Rh3CG178500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0015655
Physical Location & Seq
Forward (+)
15687353 .. 15689946
2594 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG178500.1

Sequence Viewer

Length: 1857 bp
ATGGAGTCTCTAGGATTGGCGCCGGATAACTCCTCTCTCCCTCTCGTTCTCAAGGCCTGTGCGCGGCTGAGCGCCGTCGAGAGAGGGAAGGGGATACATTCGAGTATTCGGAACTCGGGTTTGGATAAAGATGTGAGGATTGGGACTGCCCTTGTTGATTTCTACTGCAAAAGTGGGCTCATTGACGATGCAGTGGAGGTGTTTGATGCAATGTGTGAGAGAGATTTGGTTCTGTGGAATGCTTTGATTCATGGGTGTGTCGGGTGTGGTTGTTATCAAGAGGCTATATGCTTGTTTAGGGAGATGCAGAGTGAGGGGTTGAAGCCGAATTCGCGCAGTGTCGTTGCATTGCTTTTGGCTTGTAGGGAGGTTGCGGAGTTGAGATGTGGGAAAGAGATACATGGCTATGGTTTGAGGAATGGATTGCTTGATTTGGATGCTCATGTGGGGACTGCTTTGATTGGGTTTTATATGAGATTTGATGTCAGAATGTCGCATCTTACATTTGATTCGATGGTTGTGAGGAATGTTGTTAGTTCGAATGCAATAATTACAGGGTATGTTGATGTTGGGGAGTACTTGATGGCGGTGAAGCTTTTCGTGCAGTTGCTTGTGGACGGGGTTGAGTTTGACTCTGTTTCGATGTTGGTTGTGATTCAGGCTTGTGCGAAAATTGGATCTGTTGAATTGGCTAGGCAAATTCATCAGATGGCTATGAAGTACAGCTACAGCAGTGATCTTTTCATTGTAAATGCATTGCTGAATATGTATAGTGAGTGTGGACGTATTGAATTATCGCGTGCATTATTTGAAACTGTCCCAAACCGTGATGTAGCTTTGTGGAATTCCATGCTAGCTGCATACAGTGAATATGGTTTTTATGAGGAAGCCATGAACTTATTTTTGAAAATGCGAACAGAAGGAATCGTGGAAGATCAAAGAACTGTTTATATAATGTTGTTGTTATGTGAAGAAATATCTGAAGGCTTGATAGAGGGGAAAAGCTTGCATGCTCTTGCGCTCAAGAGTGGGATGGAAATGGATGTTTCTCTCGGAAATACATTGTTAAGTATGTATGCTGAATTTAACTGTGTGCAGTCTGTTAAGAAGGTTTTTGCTGAGATGAAAGGTGCAGATGTTATATCATGGAACATTTTGATCAGGGCATTGGCCTGCAATGGATTGCGAGATGAAGCATGGGAAACATTTGGTGTCATGCGAGAATCTGGAACCAAGCCAAACTCGCACACCATAATATCTGTCCTCGCTACTTTTGAAGCTGACACTAGTGTAAATACAGTGCGAGCAATTCATGGTTTTGTAATGAAACATGGTATTGAAGTTGACCCATCTTTGAATACTGCACTAACAGATATATACATGAATAGTGGTGATGAAGCAGCAGCTAGGATTCTATTTGAGAACTGCCCCTATAAAGATGTGATCTCATGGAATGCTATAATTGCCGGTTACGTCAGAAACAATGAAAGCAATGAAGCTCGGTTACTTTTCAACCGTATGATTTCAGAAGTCAAACCCAACTCTGTCACGATCATAAGTATTCTCTCATCATGTACCCAAGTTGCATCTCTGTCTCTAGGTCAATGCTTGCATGCTTATGCAACTAGGAGGCAATTCTCATTTGACTTCGATTTGTCCCTTGCAAATGCTTTTATATCCATGTACGCTAGAAGCGGTAGTATGCAAAATGCTGAAAAGATCTTTAAGAGTTTGCCAACGAGAAATGTTATATCATGGAATTCCTTGATAACTGGCTACAGCATGCACGGTCATGGATATGATGCTATTCTTGTGTTCCAACAAATGCTTGAAGAGCAATTCCCTGAGATGCTGTGA
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
DYW_deaminase PPR PPR_2

Protein Analysis

618

Amino Acids

68.59

Weight (kDa)

5.22

Isoelectric Point (pI)

38.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 75 - 120 9.6e-10 PPR repeat family
PPR PF01535 77 - 107 5.9e-07 PPR repeat
PPR_2 PF13041 175 - 224 1.6e-06 PPR repeat family
PPR_2 PF13041 277 - 320 6.1e-06 PPR repeat family
PPR PF01535 281 - 309 4.4e-06 PPR repeat
PPR_2 PF13041 379 - 420 1.4e-08 PPR repeat family
PPR_2 PF13041 479 - 525 1.7e-08 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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Orthologous Genes (Group: OG0015655)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g16860
malus_domestica MD12G1106700.v1.1
prunus_persica Prupe.7G125600_v2.0.a1
pyrus_communis pycom12g10720
rosa_chinensis RchiOBHm_Chr3g0470881
rosa_laevigata RLG00000024237
rosa_multiflora Rmu_sc0013860.1_g000005
rosa_roxburghii Rroxscaffold_1G00027940 Rroxscaffold_4G00331780 Rroxscaffold_6G00410450
rosa_rugosa Rorug03G0113300
rosa_samantha Rh3AG163100 Rh3BG188500 Rh3CG178500 Rh3DG187600
rosa_wichuraiana Rw3G015360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 19
AccII CGCG 3 cut(s) 64, 334, 799
AciI CCGC 4 cut(s) 64, 374, 587, 1695
AclWI GGATC 1 cut(s) 685
AcsI RAATTY 5 cut(s) 328, 699, 844, 1082, 1759
AcuI CTGAAG 1 cut(s) 1002
AcyI GRCGYC 1 cut(s) 20
AfaI GTAC 4 cut(s) 578, 722, 1576, 1685
AfiI CCNNNNNNNGG 1 cut(s) 63
AhlI ACTAGT 1 cut(s) 1286
AjuI GAANNNNNNNTTGG 2 cut(s) 104, 136
AluBI AGCT 8 cut(s) 595, 726, 836, 857, 1005, 1280, 1406, 1499
AluI AGCT 8 cut(s) 595, 726, 836, 857, 1005, 1280, 1406, 1499
Alw26I GTCTC 2 cut(s) 12, 1599
AlwI GGATC 1 cut(s) 685
Ama87I CYCGRG 1 cut(s) 115
AoxI GGCC 2 cut(s) 54, 1170
ApeKI GCWGC 3 cut(s) 857, 1400, 1403
ApoI RAATTY 5 cut(s) 328, 699, 844, 1082, 1759
Asp700I GAANNNNTTC 1 cut(s) 596
AspLEI GCGC 5 cut(s) 22, 64, 74, 336, 1021
AsuHPI GGTGA 2 cut(s) 601, 1403
AsuII TTCGAA 1 cut(s) 539
AsuNHI GCTAGC 1 cut(s) 853
AvaI CYCGRG 1 cut(s) 115
BanI GGYRCC 1 cut(s) 19
BanII GRGCYC 1 cut(s) 180
BarI GAAGNNNNNNTAC 4 cut(s) 710, 742, 1488, 1520
BbvI GCAGC 3 cut(s) 844, 1412, 1415
BccI CCATC 5 cut(s) 508, 577, 703, 1027, 1357
BceAI ACGGC 1 cut(s) 59
BciVI GTATCC 1 cut(s) 87
BclI TGATCA 1 cut(s) 1158
BcoDI GTCTC 2 cut(s) 12, 1599
BcuI ACTAGT 1 cut(s) 1286
BfaI CTAG 8 cut(s) 11, 693, 854, 1287, 1407, 1598, 1626, 1689
BfmI CTRYAG 2 cut(s) 727, 1777
BfoI RGCGCY 2 cut(s) 23, 75
BfuI GTATCC 1 cut(s) 87
BglII AGATCT 1 cut(s) 1719
BisI GCNGC 4 cut(s) 65, 858, 1401, 1404
BlpI GCTNAGC 1 cut(s) 68
BlsI GCNGC 4 cut(s) 66, 859, 1402, 1405
BmcAI AGTACT 1 cut(s) 578
BmeT110I CYCGRG 1 cut(s) 115
BmiI GGNNCC 2 cut(s) 21, 1231
BmsI GCATC 8 cut(s) 178, 196, 294, 427, 505, 1595, 1792, 1839
BmtI GCTAGC 1 cut(s) 857
BplI GAGNNNNNCTC 2 cut(s) 617, 649
Bpu1102I GCTNAGC 1 cut(s) 68
Bpu14I TTCGAA 1 cut(s) 539
BpuEI CTTGAG 2 cut(s) 35, 1007
BsaHI GRCGYC 1 cut(s) 20
Bsc4I CCNNNNNNNGG 1 cut(s) 63
Bse118I RCCGGY 1 cut(s) 1466
Bse1I ACTGG 1 cut(s) 1777
Bse3DI GCAATG 5 cut(s) 216, 347, 755, 1183, 1498
BseGI GGATG 3 cut(s) 442, 1038, 1048
BseLI CCNNNNNNNGG 1 cut(s) 63
BseMI GCAATG 5 cut(s) 216, 347, 755, 1183, 1498
BseMII CTCAG 3 cut(s) 59, 1110, 1836
BseNI ACTGG 1 cut(s) 1777
BseRI GAGGAG 1 cut(s) 22
BseXI GCAGC 3 cut(s) 844, 1412, 1415
BsgI GTGCAG 4 cut(s) 623, 1115, 1152, 1347
Bsh1236I CGCG 3 cut(s) 64, 334, 799
BshFI GGCC 2 cut(s) 56, 1172
BshNI GGYRCC 1 cut(s) 19
BsiHKCI CYCGRG 1 cut(s) 115
BsiSI CCGG 2 cut(s) 23, 1467
BslFI GGGAC 4 cut(s) 157, 463, 803, 1642
BslI CCNNNNNNNGG 1 cut(s) 63
BsmAI GTCTC 2 cut(s) 12, 1599
BsmFI GGGAC 4 cut(s) 157, 463, 803, 1642
BsmI GAATGC 3 cut(s) 244, 547, 1459
BsnI GGCC 2 cut(s) 56, 1172
BsoBI CYCGRG 1 cut(s) 115
Bsp119I TTCGAA 1 cut(s) 539
Bsp1286I GDGCHC 1 cut(s) 180
Bsp143I GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
Bsp1720I GCTNAGC 1 cut(s) 68
BspACI CCGC 4 cut(s) 64, 374, 587, 1695
BspANI GGCC 2 cut(s) 56, 1172
BspCNI CTCAG 3 cut(s) 60, 1111, 1837
BspFNI CGCG 3 cut(s) 64, 334, 799
BspLI GGNNCC 2 cut(s) 21, 1231
BspOI GCTAGC 1 cut(s) 857
BspPI GGATC 1 cut(s) 685
BspQI GCTCTTC 1 cut(s) 1827
BspT104I TTCGAA 1 cut(s) 539
BspT107I GGYRCC 1 cut(s) 19
BsrDI GCAATG 5 cut(s) 216, 347, 755, 1183, 1498
BsrFI RCCGGY 1 cut(s) 1466
BsrI ACTGG 1 cut(s) 1777
BssAI RCCGGY 1 cut(s) 1466
BssMI GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
BssNI GRCGYC 1 cut(s) 20
Bst4CI ACNGT 8 cut(s) 817, 827, 866, 946, 1091, 1300, 1517, 1790
Bst6I CTCTTC 1 cut(s) 1827
BstACI GRCGYC 1 cut(s) 20
BstBI TTCGAA 1 cut(s) 539
BstC8I GCNNGC 9 cut(s) 801, 855, 1007, 1011, 1174, 1305, 1610, 1614, 1784
BstDEI CTNAG 3 cut(s) 68, 1119, 1845
BstF5I GGATG 3 cut(s) 442, 1038, 1048
BstFNI CGCG 3 cut(s) 64, 334, 799
BstH2I RGCGCY 2 cut(s) 23, 75
BstHHI GCGC 5 cut(s) 22, 64, 74, 336, 1021
BstKTI GATC 7 cut(s) 680, 739, 937, 1161, 1446, 1554, 1722
BstMAI GTCTC 2 cut(s) 12, 1599
BstMBI GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
BstMWI GCNNNNNNNGC 5 cut(s) 331, 601, 1243, 1463, 1834
BstNSI RCATGY 3 cut(s) 1013, 1616, 1786
BstSFI CTRYAG 2 cut(s) 727, 1777
BstUI CGCG 3 cut(s) 64, 334, 799
BstV1I GCAGC 3 cut(s) 844, 1412, 1415
BstX2I RGATCY 2 cut(s) 677, 1719
BstYI RGATCY 2 cut(s) 677, 1719
BsuI GTATCC 1 cut(s) 87
BsuRI GGCC 2 cut(s) 56, 1172
BtsCI GGATG 3 cut(s) 442, 1038, 1048
BtsI GCAGTG 3 cut(s) 198, 343, 739
BtsIMutI CAGTG 5 cut(s) 198, 343, 739, 871, 1305
Cac8I GCNNGC 9 cut(s) 801, 855, 1007, 1011, 1174, 1305, 1610, 1614, 1784
CfoI GCGC 5 cut(s) 22, 64, 74, 336, 1021
Cfr10I RCCGGY 1 cut(s) 1466
Csp6I GTAC 4 cut(s) 577, 721, 1575, 1684
CviQI GTAC 4 cut(s) 577, 721, 1575, 1684
DdeI CTNAG 3 cut(s) 68, 1119, 1845
DinI GGCGCC 1 cut(s) 21
DpnI GATC 7 cut(s) 679, 738, 936, 1160, 1445, 1553, 1721
DpnII GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
Eam1104I CTCTTC 1 cut(s) 1827
EarI CTCTTC 1 cut(s) 1827
Eco147I AGGCCT 1 cut(s) 56
Eco24I GRGCYC 1 cut(s) 180
Eco57I CTGAAG 1 cut(s) 1002
Eco88I CYCGRG 1 cut(s) 115
EcoRI GAATTC 3 cut(s) 328, 844, 1759
EcoT22I ATGCAT 1 cut(s) 757
EcoT38I GRGCYC 1 cut(s) 180
EgeI GGCGCC 1 cut(s) 21
EheI GGCGCC 1 cut(s) 21
FaqI GGGAC 4 cut(s) 157, 463, 803, 1642
FbaI TGATCA 1 cut(s) 1158
Fnu4HI GCNGC 4 cut(s) 65, 858, 1401, 1404
FokI GGATG 3 cut(s) 449, 1045, 1055
FriOI GRGCYC 1 cut(s) 180
Fsp4HI GCNGC 4 cut(s) 65, 858, 1401, 1404
FspBI CTAG 8 cut(s) 11, 693, 854, 1287, 1407, 1598, 1626, 1689
GlaI GCGC 5 cut(s) 21, 63, 73, 335, 1020
GluI GCNGC 4 cut(s) 65, 858, 1401, 1404
HaeII RGCGCY 2 cut(s) 23, 75
HaeIII GGCC 2 cut(s) 56, 1172
HapII CCGG 2 cut(s) 23, 1467
HhaI GCGC 5 cut(s) 22, 64, 74, 336, 1021
Hin1I GRCGYC 1 cut(s) 20
Hin6I GCGC 5 cut(s) 20, 62, 72, 334, 1019
HinP1I GCGC 5 cut(s) 20, 62, 72, 334, 1019
HincII GTYRAC 1 cut(s) 1345
HindII GTYRAC 1 cut(s) 1345
HindIII AAGCTT 2 cut(s) 593, 1003
HinfI GANTC 8 cut(s) 5, 247, 509, 632, 655, 924, 1223, 1411
HpaII CCGG 2 cut(s) 23, 1467
HphI GGTGA 2 cut(s) 601, 1403
Hpy166II GTNNAC 3 cut(s) 616, 782, 1345
Hpy188I TCNGA 7 cut(s) 111, 488, 708, 982, 1055, 1478, 1528
Hpy188III TCNNGA 5 cut(s) 79, 278, 1024, 1227, 1549
Hpy8I GTNNAC 3 cut(s) 616, 782, 1345
Hpy99I CGWCG 1 cut(s) 80
HpyAV CCTTC 4 cut(s) 82, 914, 977, 1102
HpyCH4III ACNGT 8 cut(s) 817, 827, 866, 946, 1091, 1300, 1517, 1790
HpyCH4IV ACGT 2 cut(s) 784, 1473
HpyF10VI GCNNNNNNNGC 5 cut(s) 331, 601, 1243, 1463, 1834
HpyF3I CTNAG 3 cut(s) 68, 1119, 1845
HpySE526I ACGT 2 cut(s) 784, 1473
Hsp92I GRCGYC 1 cut(s) 20
HspAI GCGC 5 cut(s) 20, 62, 72, 334, 1019
KasI GGCGCC 1 cut(s) 19
Ksp22I TGATCA 1 cut(s) 1158
Kzo9I GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
LguI GCTCTTC 1 cut(s) 1827
LpnPI CCDG 9 cut(s) 36, 70, 540, 644, 1147, 1186, 1212, 1480, 1758
Lsp1109I GCAGC 3 cut(s) 844, 1412, 1415
LweI GCATC 8 cut(s) 178, 196, 294, 427, 505, 1595, 1792, 1839
MaeI CTAG 8 cut(s) 11, 693, 854, 1287, 1407, 1598, 1626, 1689
MaeII ACGT 2 cut(s) 784, 1473
MaeIII GTNAC 3 cut(s) 1469, 1503, 1546
MalI GATC 7 cut(s) 679, 738, 936, 1160, 1445, 1553, 1721
MboI GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
MboII GAAGA 3 cut(s) 944, 983, 1844
MflI RGATCY 2 cut(s) 677, 1719
MhlI GDGCHC 1 cut(s) 180
Mly113I GGCGCC 1 cut(s) 20
MlyI GAGTC 2 cut(s) 14, 626
MmeI TCCRAC 1 cut(s) 1843
Mph1103I ATGCAT 1 cut(s) 757
MroXI GAANNNNTTC 1 cut(s) 596
MseI TTAA 4 cut(s) 1067, 1086, 1104, 1725
MslI CAYNNNNRTG 5 cut(s) 255, 405, 1617, 1791, 1797
MspI CCGG 2 cut(s) 23, 1467
Mva1269I GAATGC 3 cut(s) 244, 547, 1459
MvnI CGCG 3 cut(s) 64, 334, 799
MwoI GCNNNNNNNGC 5 cut(s) 331, 601, 1243, 1463, 1834
NarI GGCGCC 1 cut(s) 20
NdeII GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
NheI GCTAGC 1 cut(s) 853
NlaIV GGNNCC 2 cut(s) 21, 1231
NmuCI GTSAC 1 cut(s) 1546
NsiI ATGCAT 1 cut(s) 757
NspI RCATGY 3 cut(s) 1013, 1616, 1786
NspV TTCGAA 1 cut(s) 539
PaeI GCATGC 3 cut(s) 1013, 1616, 1786
PceI AGGCCT 1 cut(s) 56
PciSI GCTCTTC 1 cut(s) 1827
PctI GAATGC 3 cut(s) 244, 547, 1459
PdmI GAANNNNTTC 1 cut(s) 596
PfeI GAWTC 6 cut(s) 247, 509, 655, 924, 1223, 1411
PkrI GCNGC 4 cut(s) 66, 859, 1402, 1405
PleI GAGTC 2 cut(s) 13, 626
PluTI GGCGCC 1 cut(s) 23
PpsI GAGTC 2 cut(s) 13, 626
PspN4I GGNNCC 2 cut(s) 21, 1231
PsuI RGATCY 2 cut(s) 677, 1719
RsaI GTAC 4 cut(s) 578, 722, 1576, 1685
RsaNI GTAC 4 cut(s) 577, 721, 1575, 1684
RseI CAYNNNNRTG 5 cut(s) 255, 405, 1617, 1791, 1797
SapI GCTCTTC 1 cut(s) 1827
SaqAI TTAA 4 cut(s) 1067, 1086, 1104, 1725
SatI GCNGC 4 cut(s) 65, 858, 1401, 1404
Sau3AI GATC 7 cut(s) 677, 736, 934, 1158, 1443, 1551, 1719
ScaI AGTACT 1 cut(s) 578
SchI GAGTC 2 cut(s) 14, 626
SduI GDGCHC 1 cut(s) 180
SfaNI GCATC 8 cut(s) 178, 196, 294, 427, 505, 1595, 1792, 1839
SfcI CTRYAG 2 cut(s) 727, 1777
SfoI GGCGCC 1 cut(s) 21
SfuI TTCGAA 1 cut(s) 539
SmiMI CAYNNNNRTG 5 cut(s) 255, 405, 1617, 1791, 1797
SmlI CTYRAG 2 cut(s) 50, 1022
SmoI CTYRAG 2 cut(s) 50, 1022
SpeI ACTAGT 1 cut(s) 1286
SphI GCATGC 3 cut(s) 1013, 1616, 1786
SseBI AGGCCT 1 cut(s) 56
SsiI CCGC 4 cut(s) 64, 374, 587, 1695
SspDI GGCGCC 1 cut(s) 19
SspMI CTAG 8 cut(s) 11, 693, 854, 1287, 1407, 1598, 1626, 1689
StuI AGGCCT 1 cut(s) 56
TaaI ACNGT 8 cut(s) 817, 827, 866, 946, 1091, 1300, 1517, 1790
TaiI ACGT 2 cut(s) 787, 1476
TaqI TCGA 6 cut(s) 78, 101, 512, 539, 641, 1650
TatI WGTACW 2 cut(s) 576, 720
TauI GCSGC 1 cut(s) 67
TfiI GAWTC 6 cut(s) 247, 509, 655, 924, 1223, 1411
Tru1I TTAA 4 cut(s) 1067, 1086, 1104, 1725
Tru9I TTAA 4 cut(s) 1067, 1086, 1104, 1725
TscAI CASTG 5 cut(s) 198, 343, 739, 871, 1305
TseFI GTSAC 1 cut(s) 1546
TseI GCWGC 3 cut(s) 857, 1400, 1403
Tsp45I GTSAC 1 cut(s) 1546
TspRI CASTG 5 cut(s) 198, 343, 739, 871, 1305
XapI RAATTY 5 cut(s) 328, 699, 844, 1082, 1759
XceI RCATGY 3 cut(s) 1013, 1616, 1786
XmnI GAANNNNTTC 1 cut(s) 596
XspI CTAG 8 cut(s) 11, 693, 854, 1287, 1407, 1598, 1626, 1689
ZrmI AGTACT 1 cut(s) 578
Zsp2I ATGCAT 1 cut(s) 757
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.