RLG00000009580

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0016816
Physical Location & Seq
Reverse (-)
54880799 .. 54882679
1881 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009580

Sequence Viewer

Length: 1881 bp
ATGAGCCTCTCAGCTACACGCAAGACATTTACCCTCAAAACCTTACGATATTACACTTGTACCACTGCGCACCACCAGCCTACGAACCTCCACCACTTTCTTCAGCTCTCAATCACACAATGCTCTCTTCCACTCGCTCAACAATCCCACGCGCGAGTCCTCACTCATGGCCTCCACCAAAACCGTTTCATCGCCACCAAGCTCATCTCCGCTTACGCTCTGTTCAACCACCCAACCAAGTCCAAACTCGTCTTCGACTCAATTGAGCCCAAGAATGTGTATCTTTGGAACTCGTTGATTAATGGGTACGTCAAAACTTGCGTCTACAACGAAGCTTTCAAGTTGTTTGTCGAAATGTGTTGTTGTTGTGACGCATTGCCGGATGAGTATACATTTTCGACAATGGCGAAAGTTTCCGGCGAGGTTGGGGACTTGGTCGCCGGGAAATGGGTTCATGGGAAGAGTGTGAGAGCTGGGTTTGTTACGGATACGGTTGTTGCGAATTCGCTGATGTCTATGTATTGTAAGTGTGGGGAGTTTGGGGAATGTAGGAAGGTGTTTGATGAAATGCCTGAGAGAAATGTGGGGTCTTGGAATGTGTTGATAGCAGGGTGTGGGTTTGATAATGGGATGTTGGAAAGTGCTAAGTGTATGATGAGGAGTGGGTTGAAGCCCGACGGGTTTACTGTTTCGAATCTGTTGGGTTTGTGTGGAGGTGAGGATGTTGGGAAATTGGGTTATGGGAGGGAGCTTCATTGTTATGTTGTGAAGTATGGATTGGATTTGAATTTGGCTTCGGATGTTCATCTTGGGTGTTGTTTGGTTGCTATGTATTGTAGGAGTGGTAGAGTTGATTGGGGGAGACGGGTGTTTGAGCGCATGAAGTGTAGAAATGTATATGCTTGGACAGCGATGGTCAATGGTTATGTGCAGAATGGAGCGTCTGATGAAGGATTGATTCTTTTCCGGAAGATGCAGGTGGAAGATGGGGTAGAACCCAATAGAGTGTCGCTTGTAAGTGTTCTCCCAGCTTGTATTTCACATGCTGGTTTAACGGGTGGGAAACAAATTCATGGGTTTGCTATGAGGAAGGAGATGAATCATGATGTATCTCTATGCAATACTTTGATCGATATGTATTGCAAATGTGGGAGCTTGGATTTTGCAAGGCGAGTCTTTGAGGATGACTCTTTTTGTAAGGATGCAATCTCTTGGAGTTCAATGATATCAGGGTATGGATTACATGGAAGGGGTGAGGAAGCCATTGTTTTGTATAATAAGATGCTTCAGCTTGGAATCAAACCGGATATGATAACCATAGTAGGGGTTCTTTCAGCTTGTGGCAGGTCAGGATTGGTAAATGAAGGCCTTTCAGTCTATAGCTCTGCAACAACTGATTATGGAATTAAACCAACAGTGGAGATATGTGCTTGTGTGGTGGATCTGTTAAGTCGATCAGGAGAGCTTGATCGAGCATTAAATTTCATCAAAATGATGCCTGTAGAACCTGGTCCAAGTGTTTGGGGGGCATTAGTTACTGCTTCTGTATTGCAGGGGAACCATGACATGCAAAATCTAGCTTATAAGTTCCTCATTCAACTAGAACCCGAAAACCCTTCAAATTATATCTCAGCATCAAATTTTCATGCTTCTTCTAGAAGATGGGACGTTGTAGCTGAAACAAGAACAATGATGAAGGACAGAGGTTTGAAGAAGACACCTGGGTGTAGTTGGATTAGCATTACTGGTAAGACTCATTCTTTCTATGTTGCTGATAAAGTACATCCTTGCTGTGATTCGATCTATGAGATGCTTGACTACCTCATTTTAGTAATGAAGGGAGCCCCTGATTCTCATGACTTGGTAGAATATTCAGCCTAG
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

627

Amino Acids

69.35

Weight (kDa)

7.45

Isoelectric Point (pI)

30.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 91 - 136 2.7e-09 PPR repeat family
PPR_2 PF13041 163 - 195 1.7e-06 PPR repeat family
PPR PF01535 166 - 195 8.3e-07 PPR repeat
PPR_2 PF13041 401 - 448 5.6e-09 PPR repeat family
PPR PF01535 403 - 433 1.4e-07 PPR repeat
E_motif PF20431 523 - 579 5.5e-15 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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Orthologous Genes (Group: OG0016816)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g05100
malus_domestica MD13G1224800.v1.1
prunus_persica Prupe.1G051400_v2.0.a1
pyrus_communis pycom13g19840
rosa_chinensis RchiOBHm_Chr4g0396021
rosa_laevigata RLG00000009580
rosa_multiflora Rmu_sc0030438.1_g000001 Rmu_sc0031838.1_g000001
rosa_roxburghii Rroxscaffold_5G00340810
rosa_rugosa Rorug03G0352900
rosa_samantha Rh4BG063500 Rh4CG070100 Rh4DG060000
rosa_wichuraiana Rw4G005240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1584
AarI CACCTGC 1 cut(s) 967
Acc16I TGCGCA 1 cut(s) 69
Acc36I ACCTGC 2 cut(s) 967, 1335
AccI GTMKAC 2 cut(s) 324, 389
AccII CGCG 2 cut(s) 152, 154
AccIII TCCGGA 1 cut(s) 966
AciI CCGC 1 cut(s) 210
AclWI GGATC 1 cut(s) 1449
AcsI RAATTY 5 cut(s) 502, 787, 1068, 1480, 1639
AcuI CTGAAG 2 cut(s) 86, 1271
AfaI GTAC 3 cut(s) 61, 308, 1782
AfiI CCNNNNNNNGG 2 cut(s) 447, 1323
AgsI TTSAA 8 cut(s) 226, 340, 670, 787, 1221, 1598, 1620, 1711
AjnI CCWGG 2 cut(s) 1507, 1720
AjuI GAANNNNNNNTTGG 4 cut(s) 236, 268, 761, 793
AleI CACNNNNGTG 1 cut(s) 1723
Alw26I GTCTC 1 cut(s) 856
AlwI GGATC 1 cut(s) 1449
Aor13HI TCCGGA 1 cut(s) 966
AoxI GGCC 2 cut(s) 169, 1366
ApoI RAATTY 5 cut(s) 502, 787, 1068, 1480, 1639
ArsI GACNNNNNNTTYG 2 cut(s) 306, 338
AseI ATTAAT 1 cut(s) 300
AspLEI GCGC 3 cut(s) 70, 154, 879
AspS9I GGNCC 1 cut(s) 1511
AsuC2I CCSGG 1 cut(s) 442
AsuHPI GGTGA 2 cut(s) 728, 1265
AsuII TTCGAA 1 cut(s) 692
AvaII GGWCC 1 cut(s) 1511
BaeI ACNNNNGTAYC 4 cut(s) 43, 76, 480, 513
BanII GRGCYC 2 cut(s) 270, 1846
BbsI GAAGAC 2 cut(s) 244, 1721
BccI CCATC 3 cut(s) 907, 980, 1656
BciT130I CCWGG 2 cut(s) 1509, 1722
BciVI GTATCC 1 cut(s) 481
BcnI CCSGG 1 cut(s) 442
BcoDI GTCTC 1 cut(s) 856
BfaI CTAG 4 cut(s) 1577, 1601, 1656, 1879
BfmI CTRYAG 2 cut(s) 1378, 1500
BfuAI ACCTGC 2 cut(s) 967, 1335
BfuI GTATCC 1 cut(s) 481
Bme1390I CCNGG 3 cut(s) 442, 1509, 1722
Bme18I GGWCC 1 cut(s) 1511
BmgT120I GGNCC 1 cut(s) 1511
BmiI GGNNCC 2 cut(s) 1559, 1843
BmrFI CCNGG 3 cut(s) 442, 1509, 1722
BmsI GCATC 6 cut(s) 963, 1192, 1272, 1485, 1643, 1800
BpiI GAAGAC 2 cut(s) 244, 1721
BplI GAGNNNNNCTC 2 cut(s) 1172, 1204
Bpu14I TTCGAA 1 cut(s) 692
BpuMI CCSGG 1 cut(s) 442
Bsa29I ATCGAT 1 cut(s) 1131
BsaBI GATNNNNATC 1 cut(s) 804
BsaJI CCNNGG 1 cut(s) 1721
BsaWI WCCGGW 2 cut(s) 966, 1303
Bsc4I CCNNNNNNNGG 2 cut(s) 447, 1323
Bse1I ACTGG 1 cut(s) 1750
Bse3DI GCAATG 1 cut(s) 374
Bse8I GATNNNNATC 1 cut(s) 804
BseAI TCCGGA 1 cut(s) 966
BseBI CCWGG 2 cut(s) 1509, 1722
BseCI ATCGAT 1 cut(s) 1131
BseDI CCNNGG 1 cut(s) 1721
BseGI GGATG 7 cut(s) 388, 636, 727, 805, 1189, 1207, 1783
BseJI GATNNNNATC 1 cut(s) 804
BseLI CCNNNNNNNGG 2 cut(s) 447, 1323
BseMI GCAATG 1 cut(s) 374
BseMII CTCAG 3 cut(s) 24, 564, 1644
BseNI ACTGG 1 cut(s) 1750
BseRI GAGGAG 1 cut(s) 673
BseYI CCCAGC 2 cut(s) 473, 1027
BsgI GTGCAG 1 cut(s) 950
Bsh1236I CGCG 2 cut(s) 152, 154
BshFI GGCC 2 cut(s) 171, 1368
BshVI ATCGAT 1 cut(s) 1131
BsiSI CCGG 5 cut(s) 380, 417, 441, 967, 1304
BslFI GGGAC 2 cut(s) 443, 1679
BslI CCNNNNNNNGG 2 cut(s) 447, 1323
BsmAI GTCTC 1 cut(s) 856
BsmBI CGTCTC 1 cut(s) 856
BsmFI GGGAC 2 cut(s) 443, 1679
BsnI GGCC 2 cut(s) 171, 1368
Bsp119I TTCGAA 1 cut(s) 692
Bsp1286I GDGCHC 2 cut(s) 270, 1846
Bsp13I TCCGGA 1 cut(s) 966
Bsp143I GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
BspACI CCGC 1 cut(s) 210
BspANI GGCC 2 cut(s) 171, 1368
BspCNI CTCAG 3 cut(s) 23, 565, 1643
BspDI ATCGAT 1 cut(s) 1131
BspEI TCCGGA 1 cut(s) 966
BspFNI CGCG 2 cut(s) 152, 154
BspHI TCATGA 2 cut(s) 1102, 1855
BspLI GGNNCC 2 cut(s) 1559, 1843
BspMI ACCTGC 2 cut(s) 967, 1335
BspPI GGATC 1 cut(s) 1449
BspT104I TTCGAA 1 cut(s) 692
BsrDI GCAATG 1 cut(s) 374
BsrI ACTGG 1 cut(s) 1750
BssECI CCNNGG 1 cut(s) 1721
BssMI GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
BssNAI GTATAC 1 cut(s) 390
Bst1107I GTATAC 1 cut(s) 390
Bst2UI CCWGG 2 cut(s) 1509, 1722
Bst4CI ACNGT 4 cut(s) 185, 493, 688, 1417
Bst6I CTCTTC 2 cut(s) 132, 455
BstBI TTCGAA 1 cut(s) 692
BstDEI CTNAG 4 cut(s) 10, 573, 645, 1630
BstF5I GGATG 7 cut(s) 388, 636, 727, 805, 1189, 1207, 1783
BstFNI CGCG 2 cut(s) 152, 154
BstHHI GCGC 3 cut(s) 70, 154, 879
BstKTI GATC 5 cut(s) 1131, 1444, 1457, 1471, 1803
BstMAI GTCTC 1 cut(s) 856
BstMBI GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
BstMWI GCNNNNNNNGC 2 cut(s) 76, 908
BstNI CCWGG 2 cut(s) 1509, 1722
BstNSI RCATGY 2 cut(s) 1046, 1570
BstSCI CCNGG 3 cut(s) 440, 1507, 1720
BstSFI CTRYAG 2 cut(s) 1378, 1500
BstUI CGCG 2 cut(s) 152, 154
BstV2I GAAGAC 2 cut(s) 244, 1721
BstX2I RGATCY 1 cut(s) 1441
BstXI CCANNNNNNTGG 1 cut(s) 1521
BstYI RGATCY 1 cut(s) 1441
BstZ17I GTATAC 1 cut(s) 390
Bsu15I ATCGAT 1 cut(s) 1131
BsuI GTATCC 1 cut(s) 481
BsuRI GGCC 2 cut(s) 171, 1368
BsuTUI ATCGAT 1 cut(s) 1131
BtgZI GCGATG 2 cut(s) 175, 926
BtsCI GGATG 7 cut(s) 388, 636, 727, 805, 1189, 1207, 1783
BtsI GCAGTG 1 cut(s) 63
BtsIMutI CAGTG 2 cut(s) 63, 1422
BveI ACCTGC 2 cut(s) 967, 1335
CciI TCATGA 2 cut(s) 1102, 1855
CfoI GCGC 3 cut(s) 70, 154, 879
Cfr13I GGNCC 1 cut(s) 1511
ClaI ATCGAT 1 cut(s) 1131
CseI GACGC 3 cut(s) 310, 380, 930
CsiI ACCWGGT 1 cut(s) 1507
Csp6I GTAC 3 cut(s) 60, 307, 1781
CviQI GTAC 3 cut(s) 60, 307, 1781
DdeI CTNAG 4 cut(s) 10, 573, 645, 1630
DpnI GATC 5 cut(s) 1130, 1443, 1456, 1470, 1802
DpnII GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
Eam1104I CTCTTC 2 cut(s) 132, 455
EarI CTCTTC 2 cut(s) 132, 455
Eco147I AGGCCT 1 cut(s) 1368
Eco24I GRGCYC 2 cut(s) 270, 1846
Eco32I GATATC 1 cut(s) 1227
Eco47I GGWCC 1 cut(s) 1511
Eco57I CTGAAG 2 cut(s) 86, 1271
EcoRI GAATTC 1 cut(s) 502
EcoRII CCWGG 2 cut(s) 1507, 1720
EcoRV GATATC 1 cut(s) 1227
EcoT38I GRGCYC 2 cut(s) 270, 1846
Esp3I CGTCTC 1 cut(s) 856
FaqI GGGAC 2 cut(s) 443, 1679
FblI GTMKAC 2 cut(s) 324, 389
FokI GGATG 7 cut(s) 395, 643, 734, 812, 1196, 1214, 1770
FriOI GRGCYC 2 cut(s) 270, 1846
FspBI CTAG 4 cut(s) 1577, 1601, 1656, 1879
FspI TGCGCA 1 cut(s) 69
GlaI GCGC 3 cut(s) 69, 153, 878
GsaI CCCAGC 2 cut(s) 477, 1031
HaeIII GGCC 2 cut(s) 171, 1368
HapII CCGG 5 cut(s) 380, 417, 441, 967, 1304
HgaI GACGC 3 cut(s) 310, 380, 930
HhaI GCGC 3 cut(s) 70, 154, 879
Hin6I GCGC 3 cut(s) 68, 152, 877
HinP1I GCGC 3 cut(s) 68, 152, 877
HindIII AAGCTT 1 cut(s) 333
HpaII CCGG 5 cut(s) 380, 417, 441, 967, 1304
HphI GGTGA 2 cut(s) 728, 1265
Hpy166II GTNNAC 3 cut(s) 325, 390, 684
Hpy188I TCNGA 2 cut(s) 799, 946
Hpy188III TCNNGA 6 cut(s) 967, 1103, 1350, 1458, 1656, 1856
Hpy8I GTNNAC 3 cut(s) 325, 390, 684
Hpy99I CGWCG 1 cut(s) 680
HpyAV CCTTC 8 cut(s) 547, 944, 1084, 1242, 1358, 1626, 1690, 1831
HpyCH4III ACNGT 4 cut(s) 185, 493, 688, 1417
HpyCH4IV ACGT 2 cut(s) 309, 1668
HpyCH4V TGCA 9 cut(s) 931, 976, 1119, 1143, 1166, 1205, 1388, 1552, 1570
HpyF10VI GCNNNNNNNGC 2 cut(s) 76, 908
HpyF3I CTNAG 4 cut(s) 10, 573, 645, 1630
HpySE526I ACGT 2 cut(s) 309, 1668
HspAI GCGC 3 cut(s) 68, 152, 877
Kpn2I TCCGGA 1 cut(s) 966
Kzo9I GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
LmnI GCTCC 4 cut(s) 748, 938, 1152, 1841
LweI GCATC 6 cut(s) 963, 1192, 1272, 1485, 1643, 1800
MabI ACCWGGT 1 cut(s) 1507
MaeI CTAG 4 cut(s) 1577, 1601, 1656, 1879
MaeII ACGT 2 cut(s) 309, 1668
MaeIII GTNAC 3 cut(s) 368, 481, 1534
MalI GATC 5 cut(s) 1130, 1443, 1456, 1470, 1802
MboI GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
MfeI CAATTG 1 cut(s) 261
MflI RGATCY 1 cut(s) 1441
MhlI GDGCHC 2 cut(s) 270, 1846
MluCI AATT 9 cut(s) 261, 502, 731, 787, 1068, 1404, 1480, 1621, 1639
MlyI GAGTC 5 cut(s) 165, 251, 1181, 1182, 1747
MmeI TCCRAC 2 cut(s) 615, 1712
MroI TCCGGA 1 cut(s) 966
MseI TTAA 5 cut(s) 300, 1052, 1407, 1448, 1478
MslI CAYNNNNRTG 3 cut(s) 759, 1490, 1723
MspI CCGG 5 cut(s) 380, 417, 441, 967, 1304
MspR9I CCNGG 3 cut(s) 442, 1509, 1722
MunI CAATTG 1 cut(s) 261
MvaI CCWGG 2 cut(s) 1509, 1722
MvnI CGCG 2 cut(s) 152, 154
MwoI GCNNNNNNNGC 2 cut(s) 76, 908
NciI CCSGG 1 cut(s) 442
NdeII GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
NlaIV GGNNCC 2 cut(s) 1559, 1843
NmuCI GTSAC 1 cut(s) 368
NsbI TGCGCA 1 cut(s) 69
NspI RCATGY 2 cut(s) 1046, 1570
NspV TTCGAA 1 cut(s) 692
OliI CACNNNNGTG 1 cut(s) 1723
PagI TCATGA 2 cut(s) 1102, 1855
PaqCI CACCTGC 1 cut(s) 967
PceI AGGCCT 1 cut(s) 1368
PcsI WCGNNNNNNNCGW 2 cut(s) 404, 497
PfeI GAWTC 6 cut(s) 694, 958, 1099, 1296, 1796, 1850
PflFI GACNNNGTC 1 cut(s) 434
PleI GAGTC 5 cut(s) 164, 251, 1181, 1181, 1747
PpsI GAGTC 5 cut(s) 164, 251, 1181, 1181, 1747
PshBI ATTAAT 1 cut(s) 300
PsiI TTATAA 1 cut(s) 1584
Psp6I CCWGG 2 cut(s) 1507, 1720
PspFI CCCAGC 2 cut(s) 473, 1027
PspGI CCWGG 2 cut(s) 1507, 1720
PspN4I GGNNCC 2 cut(s) 1559, 1843
PspPI GGNCC 1 cut(s) 1511
PsuI RGATCY 1 cut(s) 1441
PsyI GACNNNGTC 1 cut(s) 434
RsaI GTAC 3 cut(s) 61, 308, 1782
RsaNI GTAC 3 cut(s) 60, 307, 1781
RseI CAYNNNNRTG 3 cut(s) 759, 1490, 1723
SaqAI TTAA 5 cut(s) 300, 1052, 1407, 1448, 1478
Sau3AI GATC 5 cut(s) 1128, 1441, 1454, 1468, 1800
Sau96I GGNCC 1 cut(s) 1511
SchI GAGTC 5 cut(s) 165, 251, 1181, 1182, 1747
ScrFI CCNGG 3 cut(s) 442, 1509, 1722
SduI GDGCHC 2 cut(s) 270, 1846
SexAI ACCWGGT 1 cut(s) 1507
SfaNI GCATC 6 cut(s) 963, 1192, 1272, 1485, 1643, 1800
SfcI CTRYAG 2 cut(s) 1378, 1500
SfuI TTCGAA 1 cut(s) 692
SinI GGWCC 1 cut(s) 1511
SmiMI CAYNNNNRTG 3 cut(s) 759, 1490, 1723
Sse9I AATT 9 cut(s) 261, 502, 731, 787, 1068, 1404, 1480, 1621, 1639
SseBI AGGCCT 1 cut(s) 1368
SsiI CCGC 1 cut(s) 210
SspI AATATT 1 cut(s) 1871
SspMI CTAG 4 cut(s) 1577, 1601, 1656, 1879
StuI AGGCCT 1 cut(s) 1368
StyD4I CCNGG 3 cut(s) 440, 1507, 1720
TaaI ACNGT 4 cut(s) 185, 493, 688, 1417
TaiI ACGT 2 cut(s) 312, 1671
TaqI TCGA 8 cut(s) 255, 351, 398, 692, 1131, 1453, 1471, 1799
TasI AATT 9 cut(s) 261, 502, 731, 787, 1068, 1404, 1480, 1621, 1639
TatI WGTACW 1 cut(s) 1780
TfiI GAWTC 6 cut(s) 694, 958, 1099, 1296, 1796, 1850
Tru1I TTAA 5 cut(s) 300, 1052, 1407, 1448, 1478
Tru9I TTAA 5 cut(s) 300, 1052, 1407, 1448, 1478
TscAI CASTG 2 cut(s) 70, 1422
TseFI GTSAC 1 cut(s) 368
Tsp45I GTSAC 1 cut(s) 368
TspGWI ACGGA 1 cut(s) 500
TspRI CASTG 2 cut(s) 70, 1422
Tth111I GACNNNGTC 1 cut(s) 434
VpaK11BI GGWCC 1 cut(s) 1511
VspI ATTAAT 1 cut(s) 300
XapI RAATTY 5 cut(s) 502, 787, 1068, 1480, 1639
XbaI TCTAGA 1 cut(s) 1655
XceI RCATGY 2 cut(s) 1046, 1570
XmiI GTMKAC 2 cut(s) 324, 389
XspI CTAG 4 cut(s) 1577, 1601, 1656, 1879
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.