) 1123
HpaII CCGG 1 cut(s) 1064
HphI GGTGA 2 cut(s) 350, 415
Hpy166II GTNNAC 8 cut(s) 436, 556, 595, 661, 767, 1123, 1218, 1441
Hpy188I TCNGA 8 cut(s) 292, 332, 490, 1284, 1353, 1414, 1583, 1669
Hpy8I GTNNAC 8 cut(s) 436, 556, 595, 661, 767, 1123, 1218, 1441
Hpy99I CGWCG 1 cut(s) 1995
HpyAV CCTTC 7 cut(s) 34, 167, 743, 983, 1250, 1485, 2144
HpyCH4III ACNGT 3 cut(s) 953, 1027, 1180
HpyF10VI GCNNNNNNNGC 3 cut(s) 209, 1028, 1565
HspAI GCGC 3 cut(s) 1172, 1261, 1761
KpnI GGTACC 1 cut(s) 1064
Ksp22I TGATCA 1 cut(s) 700
KspAI GTTAAC 1 cut(s) 1123
Kzo9I GATC 5 cut(s) 274, 700, 901, 1722, 2139
LmnI GCTCC 3 cut(s) 740, 871, 1506
Lsp1109I GCAGC 8 cut(s) 221, 337, 463, 741, 790, 1659, 1942, 1945
LweI GCATC 7 cut(s) 241, 766, 1378, 1462, 1805, 1963, 1975
MabI ACCWGGT 1 cut(s) 2026
MaeI CTAG 5 cut(s) 599, 1041, 1136, 1241, 1742
MaeIII GTNAC 3 cut(s) 403, 953, 1618
MalI GATC 5 cut(s) 276, 702, 903, 1724, 2141
MboI GATC 5 cut(s) 274, 700, 901, 1722, 2139
MboII GAAGA 9 cut(s) 53, 80, 734, 1481, 1574, 1680, 2020, 2062, 2159
MfeI CAATTG 1 cut(s) 711
MhlI GDGCHC 3 cut(s) 876, 1731, 1837
MluCI AATT 7 cut(s) 286, 343, 445, 704, 711, 895, 1074
MlyI GAGTC 2 cut(s) 1593, 1913
MmeI TCCRAC 6 cut(s) 284, 315, 370, 1380, 2018, 2100
Mph1103I ATGCAT 2 cut(s) 922, 1477
MseI TTAA 3 cut(s) 725, 894, 1122
MslI CAYNNNNRTG 8 cut(s) 102, 126, 780, 990, 1083, 1308, 1386, 1532
MspI CCGG 1 cut(s) 1064
MspR9I CCNGG 3 cut(s) 1049, 1065, 2028
MunI CAATTG 1 cut(s) 711
Mva1269I GAATGC 3 cut(s) 922, 1528, 1957
MvaI CCWGG 2 cut(s) 1049, 2028
MvnI CGCG 1 cut(s) 1761
MwoI GCNNNNNNNGC 3 cut(s) 209, 1028, 1565
NciI CCSGG 1 cut(s) 1065
NdeI CATATG 2 cut(s) 46, 205
NdeII GATC 5 cut(s) 274, 700, 901, 1722, 2139
NlaIV GGNNCC 2 cut(s) 873, 1062
NmuCI GTSAC 2 cut(s) 403, 953
NsbI TGCGCA 1 cut(s) 1173
NsiI ATGCAT 2 cut(s) 922, 1477
NspI RCATGY 3 cut(s) 535, 1385, 1447
PagI TCATGA 2 cut(s) 985, 1587
PciI ACATGT 2 cut(s) 531, 1443
PctI GAATGC 3 cut(s) 922, 1528, 1957
PfeI GAWTC 5 cut(s) 151, 466, 497, 653, 982
PflMI CCANNNNNTGG 1 cut(s) 1968
PleI GAGTC 2 cut(s) 1592, 1913
PpsI GAGTC 2 cut(s) 1592, 1913
PpuMI RGGWCCY 1 cut(s) 113
PscI ACATGT 2 cut(s) 531, 1443
PsiI TTATAA 1 cut(s) 233
Psp5II RGGWCCY 1 cut(s) 113
Psp6I CCWGG 2 cut(s) 1047, 2026
PspFI CCCAGC 1 cut(s) 217
PspGI CCWGG 2 cut(s) 1047, 2026
PspN4I GGNNCC 2 cut(s) 873, 1062
PspPI GGNCC 3 cut(s) 113, 595, 2059
PspPPI RGGWCCY 1 cut(s) 113
RsaI GTAC 5 cut(s) 185, 935, 1062, 1145, 1829
RsaNI GTAC 5 cut(s) 184, 934, 1061, 1144, 1828
RseI CAYNNNNRTG 8 cut(s) 102, 126, 780, 990, 1083, 1308, 1386, 1532
SaqAI TTAA 3 cut(s) 725, 894, 1122
Sau3AI GATC 5 cut(s) 274, 700, 901, 1722, 2139
Sau96I GGNCC 3 cut(s) 113, 595, 2059
SchI GAGTC 2 cut(s) 1593, 1913
ScrFI CCNGG 3 cut(s) 1049, 1065, 2028
SduI GDGCHC 3 cut(s) 876, 1731, 1837
SexAI ACCWGGT 1 cut(s) 2026
SfaNI GCATC 7 cut(s) 241, 766, 1378, 1462, 1805, 1963, 1975
SinI GGWCC 3 cut(s) 113, 595, 2059
SmiMI CAYNNNNRTG 8 cut(s) 102, 126, 780, 990, 1083, 1308, 1386, 1532
SpeI ACTAGT 1 cut(s) 1040
Sse9I AATT 7 cut(s) 286, 343, 445, 704, 711, 895, 1074
SsiI CCGC 4 cut(s) 639, 1341, 1458, 1759
SspI AATATT 1 cut(s) 1406
SspMI CTAG 5 cut(s) 599, 1041, 1136, 1241, 1742
StyD4I CCNGG 3 cut(s) 1047, 1063, 2026
TaaI ACNGT 3 cut(s) 953, 1027, 1180
TaqI TCGA 5 cut(s) 383, 614, 900, 1725, 1990
TasI AATT 7 cut(s) 286, 343, 445, 704, 711, 895, 1074
TatI WGTACW 2 cut(s) 1143, 1827
TauI GCSGC 2 cut(s) 1343, 1761
TfiI GAWTC 5 cut(s) 151, 466, 497, 653, 982
Tru1I TTAA 3 cut(s) 725, 894, 1122
Tru9I TTAA 3 cut(s) 725, 894, 1122
TscAI CASTG 2 cut(s) 1272, 1973
TseFI GTSAC 2 cut(s) 403, 953
TseI GCWGC 8 cut(s) 209, 350, 476, 754, 803, 1647, 1955, 1958
Tsp45I GTSAC 2 cut(s) 403, 953
TspRI CASTG 2 cut(s) 1272, 1973
Van91I CCANNNNNTGG 1 cut(s) 1968
VpaK11BI GGWCC 3 cut(s) 113, 595, 2059
XapI RAATTY 1 cut(s) 1074
XbaI TCTAGA 2 cut(s) 1135, 1240
XceI RCATGY 3 cut(s) 535, 1385, 1447
XcmI CCANNNNNNNNNTGG 2 cut(s) 1045, 2034
XspI CTAG 5 cut(s) 599, 1041, 1136, 1241, 1742
Zsp2I ATGCAT 2 cut(s) 922, 1477
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.