RLG00000025406

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0015422
Physical Location & Seq
Forward (+)
45612313 .. 45614259
1947 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025406

Sequence Viewer

Length: 1947 bp
ATGAAATCCAAATGGGTCTTTCTCTACTCCCCCTCTTGGGCTTCTTCTCTATTCTCTCTTCTCAAAACCAGGGTTTACCAAAACCCCATTTCAGAAACCTCGGCATTGGTCCTCAACCATGTCGATGTAAGCCTGCTTCTTTCTTTTTGTGGGAAAAATCGTCACTTTCAATTGGGTTCTTCCCTCCACGCCTCTATACTTAAGAACCCTGAATTTTTTGAACCCGAGAATCGCAATGTCCTTGTAATTTGGAACTCTCTGCTGTCCATGTACTTGAAATGTGGTCAAGAAAGGGATGCAGTTAAGCTGTTCGACGAAATGCCTGTGAGAGATACGGTTTCGTGGAATACTATGATATCAGGGTTTTTGAGAAATGGAGAGTCTGAGATTGGTTTTGGGTACTTCAAGCGAATGCGGGAGTCGGGTTTTTATCGATTTGATAAAGCTACTTTGACTTGCATTATAGCGGGTTTTGATGGGGTGGAGTGTTGTTACTTGAACAAGATGATGCATGGTTTGGTGGTTTTGAATGGGTTTGAGAGGGAAACTGCAGTGGGGAATGCTTTGATAACATCGTATTGTAAATGTGGGTGTTTTGGCTCAGCAAGACGGGTTTTTGATGAGATGTTTGAGAGGAATGTGATTACATGGACGGCGATGATTTCTGGCCTTGCACAGAATGGTTTCTATGTTGTGAGCTTGAAGGTGTTTGCCGAGATGCGGAGTGGTGTGGTGGAACCGAATGCTATGACGTTTTTGGGCTCACTCATGGCGTGTTCTGGATTGCAGGCGATAAGGGCGGGGCATCAAATTCATGGACTTGTATGGAAATTGGGAGTTCAATCTGACCTGTGCATTGAGAGTTCATTGATGGACATGTACTCAAAATGTGGTAGTGTGGAAGATGCATGGAGAATATTTGAGTCCACCGAAGAACTTGATGAGGTTTCCATGACTGTTATCCTTGTGGGATTTGCACAAAATGGGTTTGAGACTGAAGCTATCCAGATTTTTGTGAAAATGATGAAGGCAGGGATTGAAATTGACCCAGACATGGTTTCAGCAGTTCTTGGGGTATTTGGTGTTGATACTTCTTTAGGCCTGGGAAAGCAACTCCACTCTTTAATTGTCAAAAAGAATTTTGGTTATAACTCTTTTGTTACAAATGGGCTTATAAATATGTATTCCAAGTGTGGAGAGCTGGAGGATTCGGCAAAAGTGTTCACTCGAATGCCTCAAAGGAACTCGGTTTCATGGAATTCAATGATTGCAGCTTTTGCCCGTCATGGAGATGGCTCTAAAGCATTACAATTGTATGAAGAGATGCAAATGGAAGGCGTACAACCAACAGACATTACATTTCTGTCTCTACTTCATGCTTGTAGCCATGTTGGCTTGATCGAAAGGGGCATGGAGTTTCTGAACTCTATGAAAGAAGAACATGGGATGAGTCCAAGGCCAGAACACTATGCTTGTATCGTTGACATGTTAGGTAGGGCAGGACTTCTAACTGAGGCTAAAAATTTCATTGAAGAACTGCCTGAGAATCCCGGTGTGCTTGTTTGGCAAGCATTGCTTGGTGCTTGTAGCATTCATGGCAATTCTAATATCGGTAAATGTGCTGCAGATCAGTTGTTTTTGGCAGCACCACAGAGTCCCGCAACATATGTTTTGCTTGCCAATATACATTGTTCTGAAGGAAGGTGGAAAGACAGGGCAAAGACTATTAAGGGGATGAAGGAGATGGGGGTGGCAAAAGAAACGGGTATTAGTTGGATTGAAATTGAAAAGAAAGTTCAGAGCTTTGTTGTTGGTGATAAAATGCATCCACAAGCAGAGATCATTTATAGGGTTTTGGCAGAATTGCTTAGACTTATGAAAGATGAAAGATATGTACCGGATGAGAGGTTTTTACTCTATTACTTAGATCAAGATGAAAAGAGATGA

Protein Analysis

649

Amino Acids

72.68

Weight (kDa)

5.91

Isoelectric Point (pI)

43.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 82 - 108 6.3e-06 PPR repeat
PPR_2 PF13041 110 - 158 1.1e-06 PPR repeat family
PPR PF01535 113 - 143 3.1e-07 PPR repeat
PPR_2 PF13041 212 - 252 5.3e-06 PPR repeat family
PPR_2 PF13041 415 - 462 1.5e-13 PPR repeat family
PPR PF01535 417 - 447 6.4e-09 PPR repeat
E_motif PF20431 532 - 594 8.5e-12 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015422)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G05340
fragaria_vesca FvH4_6g05850
malus_domestica MD12G1219000.v1.1
prunus_persica Prupe.6G325500_v2.0.a1
pyrus_communis pycom12g20470
rosa_chinensis RchiOBHm_Chr3g0454801
rosa_laevigata RLG00000025406
rosa_multiflora Rmu_sc0001792.1_g000013 Rmu_sc0013126.1_g000006
rosa_roxburghii Rroxscaffold_6G00424720
rosa_rugosa Rorug03G0002600
rosa_samantha Rh3AG062600 Rh3BG064500 Rh3CG063400 Rh3DG064300
rosa_wichuraiana Rw3G004880

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 1149, 1175
AciI CCGC 5 cut(s) 415, 467, 721, 800, 1659
AcsI RAATTY 5 cut(s) 212, 810, 1138, 1258, 1522
AcuI CTGAAG 2 cut(s) 1017, 1716
AfaI GTAC 5 cut(s) 272, 401, 881, 1341, 1896
AfiI CCNNNNNNNGG 4 cut(s) 36, 37, 720, 1054
AflII CTTAAG 1 cut(s) 200
AflIII ACRYGT 2 cut(s) 876, 1485
AjnI CCWGG 2 cut(s) 68, 1101
AluBI AGCT 7 cut(s) 307, 446, 699, 1001, 1201, 1274, 1803
AluI AGCT 7 cut(s) 307, 446, 699, 1001, 1201, 1274, 1803
Alw26I GTCTC 2 cut(s) 986, 1371
Ama87I CYCGRG 1 cut(s) 224
AoxI GGCC 3 cut(s) 667, 1099, 1457
ApeKI GCWGC 3 cut(s) 1271, 1622, 1643
ApoI RAATTY 5 cut(s) 212, 810, 1138, 1258, 1522
Asp700I GAANNNNTTC 1 cut(s) 683
AspS9I GGNCC 1 cut(s) 109
AsuC2I CCSGG 1 cut(s) 1551
AsuHPI GGTGA 1 cut(s) 1826
AvaI CYCGRG 1 cut(s) 224
AvaII GGWCC 1 cut(s) 109
BanII GRGCYC 1 cut(s) 764
BarI GAAGNNNNNNTAC 2 cut(s) 120, 152
BbvI GCAGC 3 cut(s) 1283, 1609, 1655
BccI CCATC 4 cut(s) 470, 865, 1286, 1738
BceAI ACGGC 1 cut(s) 669
BciT130I CCWGG 2 cut(s) 70, 1103
BcnI CCSGG 1 cut(s) 1551
BcoDI GTCTC 2 cut(s) 986, 1371
BfmI CTRYAG 2 cut(s) 549, 1623
BfrI CTTAAG 1 cut(s) 200
BglI GCCNNNNNGGC 1 cut(s) 1392
BisI GCNGC 3 cut(s) 1272, 1623, 1644
BlpI GCTNAGC 1 cut(s) 601
BlsI GCNGC 3 cut(s) 1273, 1624, 1645
Bme1390I CCNGG 3 cut(s) 70, 1103, 1551
Bme18I GGWCC 1 cut(s) 109
BmeT110I CYCGRG 1 cut(s) 224
BmgT120I GGNCC 1 cut(s) 109
BmiI GGNNCC 1 cut(s) 738
BmrFI CCNGG 3 cut(s) 70, 1103, 1551
BmsI GCATC 7 cut(s) 286, 498, 708, 814, 895, 1314, 1834
BpmI CTGGAG 1 cut(s) 1223
Bpu1102I GCTNAGC 1 cut(s) 601
BpuMI CCSGG 1 cut(s) 1551
Bsa29I ATCGAT 1 cut(s) 433
BsaJI CCNNGG 4 cut(s) 69, 99, 1102, 1454
BsaWI WCCGGW 1 cut(s) 1897
Bsc4I CCNNNNNNNGG 4 cut(s) 36, 37, 720, 1054
Bse3DI GCAATG 2 cut(s) 241, 1571
BseBI CCWGG 2 cut(s) 70, 1103
BseCI ATCGAT 1 cut(s) 433
BseDI CCNNGG 4 cut(s) 69, 99, 1102, 1454
BseGI GGATG 5 cut(s) 301, 1452, 1740, 1825, 1906
BseLI CCNNNNNNNGG 4 cut(s) 36, 37, 720, 1054
BseMI GCAATG 2 cut(s) 241, 1571
BseMII CTCAG 4 cut(s) 375, 615, 1503, 1533
BseXI GCAGC 3 cut(s) 1283, 1609, 1655
BshFI GGCC 3 cut(s) 669, 1101, 1459
BshVI ATCGAT 1 cut(s) 433
BsiHKCI CYCGRG 1 cut(s) 224
BsiSI CCGG 2 cut(s) 1551, 1898
BslFI GGGAC 1 cut(s) 1641
BslI CCNNNNNNNGG 4 cut(s) 36, 37, 720, 1054
BsmAI GTCTC 2 cut(s) 986, 1371
BsmFI GGGAC 1 cut(s) 1641
BsmI GAATGC 5 cut(s) 417, 565, 748, 1236, 1590
BsnI GGCC 3 cut(s) 669, 1101, 1459
BsoBI CYCGRG 1 cut(s) 224
Bsp1286I GDGCHC 1 cut(s) 764
Bsp143I GATC 4 cut(s) 1398, 1627, 1839, 1927
Bsp1720I GCTNAGC 1 cut(s) 601
BspACI CCGC 5 cut(s) 415, 467, 721, 800, 1659
BspANI GGCC 3 cut(s) 669, 1101, 1459
BspCNI CTCAG 4 cut(s) 376, 614, 1504, 1534
BspDI ATCGAT 1 cut(s) 433
BspLI GGNNCC 1 cut(s) 738
BspMAI CTGCAG 2 cut(s) 553, 1627
BspTI CTTAAG 1 cut(s) 200
BsrDI GCAATG 2 cut(s) 241, 1571
BssECI CCNNGG 4 cut(s) 69, 99, 1102, 1454
BssMI GATC 4 cut(s) 1398, 1627, 1839, 1927
BssT1I CCWWGG 1 cut(s) 1454
Bst2UI CCWGG 2 cut(s) 70, 1103
Bst4CI ACNGT 2 cut(s) 337, 958
Bst6I CTCTTC 2 cut(s) 63, 1314
BstAFI CTTAAG 1 cut(s) 200
BstAPI GCANNNNNTGC 2 cut(s) 1277, 1573
BstC8I GCNNGC 4 cut(s) 134, 789, 1569, 1677
BstDEI CTNAG 6 cut(s) 384, 601, 1512, 1542, 1868, 1924
BstF5I GGATG 5 cut(s) 301, 1452, 1740, 1825, 1906
BstKTI GATC 4 cut(s) 1401, 1630, 1842, 1930
BstMAI GTCTC 2 cut(s) 986, 1371
BstMBI GATC 4 cut(s) 1398, 1627, 1839, 1927
BstMWI GCNNNNNNNGC 6 cut(s) 797, 1277, 1392, 1564, 1573, 1596
BstNI CCWGG 2 cut(s) 70, 1103
BstNSI RCATGY 2 cut(s) 880, 1489
BstSCI CCNGG 3 cut(s) 68, 1101, 1549
BstSFI CTRYAG 2 cut(s) 549, 1623
BstV1I GCAGC 3 cut(s) 1283, 1609, 1655
Bsu15I ATCGAT 1 cut(s) 433
BsuRI GGCC 3 cut(s) 669, 1101, 1459
BsuTUI ATCGAT 1 cut(s) 433
BtgZI GCGATG 1 cut(s) 671
BtsCI GGATG 5 cut(s) 301, 1452, 1740, 1825, 1906
BtsI GCAGTG 1 cut(s) 558
BtsIMutI CAGTG 1 cut(s) 558
Cac8I GCNNGC 4 cut(s) 134, 789, 1569, 1677
Cfr13I GGNCC 1 cut(s) 109
ClaI ATCGAT 1 cut(s) 433
Csp6I GTAC 5 cut(s) 271, 400, 880, 1340, 1895
CviQI GTAC 5 cut(s) 271, 400, 880, 1340, 1895
DdeI CTNAG 6 cut(s) 384, 601, 1512, 1542, 1868, 1924
DpnI GATC 4 cut(s) 1400, 1629, 1841, 1929
DpnII GATC 4 cut(s) 1398, 1627, 1839, 1927
Eam1104I CTCTTC 2 cut(s) 63, 1314
EarI CTCTTC 2 cut(s) 63, 1314
Eco130I CCWWGG 1 cut(s) 1454
Eco147I AGGCCT 1 cut(s) 1101
Eco24I GRGCYC 1 cut(s) 764
Eco32I GATATC 1 cut(s) 357
Eco47I GGWCC 1 cut(s) 109
Eco57I CTGAAG 2 cut(s) 1017, 1716
Eco88I CYCGRG 1 cut(s) 224
EcoRI GAATTC 1 cut(s) 1258
EcoRII CCWGG 2 cut(s) 68, 1101
EcoRV GATATC 1 cut(s) 357
EcoT14I CCWWGG 1 cut(s) 1454
EcoT22I ATGCAT 3 cut(s) 513, 910, 1827
EcoT38I GRGCYC 1 cut(s) 764
ErhI CCWWGG 1 cut(s) 1454
FalI AAGNNNNNCTT 2 cut(s) 1560, 1592
FaqI GGGAC 1 cut(s) 1641
FauI CCCGC 4 cut(s) 408, 460, 793, 1666
FauNDI CATATG 1 cut(s) 1666
Fnu4HI GCNGC 3 cut(s) 1272, 1623, 1644
FokI GGATG 5 cut(s) 308, 1459, 1747, 1812, 1913
FriOI GRGCYC 1 cut(s) 764
Fsp4HI GCNGC 3 cut(s) 1272, 1623, 1644
GluI GCNGC 3 cut(s) 1272, 1623, 1644
GsuI CTGGAG 1 cut(s) 1223
HaeIII GGCC 3 cut(s) 669, 1101, 1459
HapII CCGG 2 cut(s) 1551, 1898
HincII GTYRAC 1 cut(s) 1483
HindII GTYRAC 1 cut(s) 1483
HinfI GANTC 8 cut(s) 229, 380, 419, 923, 1208, 1450, 1546, 1654
HpaII CCGG 2 cut(s) 1551, 1898
HphI GGTGA 1 cut(s) 1826
Hpy166II GTNNAC 4 cut(s) 76, 927, 1224, 1483
Hpy188I TCNGA 6 cut(s) 94, 385, 847, 1422, 1696, 1800
Hpy188III TCNNGA 4 cut(s) 287, 780, 1006, 1931
Hpy8I GTNNAC 4 cut(s) 76, 927, 1224, 1483
Hpy99I CGWCG 1 cut(s) 317
HpyAV CCTTC 6 cut(s) 697, 1021, 1328, 1691, 1695, 1732
HpyCH4III ACNGT 2 cut(s) 337, 958
HpyCH4IV ACGT 1 cut(s) 752
HpyF10VI GCNNNNNNNGC 6 cut(s) 797, 1277, 1392, 1564, 1573, 1596
HpyF3I CTNAG 6 cut(s) 384, 601, 1512, 1542, 1868, 1924
HpySE526I ACGT 1 cut(s) 752
Kzo9I GATC 4 cut(s) 1398, 1627, 1839, 1927
Lsp1109I GCAGC 3 cut(s) 1283, 1609, 1655
LweI GCATC 7 cut(s) 286, 498, 708, 814, 895, 1314, 1834
MaeII ACGT 1 cut(s) 752
MaeIII GTNAC 3 cut(s) 161, 491, 1159
MalI GATC 4 cut(s) 1400, 1629, 1841, 1929
MboI GATC 4 cut(s) 1398, 1627, 1839, 1927
MboII GAAGA 8 cut(s) 36, 50, 171, 914, 944, 1331, 1448, 1544
MfeI CAATTG 2 cut(s) 170, 1310
MhlI GDGCHC 1 cut(s) 764
MlyI GAGTC 5 cut(s) 389, 428, 932, 1459, 1663
MmeI TCCRAC 1 cut(s) 1754
Mph1103I ATGCAT 3 cut(s) 513, 910, 1827
MroXI GAANNNNTTC 1 cut(s) 683
MseI TTAA 4 cut(s) 201, 303, 1124, 1728
MslI CAYNNNNRTG 3 cut(s) 123, 1229, 1290
MspCI CTTAAG 1 cut(s) 200
MspI CCGG 2 cut(s) 1551, 1898
MspR9I CCNGG 3 cut(s) 70, 1103, 1551
MunI CAATTG 2 cut(s) 170, 1310
Mva1269I GAATGC 5 cut(s) 417, 565, 748, 1236, 1590
MvaI CCWGG 2 cut(s) 70, 1103
MwoI GCNNNNNNNGC 6 cut(s) 797, 1277, 1392, 1564, 1573, 1596
NciI CCSGG 1 cut(s) 1551
NdeI CATATG 1 cut(s) 1666
NdeII GATC 4 cut(s) 1398, 1627, 1839, 1927
NlaIV GGNNCC 1 cut(s) 738
NmeAIII GCCGAG 2 cut(s) 80, 739
NmuCI GTSAC 1 cut(s) 161
NsiI ATGCAT 3 cut(s) 513, 910, 1827
NspI RCATGY 2 cut(s) 880, 1489
PceI AGGCCT 1 cut(s) 1101
PciI ACATGT 2 cut(s) 876, 1485
PctI GAATGC 5 cut(s) 417, 565, 748, 1236, 1590
PdmI GAANNNNTTC 1 cut(s) 683
PfeI GAWTC 3 cut(s) 229, 1208, 1546
PkrI GCNGC 3 cut(s) 1273, 1624, 1645
PleI GAGTC 5 cut(s) 388, 427, 931, 1458, 1662
PpsI GAGTC 5 cut(s) 388, 427, 931, 1458, 1662
PscI ACATGT 2 cut(s) 876, 1485
PsiI TTATAA 2 cut(s) 1149, 1175
Psp6I CCWGG 2 cut(s) 68, 1101
PspGI CCWGG 2 cut(s) 68, 1101
PspN4I GGNNCC 1 cut(s) 738
PspPI GGNCC 1 cut(s) 109
PstI CTGCAG 2 cut(s) 553, 1627
RsaI GTAC 5 cut(s) 272, 401, 881, 1341, 1896
RsaNI GTAC 5 cut(s) 271, 400, 880, 1340, 1895
RseI CAYNNNNRTG 3 cut(s) 123, 1229, 1290
SaqAI TTAA 4 cut(s) 201, 303, 1124, 1728
SatI GCNGC 3 cut(s) 1272, 1623, 1644
Sau3AI GATC 4 cut(s) 1398, 1627, 1839, 1927
Sau96I GGNCC 1 cut(s) 109
SchI GAGTC 5 cut(s) 389, 428, 932, 1459, 1663
ScrFI CCNGG 3 cut(s) 70, 1103, 1551
SduI GDGCHC 1 cut(s) 764
SfaNI GCATC 7 cut(s) 286, 498, 708, 814, 895, 1314, 1834
SfcI CTRYAG 2 cut(s) 549, 1623
SinI GGWCC 1 cut(s) 109
SmiMI CAYNNNNRTG 3 cut(s) 123, 1229, 1290
SmlI CTYRAG 1 cut(s) 200
SmoI CTYRAG 1 cut(s) 200
SseBI AGGCCT 1 cut(s) 1101
SsiI CCGC 5 cut(s) 415, 467, 721, 800, 1659
SspI AATATT 1 cut(s) 918
StuI AGGCCT 1 cut(s) 1101
StyD4I CCNGG 3 cut(s) 68, 1101, 1549
StyI CCWWGG 1 cut(s) 1454
TaaI ACNGT 2 cut(s) 337, 958
TaiI ACGT 1 cut(s) 755
TaqI TCGA 5 cut(s) 123, 312, 433, 1228, 1401
TatI WGTACW 2 cut(s) 270, 879
TfiI GAWTC 3 cut(s) 229, 1208, 1546
Tru1I TTAA 4 cut(s) 201, 303, 1124, 1728
Tru9I TTAA 4 cut(s) 201, 303, 1124, 1728
TscAI CASTG 1 cut(s) 558
TseFI GTSAC 1 cut(s) 161
TseI GCWGC 3 cut(s) 1271, 1622, 1643
Tsp45I GTSAC 1 cut(s) 161
TspRI CASTG 1 cut(s) 558
Vha464I CTTAAG 1 cut(s) 200
VpaK11BI GGWCC 1 cut(s) 109
XapI RAATTY 5 cut(s) 212, 810, 1138, 1258, 1522
XceI RCATGY 2 cut(s) 880, 1489
XmnI GAANNNNTTC 1 cut(s) 683
Zsp2I ATGCAT 3 cut(s) 513, 910, 1827
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.