Rroxscaffold_6G00421110

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0008146
Physical Location & Seq
Reverse (-)
42340685 .. 42345015
4331 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00421110.1

Sequence Viewer

Length: 1938 bp
ATGGGCTTCGCTCCAAAAAGGTTTAGCCACACCGCAGAAACGTATTATAAGATGATTCTGAAACTGGGTTTGGCTGGAAATGTTAAGGAAATGGAAGGGTTTTGTCATCATATGGTCAAAGATAGATGCCCAGGTGTTGGAGAAGCTCTTTTGGAATTGATTGATGTGTTTGTTAGGCATGGTAGGCTGAGTGAGGCAATAAGGGTACTTGTGAATATGAAAGCAGGTGGATATAGGGTCTCAATTGAGACATTTAATGTTGTATTGGGTGCTCTTGTGAAAGAGAAGAGGGATTTTCGAGACATAGTGCTTGTTTATAAGGAGATGGTGAAGGCAGGGATGTTACCGACTGTTGAGACTTTGAATTATATGTTGGAGGGTTTGTTGGAGACTGATCGGATTGAGTCGGCTTTGGATCAATATAGGAGAATGAAAAAGAAAGGGTGTAGTCCTAATAGTAGAACATTTGAGATAATCATACAGGCTCTTTTTGCAAAAGATCGAGAGGATGAAGCTGTTGTTGTTTTAAGTGAAATGTTCAAACTTGATTGTCAGCTTGATTTGAGTTTCTATACCTGCATAATACCTTTGTTCTGTGGGGAAAATAAACCAGCAGAGGGAATCAGATTGTTCAAAATGATGAGAGCTTCTAATTTTATGCCGAATTCACTGATTTATGGGGTTTTATTACAGTGTTTATGCAAGAACCTATATTTAGATGATTCGATAAAGGTTCTAGAAGACATGATAGAAACTGGGTTGACACCACCTACCAATTTTTGTGTGGATGTAATGAATGTCTTCTGTACATTAGGAAAGATAGATGATGCTTTGAAGTTCTTGGAAGATAAGCATATCCTTGAAACTTCCGCCTATAATGTGTTGCTTGAAGGTTGCTGCAATACCGGTAAACTTCTCACAGCAAAAGATCTACTTGTGGAAATGTCCGAAAGAAACCTAGCTGATTGTAGTTCTTGGAATATTCTCATCAGATGGCTCTGTGAGAATGCAAGGATTAGGGAAGTGTTTGAACTTGTAGGTAGAATGGTGGTGTCATCTTCTATTCCTGATTGTGCTACATACTCAGCTCTTGTTATTGGCAACTGCAAAATGAGCAATCACAGAAAGGCTCTTGATATATTTCATCACATTCGCACCAAATACTGGCTTTTGGACCCTAGATCTTACTCTGAGCTTGTCAAAGGCCTTTGCCTTGTGGAAATGACTCGTGAGGCGGCTGATGTGTTCTATTACATGTCTAGTAATGGATGCTCTCTCCAGTCTTCCTCCTTCAATATGTTGATCAAGGGTATTTGTGAGACAGGAGAGGTTGTTGAAGCAATAAGGCTACAGAAACTGGCTTACTATTCTGGTACTTTTTATACAAGTTCAACTTACTCCACTGTTTTGCTTGGATTGTCAAGATTAGACAAGACAAAAGAACTGCTAGTTATCCTATCAAAAATGCTGGTGGAGGGTCGCAATCTTGATTTGGACGCCTACTGCATCCTCATACAATGCATGAGTGGGCAGAATCGAGTAAAAGAATGCGTATTGCTTTTCAGCATGATGGTCAGTAAGGGTCTTGTACCTGATTCAGAGAGACTAGTTAGTCTACTGTCTTGTATAGCCAAACATTCTCAGTTGCACAGAATTTTAGGATCAATACAGAAACTTATTCCCAATAGTGAAGTTCTAAATTCAACAACCTACAACATCCTAATTCGTGGCCTCTGGATAGAGGGTTATAAACGTGATGCCAGCAGATTTTTGGATATAATGTTGGAAAAGGGTTGGGTGCCAGATGCCAAGACTCATGCGTTGTTGATTGGGTCTGCTGTTAGTGATGAAGTAGATAAGAGATCAATGGACTATGATACTTTTAGTGTCCAAGATACTGTTAGCAACATCCTGGCGGAGGGCTTAGATGCATCATGA
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_1 PPR_2 PPR_3

Protein Analysis

645

Amino Acids

72.8

Weight (kDa)

6.2

Isoelectric Point (pI)

39.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 53 - 143 6.3e-08 Fungal tetratrico peptide repeats
PPR_2 PF13041 82 - 128 2.3e-06 PPR repeat family
PPR_2 PF13041 116 - 163 2.9e-11 PPR repeat family
PPR_2 PF13041 189 - 235 6e-07 PPR repeat family
PPR_2 PF13041 324 - 370 9.5e-08 PPR repeat family
PPR_2 PF13041 567 - 610 4.6e-06 PPR repeat family
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 3 cut(s) 48, 318, 1749
AarI CACCTGC 1 cut(s) 215
AasI GACNNNNNNGTC 1 cut(s) 1611
Acc36I ACCTGC 2 cut(s) 215, 584
AccB1I GGYRCC 1 cut(s) 1798
AccB7I CCANNNNNTGG 2 cut(s) 137, 1164
AccI GTMKAC 1 cut(s) 1615
AciI CCGC 4 cut(s) 33, 870, 1235, 1916
AclWI GGATC 2 cut(s) 423, 1669
AcsI RAATTY 3 cut(s) 664, 1653, 1699
AcyI GRCGYC 1 cut(s) 1497
AfaI GTAC 4 cut(s) 207, 808, 1375, 1590
AfiI CCNNNNNNNGG 4 cut(s) 137, 617, 1164, 1918
AflIII ACRYGT 1 cut(s) 1254
AgeI ACCGGT 1 cut(s) 905
AhlI ACTAGT 1 cut(s) 1606
AjnI CCWGG 2 cut(s) 130, 1911
AjuI GAANNNNNNNTTGG 4 cut(s) 53, 85, 356, 388
AluBI AGCT 7 cut(s) 146, 515, 556, 647, 962, 1088, 1195
AluI AGCT 7 cut(s) 146, 515, 556, 647, 962, 1088, 1195
Alw21I GWGCWC 1 cut(s) 274
Alw26I GTCTC 7 cut(s) 242, 244, 294, 350, 383, 1313, 1597
AlwI GGATC 2 cut(s) 423, 1669
AlwNI CAGNNNCTG 1 cut(s) 1357
AoxI GGCC 2 cut(s) 1204, 1729
ApeKI GCWGC 1 cut(s) 897
ApoI RAATTY 3 cut(s) 664, 1653, 1699
AsiGI ACCGGT 1 cut(s) 905
Asp700I GAANNNNTTC 1 cut(s) 800
AspS9I GGNCC 1 cut(s) 1174
AsuHPI GGTGA 1 cut(s) 340
AvaII GGWCC 1 cut(s) 1174
BanI GGYRCC 1 cut(s) 1798
BauI CACGAG 1 cut(s) 1227
BbsI GAAGAC 3 cut(s) 747, 793, 1275
Bbv12I GWGCWC 1 cut(s) 274
BbvI GCAGC 1 cut(s) 884
BccI CCATC 3 cut(s) 319, 987, 1564
BciT130I CCWGG 2 cut(s) 132, 1913
BclI TGATCA 1 cut(s) 1302
BcoDI GTCTC 7 cut(s) 242, 244, 294, 350, 383, 1313, 1597
BcuI ACTAGT 1 cut(s) 1606
BfaI CTAG 6 cut(s) 737, 959, 1179, 1260, 1448, 1607
BfmI CTRYAG 1 cut(s) 1349
BfuAI ACCTGC 2 cut(s) 215, 584
BglII AGATCT 2 cut(s) 928, 1181
BisI GCNGC 2 cut(s) 898, 1236
BlsI GCNGC 2 cut(s) 899, 1237
Bme1390I CCNGG 2 cut(s) 132, 1913
Bme18I GGWCC 1 cut(s) 1174
BmgT120I GGNCC 1 cut(s) 1174
BmiI GGNNCC 2 cut(s) 1176, 1800
BmrFI CCNGG 2 cut(s) 132, 1913
BmrI ACTGGG 2 cut(s) 74, 765
BmsI GCATC 7 cut(s) 116, 817, 1259, 1515, 1747, 1795, 1918
BmuI ACTGGG 2 cut(s) 74, 765
BpiI GAAGAC 3 cut(s) 747, 793, 1275
BpmI CTGGAG 1 cut(s) 1262
BsaHI GRCGYC 1 cut(s) 1497
BsaI GGTCTC 1 cut(s) 244
BsaJI CCNNGG 1 cut(s) 130
BsaWI WCCGGW 1 cut(s) 905
BsaXI ACNNNNNCTCC 4 cut(s) 368, 398, 1317, 1347
Bsc4I CCNNNNNNNGG 4 cut(s) 137, 617, 1164, 1918
Bse118I RCCGGY 1 cut(s) 905
Bse1I ACTGG 5 cut(s) 69, 760, 1169, 1279, 1362
BseBI CCWGG 2 cut(s) 132, 1913
BseDI CCNNGG 1 cut(s) 130
BseGI GGATG 7 cut(s) 345, 514, 793, 1274, 1506, 1716, 1908
BseLI CCNNNNNNNGG 4 cut(s) 137, 617, 1164, 1918
BseMII CTCAG 4 cut(s) 179, 1098, 1182, 1655
BseNI ACTGG 5 cut(s) 69, 760, 1169, 1279, 1362
BseXI GCAGC 1 cut(s) 884
BshFI GGCC 2 cut(s) 1206, 1731
BshNI GGYRCC 1 cut(s) 1798
BshTI ACCGGT 1 cut(s) 905
BsiHKAI GWGCWC 1 cut(s) 274
BsiSI CCGG 1 cut(s) 906
BslI CCNNNNNNNGG 4 cut(s) 137, 617, 1164, 1918
BsmAI GTCTC 7 cut(s) 242, 244, 294, 350, 383, 1313, 1597
BsmI GAATGC 2 cut(s) 1012, 1553
BsnI GGCC 2 cut(s) 1206, 1731
Bso31I GGTCTC 1 cut(s) 244
Bsp1286I GDGCHC 1 cut(s) 274
Bsp1407I TGTACA 1 cut(s) 806
Bsp143I GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
BspACI CCGC 4 cut(s) 33, 870, 1235, 1916
BspANI GGCC 2 cut(s) 1206, 1731
BspCNI CTCAG 4 cut(s) 180, 1097, 1183, 1654
BspHI TCATGA 1 cut(s) 1934
BspLI GGNNCC 2 cut(s) 1176, 1800
BspMI ACCTGC 2 cut(s) 215, 584
BspPI GGATC 2 cut(s) 423, 1669
BspT107I GGYRCC 1 cut(s) 1798
BspTNI GGTCTC 1 cut(s) 244
BsrFI RCCGGY 1 cut(s) 905
BsrGI TGTACA 1 cut(s) 806
BsrI ACTGG 5 cut(s) 69, 760, 1169, 1279, 1362
BssAI RCCGGY 1 cut(s) 905
BssECI CCNNGG 1 cut(s) 130
BssMI GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
BssNI GRCGYC 1 cut(s) 1497
BssSI CACGAG 1 cut(s) 1227
Bst2BI CACGAG 1 cut(s) 1227
Bst2UI CCWGG 2 cut(s) 132, 1913
Bst4CI ACNGT 5 cut(s) 352, 693, 1405, 1620, 1900
Bst6I CTCTTC 1 cut(s) 281
BstACI GRCGYC 1 cut(s) 1497
BstAUI TGTACA 1 cut(s) 806
BstC8I GCNNGC 1 cut(s) 1762
BstDEI CTNAG 5 cut(s) 188, 1084, 1191, 1641, 1924
BstENI CCTNNNNNAGG 1 cut(s) 1916
BstF5I GGATG 7 cut(s) 345, 514, 793, 1274, 1506, 1716, 1908
BstKTI GATC 8 cut(s) 397, 418, 502, 931, 1184, 1305, 1664, 1865
BstMAI GTCTC 7 cut(s) 242, 244, 294, 350, 383, 1313, 1597
BstMBI GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
BstMWI GCNNNNNNNGC 3 cut(s) 184, 491, 1113
BstNI CCWGG 2 cut(s) 132, 1913
BstNSI RCATGY 1 cut(s) 1258
BstSCI CCNGG 2 cut(s) 130, 1911
BstSFI CTRYAG 1 cut(s) 1349
BstV1I GCAGC 1 cut(s) 884
BstV2I GAAGAC 3 cut(s) 747, 793, 1275
BstX2I RGATCY 2 cut(s) 928, 1181
BstYI RGATCY 2 cut(s) 928, 1181
BsuRI GGCC 2 cut(s) 1206, 1731
BtsCI GGATG 7 cut(s) 345, 514, 793, 1274, 1506, 1716, 1908
BtsIMutI CAGTG 3 cut(s) 668, 698, 1401
BveI ACCTGC 2 cut(s) 215, 584
Cac8I GCNNGC 1 cut(s) 1762
CaiI CAGNNNCTG 1 cut(s) 1357
CciI TCATGA 1 cut(s) 1934
Cfr10I RCCGGY 1 cut(s) 905
Cfr13I GGNCC 1 cut(s) 1174
CseI GACGC 1 cut(s) 1505
Csp6I GTAC 4 cut(s) 206, 807, 1374, 1589
CspAI ACCGGT 1 cut(s) 905
CviAII CATG 7 cut(s) 179, 745, 1255, 1522, 1567, 1817, 1935
CviQI GTAC 4 cut(s) 206, 807, 1374, 1589
DdeI CTNAG 5 cut(s) 188, 1084, 1191, 1641, 1924
DpnI GATC 8 cut(s) 396, 417, 501, 930, 1183, 1304, 1663, 1864
DpnII GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
DrdI GACNNNNNNGTC 1 cut(s) 1611
DseDI GACNNNNNNGTC 1 cut(s) 1611
Eam1104I CTCTTC 1 cut(s) 281
EarI CTCTTC 1 cut(s) 281
EciI GGCGGA 2 cut(s) 859, 1931
Eco147I AGGCCT 1 cut(s) 1206
Eco31I GGTCTC 1 cut(s) 244
Eco47I GGWCC 1 cut(s) 1174
EcoNI CCTNNNNNAGG 1 cut(s) 1916
EcoRI GAATTC 1 cut(s) 664
EcoRII CCWGG 2 cut(s) 130, 1911
EcoT22I ATGCAT 2 cut(s) 1523, 1933
FaeI CATG 7 cut(s) 182, 748, 1258, 1525, 1570, 1820, 1938
FalI AAGNNNNNCTT 4 cut(s) 918, 950, 1378, 1410
FatI CATG 7 cut(s) 178, 744, 1254, 1521, 1566, 1816, 1934
FauNDI CATATG 1 cut(s) 111
FbaI TGATCA 1 cut(s) 1302
FblI GTMKAC 1 cut(s) 1615
Fnu4HI GCNGC 2 cut(s) 898, 1236
FokI GGATG 7 cut(s) 352, 521, 800, 1281, 1493, 1703, 1895
Fsp4HI GCNGC 2 cut(s) 898, 1236
FspBI CTAG 6 cut(s) 737, 959, 1179, 1260, 1448, 1607
GluI GCNGC 2 cut(s) 898, 1236
GsuI CTGGAG 1 cut(s) 1262
HaeIII GGCC 2 cut(s) 1206, 1731
HapII CCGG 1 cut(s) 906
HgaI GACGC 1 cut(s) 1505
Hin1I GRCGYC 1 cut(s) 1497
Hin1II CATG 7 cut(s) 182, 748, 1258, 1525, 1570, 1820, 1938
HincII GTYRAC 1 cut(s) 762
HindII GTYRAC 1 cut(s) 762
HinfI GANTC 8 cut(s) 55, 404, 621, 722, 1225, 1534, 1595, 1813
HpaII CCGG 1 cut(s) 906
HphI GGTGA 1 cut(s) 340
Hpy166II GTNNAC 3 cut(s) 762, 911, 1616
Hpy188I TCNGA 7 cut(s) 60, 399, 626, 949, 992, 1192, 1600
Hpy8I GTNNAC 3 cut(s) 762, 911, 1616
HpyAV CCTTC 4 cut(s) 89, 325, 884, 1300
HpyCH4III ACNGT 5 cut(s) 352, 693, 1405, 1620, 1900
HpyCH4IV ACGT 2 cut(s) 41, 1753
HpyF10VI GCNNNNNNNGC 3 cut(s) 184, 491, 1113
HpyF3I CTNAG 5 cut(s) 188, 1084, 1191, 1641, 1924
HpySE526I ACGT 2 cut(s) 41, 1753
Hsp92I GRCGYC 1 cut(s) 1497
Hsp92II CATG 7 cut(s) 182, 748, 1258, 1525, 1570, 1820, 1938
Ksp22I TGATCA 1 cut(s) 1302
Kzo9I GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
LmnI GCTCC 1 cut(s) 16
Lsp1109I GCAGC 1 cut(s) 884
LweI GCATC 7 cut(s) 116, 817, 1259, 1515, 1747, 1795, 1918
MaeI CTAG 6 cut(s) 737, 959, 1179, 1260, 1448, 1607
MaeII ACGT 2 cut(s) 41, 1753
MaeIII GTNAC 1 cut(s) 342
MalI GATC 8 cut(s) 396, 417, 501, 930, 1183, 1304, 1663, 1864
MboI GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
MboII GAAGA 6 cut(s) 298, 752, 793, 857, 1050, 1275
MfeI CAATTG 1 cut(s) 243
MflI RGATCY 2 cut(s) 928, 1181
MhlI GDGCHC 1 cut(s) 274
MluCI AATT 9 cut(s) 155, 243, 364, 652, 664, 775, 1653, 1699, 1722
MlyI GAGTC 3 cut(s) 413, 1219, 1807
MmeI TCCRAC 4 cut(s) 118, 354, 366, 1764
Mph1103I ATGCAT 2 cut(s) 1523, 1933
MroXI GAANNNNTTC 1 cut(s) 800
MseI TTAA 3 cut(s) 84, 255, 527
MspI CCGG 1 cut(s) 906
MspR9I CCNGG 2 cut(s) 132, 1913
MunI CAATTG 1 cut(s) 243
Mva1269I GAATGC 2 cut(s) 1012, 1553
MvaI CCWGG 2 cut(s) 132, 1913
MwoI GCNNNNNNNGC 3 cut(s) 184, 491, 1113
NdeI CATATG 1 cut(s) 111
NdeII GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
NlaIII CATG 7 cut(s) 182, 748, 1258, 1525, 1570, 1820, 1938
NlaIV GGNNCC 2 cut(s) 1176, 1800
NsiI ATGCAT 2 cut(s) 1523, 1933
NspI RCATGY 1 cut(s) 1258
PagI TCATGA 1 cut(s) 1934
PaqCI CACCTGC 1 cut(s) 215
PceI AGGCCT 1 cut(s) 1206
PciI ACATGT 1 cut(s) 1254
PctI GAATGC 2 cut(s) 1012, 1553
PdmI GAANNNNTTC 1 cut(s) 800
PfeI GAWTC 5 cut(s) 55, 621, 722, 1534, 1595
PflMI CCANNNNNTGG 2 cut(s) 137, 1164
PinAI ACCGGT 1 cut(s) 905
PkrI GCNGC 2 cut(s) 899, 1237
PleI GAGTC 3 cut(s) 412, 1219, 1807
PpsI GAGTC 3 cut(s) 412, 1219, 1807
PscI ACATGT 1 cut(s) 1254
PsiI TTATAA 3 cut(s) 48, 318, 1749
Psp6I CCWGG 2 cut(s) 130, 1911
PspGI CCWGG 2 cut(s) 130, 1911
PspN4I GGNNCC 2 cut(s) 1176, 1800
PspPI GGNCC 1 cut(s) 1174
PstNI CAGNNNCTG 1 cut(s) 1357
PsuI RGATCY 2 cut(s) 928, 1181
RsaI GTAC 4 cut(s) 207, 808, 1375, 1590
RsaNI GTAC 4 cut(s) 206, 807, 1374, 1589
SaqAI TTAA 3 cut(s) 84, 255, 527
SatI GCNGC 2 cut(s) 898, 1236
Sau3AI GATC 8 cut(s) 394, 415, 499, 928, 1181, 1302, 1661, 1862
Sau96I GGNCC 1 cut(s) 1174
SchI GAGTC 3 cut(s) 413, 1219, 1807
ScrFI CCNGG 2 cut(s) 132, 1913
SduI GDGCHC 1 cut(s) 274
SfaNI GCATC 7 cut(s) 116, 817, 1259, 1515, 1747, 1795, 1918
SfcI CTRYAG 1 cut(s) 1349
SinI GGWCC 1 cut(s) 1174
SpeI ACTAGT 1 cut(s) 1606
Sse9I AATT 9 cut(s) 155, 243, 364, 652, 664, 775, 1653, 1699, 1722
SseBI AGGCCT 1 cut(s) 1206
SsiI CCGC 4 cut(s) 33, 870, 1235, 1916
SspI AATATT 1 cut(s) 982
SspMI CTAG 6 cut(s) 737, 959, 1179, 1260, 1448, 1607
StuI AGGCCT 1 cut(s) 1206
StyD4I CCNGG 2 cut(s) 130, 1911
TaaI ACNGT 5 cut(s) 352, 693, 1405, 1620, 1900
TaiI ACGT 2 cut(s) 44, 1756
TaqI TCGA 4 cut(s) 298, 502, 725, 1537
TasI AATT 9 cut(s) 155, 243, 364, 652, 664, 775, 1653, 1699, 1722
TatI WGTACW 1 cut(s) 806
TauI GCSGC 1 cut(s) 1238
TfiI GAWTC 5 cut(s) 55, 621, 722, 1534, 1595
Tru1I TTAA 3 cut(s) 84, 255, 527
Tru9I TTAA 3 cut(s) 84, 255, 527
TscAI CASTG 3 cut(s) 675, 698, 1408
TseI GCWGC 1 cut(s) 897
TspDTI ATGAA 6 cut(s) 233, 446, 525, 809, 1133, 1863
TspRI CASTG 3 cut(s) 675, 698, 1408
Van91I CCANNNNNTGG 2 cut(s) 137, 1164
VpaK11BI GGWCC 1 cut(s) 1174
XagI CCTNNNNNAGG 1 cut(s) 1916
XapI RAATTY 3 cut(s) 664, 1653, 1699
XbaI TCTAGA 1 cut(s) 736
XceI RCATGY 1 cut(s) 1258
XcmI CCANNNNNNNNNTGG 2 cut(s) 781, 1768
XmiI GTMKAC 1 cut(s) 1615
XmnI GAANNNNTTC 1 cut(s) 800
XspI CTAG 6 cut(s) 737, 959, 1179, 1260, 1448, 1607
Zsp2I ATGCAT 2 cut(s) 1523, 1933
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.