RchiOBHm_Chr4g0396021

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0016816
Physical Location & Seq
Forward (+)
12052438 .. 12054499
2062 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ36840

Sequence Viewer

Length: 1884 bp
ATGAACCAATTCTCTGCACGCCAAATATTTACCCTGATCACCTCACGCAATTACACTTGTGCCACTGCGCTCCACCAGCCTCCGAACCTTCACCACCACTTTCTTCAGCTCTCAATCACACACCGCTCTCTTCCACTCGCCCAACAATCCCACGCGCGAGTCCTCACTCATGGCCTCCACCAAAACCCTTTCATCGCCACCAAGCTCATCTCCGCTTACGCTCTGTTCAACCACCCAACCAAGTCCAGACTCGTCTTCGACTCAATTGAGCCCAAGAATGTGTATCTTTGGAACTCGTTGATTAATGGGTGCGTCAAAACTCGCGTTTACAACGAAGCGTTCAAGTTGTTTGTCGAAATGTGTTGTTGTTGTGACGCATTGCCGGATGAGTATACGTTTTCGACAATGGCGAAAGTTTCCGGCGAGGTTGGGGACTTGGTCGCCGGGAAATGGGTTCATGGGAAGAGTGTGAGAGTTGGGTTTGCTACGGATGCGGTTGTTGCGAATTCGCTGATGTCTATGTATTGCAAGTGTGGGGAGTTTGGGGAATGTAGGAAGGTGTTTGATGAAATGCCTGAGAGAAATGTGGGGTCTTGGAATGTGTTGATAGCAGGGTGTGGGTTTGATAATGGGATGTTGGAAACTGCCAAGTCTATGATGATGAGTGGGTTGAAGCCCGACGGGTTTACTGTTTCGAGTCTGTTGGGTTTGTGTGGAGGTGAGGATGTTGGGAAATTGGGTTATGGGAGGGAGCTTCATTGTTATGTAGTGAAGTATGGATTGGATTTGAATTTGGGTTCGGATGTTCATCTTGGGTGTTGTTTGGTTGATATGTATTGTAGGAGTGGTAGAGTTGATTTGGGGAGACGGGTGTTTGAGCGCATGAAGTGTAGAAATGTATATGCTTGGACGGCGATGGTCAATGGTTCTGTGCAGAATGGAGCGTCTGATGAAGGATTGATTCTTTTCCGGAAGATGCAGGTGGAAGATGGGATAGAACCCAATAGAGTGTCGCTTGTAAGTGTTCTCCCAGCTTGTATTTCACATGCTGGTTTAACGAGTGGGAAACAAATTCATGGGTTTGCTATCAGGAAGGAGATGAATCATGATGTATCTCTATGCAATGCTTTGATCGATATGTATTGCAAATGTGGGAGCTTGGATTTTGCAAGGCGAGTCTTTGAGGATGACTCTTTTTGTAAGGATGCAATCTCTTGGAGTTCAATGATATCAGGGTATGGATTACATGGAAGGGGTGAGGAAGCCATTGTTTTGTATAATAAGATGCTTCAGCTTGGAATCAAACCGGATATGATAACCATAGTAGGGGTTCTTTCAGCTTGTGGCAGGTCAGGATTGGTAAATGAAGGCCTTTCAGTCTATAGCTCTGCAACAACTGATTATGGTATTAAACCAACAGTGGAGATATGTGCTTGTGTGGTGGATCTGTTAAGTCGATCAGGAGAGCTTGATCGAGCATTAAATTTCATCAAAATGATGCCTGTAGAACCTGGTCCAAGTGTTTGGGGGGCTTTAGTTACTGCTTCTGTATTGCATGGGAACCGTGACATGCAAGATCTAGCTTATAAGTTCCTCATTCAACTAGAACCCGAAAACCCTTCAAATTATATCTCAGCATCAAATTTTCATGCTTCTTCTAGAAGATGGGACGTTGTAGCTGAAACAAGAACAATGATGAAGGACAGAGGTTTGAAGAAGACACCTGGGTGTAGTTGGATTAGCATTACTGGTAAGACTCATTCTTTCTATGTTGCTGATAAAGTACATCCTTGCTGTGATTCGATCTATGAGATGCTTGACTACCTCATTTTAGTAATGAAGGGAGCCCCTGATTCTCATGACTTGGTAGAATATTCAGCCTAG
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

69.29

Weight (kDa)

6.85

Isoelectric Point (pI)

31.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 92 - 137 3.3e-09 PPR repeat family
PPR_2 PF13041 164 - 196 6.4e-06 PPR repeat family
PPR PF01535 167 - 196 8.4e-07 PPR repeat
PPR_2 PF13041 402 - 449 5.6e-09 PPR repeat family
PPR PF01535 404 - 434 1.4e-07 PPR repeat
E_motif PF20431 519 - 580 2.8e-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) 1587
AarI CACCTGC 1 cut(s) 970
Acc36I ACCTGC 2 cut(s) 970, 1338
AccBSI CCGCTC 1 cut(s) 126
AccI GTMKAC 1 cut(s) 392
AccII CGCG 3 cut(s) 155, 157, 324
AccIII TCCGGA 1 cut(s) 969
AciI CCGC 3 cut(s) 124, 213, 494
AclWI GGATC 1 cut(s) 1452
AcsI RAATTY 5 cut(s) 505, 790, 1071, 1483, 1642
AcuI CTGAAG 2 cut(s) 89, 1274
AfaI GTAC 1 cut(s) 1785
AfiI CCNNNNNNNGG 2 cut(s) 450, 1326
AgsI TTSAA 8 cut(s) 229, 343, 673, 790, 1224, 1601, 1623, 1714
AjnI CCWGG 2 cut(s) 1510, 1723
AjuI GAANNNNNNNTTGG 2 cut(s) 764, 796
AleI CACNNNNGTG 1 cut(s) 1726
Alw26I GTCTC 1 cut(s) 859
AlwI GGATC 1 cut(s) 1452
Aor13HI TCCGGA 1 cut(s) 969
AoxI GGCC 2 cut(s) 172, 1369
ApoI RAATTY 5 cut(s) 505, 790, 1071, 1483, 1642
AseI ATTAAT 1 cut(s) 303
Asp700I GAANNNNTTC 1 cut(s) 8
AspLEI GCGC 3 cut(s) 70, 157, 882
AspS9I GGNCC 1 cut(s) 1514
AsuC2I CCSGG 1 cut(s) 445
AsuHPI GGTGA 4 cut(s) 31, 83, 731, 1268
AvaII GGWCC 1 cut(s) 1514
BanII GRGCYC 2 cut(s) 273, 1849
BbsI GAAGAC 2 cut(s) 247, 1724
BccI CCATC 3 cut(s) 910, 983, 1659
BceAI ACGGC 1 cut(s) 927
BciT130I CCWGG 2 cut(s) 1512, 1725
BclI TGATCA 1 cut(s) 36
BcnI CCSGG 1 cut(s) 445
BcoDI GTCTC 1 cut(s) 859
BfaI CTAG 4 cut(s) 1580, 1604, 1659, 1882
BfmI CTRYAG 2 cut(s) 1381, 1503
BfuAI ACCTGC 2 cut(s) 970, 1338
BglII AGATCT 1 cut(s) 1576
Bme1390I CCNGG 3 cut(s) 445, 1512, 1725
Bme18I GGWCC 1 cut(s) 1514
BmgT120I GGNCC 1 cut(s) 1514
BmiI GGNNCC 2 cut(s) 1562, 1846
BmrFI CCNGG 3 cut(s) 445, 1512, 1725
BmsI GCATC 7 cut(s) 481, 966, 1195, 1275, 1488, 1646, 1803
BpiI GAAGAC 2 cut(s) 247, 1724
BplI GAGNNNNNCTC 2 cut(s) 1175, 1207
BpuMI CCSGG 1 cut(s) 445
Bsa29I ATCGAT 1 cut(s) 1134
BsaBI GATNNNNATC 1 cut(s) 807
BsaJI CCNNGG 1 cut(s) 1724
BsaWI WCCGGW 2 cut(s) 969, 1306
Bsc4I CCNNNNNNNGG 2 cut(s) 450, 1326
Bse1I ACTGG 1 cut(s) 1753
Bse3DI GCAATG 2 cut(s) 377, 1129
Bse8I GATNNNNATC 1 cut(s) 807
BseAI TCCGGA 1 cut(s) 969
BseBI CCWGG 2 cut(s) 1512, 1725
BseCI ATCGAT 1 cut(s) 1134
BseDI CCNNGG 1 cut(s) 1724
BseGI GGATG 8 cut(s) 391, 496, 639, 730, 808, 1192, 1210, 1786
BseJI GATNNNNATC 1 cut(s) 807
BseLI CCNNNNNNNGG 2 cut(s) 450, 1326
BseMI GCAATG 2 cut(s) 377, 1129
BseMII CTCAG 2 cut(s) 567, 1647
BseNI ACTGG 1 cut(s) 1753
BseYI CCCAGC 1 cut(s) 1030
BsgI GTGCAG 1 cut(s) 953
Bsh1236I CGCG 3 cut(s) 155, 157, 324
BshFI GGCC 2 cut(s) 174, 1371
BshVI ATCGAT 1 cut(s) 1134
BsiSI CCGG 5 cut(s) 383, 420, 444, 970, 1307
BslFI GGGAC 2 cut(s) 446, 1682
BslI CCNNNNNNNGG 2 cut(s) 450, 1326
BsmAI GTCTC 1 cut(s) 859
BsmBI CGTCTC 1 cut(s) 859
BsmFI GGGAC 2 cut(s) 446, 1682
BsnI GGCC 2 cut(s) 174, 1371
Bsp1286I GDGCHC 2 cut(s) 273, 1849
Bsp13I TCCGGA 1 cut(s) 969
Bsp143I GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
BspACI CCGC 3 cut(s) 124, 213, 494
BspANI GGCC 2 cut(s) 174, 1371
BspCNI CTCAG 2 cut(s) 568, 1646
BspDI ATCGAT 1 cut(s) 1134
BspEI TCCGGA 1 cut(s) 969
BspFNI CGCG 3 cut(s) 155, 157, 324
BspHI TCATGA 2 cut(s) 1105, 1858
BspLI GGNNCC 2 cut(s) 1562, 1846
BspMI ACCTGC 2 cut(s) 970, 1338
BspPI GGATC 1 cut(s) 1452
BsrBI CCGCTC 1 cut(s) 126
BsrDI GCAATG 2 cut(s) 377, 1129
BsrI ACTGG 1 cut(s) 1753
BssECI CCNNGG 1 cut(s) 1724
BssMI GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
BssNAI GTATAC 1 cut(s) 393
Bst1107I GTATAC 1 cut(s) 393
Bst2UI CCWGG 2 cut(s) 1512, 1725
Bst4CI ACNGT 3 cut(s) 691, 1420, 1565
Bst6I CTCTTC 2 cut(s) 135, 458
BstC8I GCNNGC 1 cut(s) 19
BstDEI CTNAG 2 cut(s) 576, 1633
BstF5I GGATG 8 cut(s) 391, 496, 639, 730, 808, 1192, 1210, 1786
BstFNI CGCG 3 cut(s) 155, 157, 324
BstHHI GCGC 3 cut(s) 70, 157, 882
BstKTI GATC 7 cut(s) 39, 1134, 1447, 1460, 1474, 1579, 1806
BstMAI GTCTC 1 cut(s) 859
BstMBI GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
BstMWI GCNNNNNNNGC 4 cut(s) 76, 491, 500, 911
BstNI CCWGG 2 cut(s) 1512, 1725
BstNSI RCATGY 2 cut(s) 1049, 1573
BstSCI CCNGG 3 cut(s) 443, 1510, 1723
BstSFI CTRYAG 2 cut(s) 1381, 1503
BstUI CGCG 3 cut(s) 155, 157, 324
BstV2I GAAGAC 2 cut(s) 247, 1724
BstX2I RGATCY 2 cut(s) 1444, 1576
BstXI CCANNNNNNTGG 1 cut(s) 1524
BstYI RGATCY 2 cut(s) 1444, 1576
BstZ17I GTATAC 1 cut(s) 393
Bsu15I ATCGAT 1 cut(s) 1134
BsuRI GGCC 2 cut(s) 174, 1371
BsuTUI ATCGAT 1 cut(s) 1134
BtgZI GCGATG 2 cut(s) 178, 929
BtsCI GGATG 8 cut(s) 391, 496, 639, 730, 808, 1192, 1210, 1786
BtsI GCAGTG 1 cut(s) 63
BtsIMutI CAGTG 2 cut(s) 63, 1425
BveI ACCTGC 2 cut(s) 970, 1338
Cac8I GCNNGC 1 cut(s) 19
CciI TCATGA 2 cut(s) 1105, 1858
CfoI GCGC 3 cut(s) 70, 157, 882
Cfr13I GGNCC 1 cut(s) 1514
ClaI ATCGAT 1 cut(s) 1134
CseI GACGC 3 cut(s) 301, 383, 933
CsiI ACCWGGT 1 cut(s) 1510
Csp6I GTAC 1 cut(s) 1784
CviQI GTAC 1 cut(s) 1784
DdeI CTNAG 2 cut(s) 576, 1633
DpnI GATC 7 cut(s) 38, 1133, 1446, 1459, 1473, 1578, 1805
DpnII GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
Eam1104I CTCTTC 2 cut(s) 135, 458
EarI CTCTTC 2 cut(s) 135, 458
Eco147I AGGCCT 1 cut(s) 1371
Eco24I GRGCYC 2 cut(s) 273, 1849
Eco32I GATATC 1 cut(s) 1230
Eco47I GGWCC 1 cut(s) 1514
Eco57I CTGAAG 2 cut(s) 89, 1274
EcoRI GAATTC 1 cut(s) 505
EcoRII CCWGG 2 cut(s) 1510, 1723
EcoRV GATATC 1 cut(s) 1230
EcoT38I GRGCYC 2 cut(s) 273, 1849
Esp3I CGTCTC 1 cut(s) 859
FaqI GGGAC 2 cut(s) 446, 1682
FbaI TGATCA 1 cut(s) 36
FblI GTMKAC 1 cut(s) 392
FokI GGATG 8 cut(s) 398, 503, 646, 737, 815, 1199, 1217, 1773
FriOI GRGCYC 2 cut(s) 273, 1849
FspBI CTAG 4 cut(s) 1580, 1604, 1659, 1882
GlaI GCGC 3 cut(s) 69, 156, 881
GsaI CCCAGC 1 cut(s) 1034
HaeIII GGCC 2 cut(s) 174, 1371
HapII CCGG 5 cut(s) 383, 420, 444, 970, 1307
HgaI GACGC 3 cut(s) 301, 383, 933
HhaI GCGC 3 cut(s) 70, 157, 882
Hin6I GCGC 3 cut(s) 68, 155, 880
HinP1I GCGC 3 cut(s) 68, 155, 880
HpaII CCGG 5 cut(s) 383, 420, 444, 970, 1307
HphI GGTGA 4 cut(s) 31, 83, 731, 1268
Hpy166II GTNNAC 3 cut(s) 328, 393, 687
Hpy188I TCNGA 3 cut(s) 84, 802, 949
Hpy188III TCNNGA 8 cut(s) 246, 970, 1090, 1106, 1353, 1461, 1659, 1859
Hpy8I GTNNAC 3 cut(s) 328, 393, 687
Hpy99I CGWCG 1 cut(s) 683
HpyAV CCTTC 9 cut(s) 98, 550, 947, 1087, 1245, 1361, 1629, 1693, 1834
HpyCH4III ACNGT 3 cut(s) 691, 1420, 1565
HpyCH4IV ACGT 2 cut(s) 395, 1671
HpyF10VI GCNNNNNNNGC 4 cut(s) 76, 491, 500, 911
HpyF3I CTNAG 2 cut(s) 576, 1633
HpySE526I ACGT 2 cut(s) 395, 1671
HspAI GCGC 3 cut(s) 68, 155, 880
Kpn2I TCCGGA 1 cut(s) 969
Ksp22I TGATCA 1 cut(s) 36
Kzo9I GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
LmnI GCTCC 5 cut(s) 75, 751, 941, 1155, 1844
LweI GCATC 7 cut(s) 481, 966, 1195, 1275, 1488, 1646, 1803
MabI ACCWGGT 1 cut(s) 1510
MaeI CTAG 4 cut(s) 1580, 1604, 1659, 1882
MaeII ACGT 2 cut(s) 395, 1671
MaeIII GTNAC 3 cut(s) 371, 1537, 1565
MalI GATC 7 cut(s) 38, 1133, 1446, 1459, 1473, 1578, 1805
MbiI CCGCTC 1 cut(s) 126
MboI GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
MfeI CAATTG 1 cut(s) 264
MflI RGATCY 2 cut(s) 1444, 1576
MhlI GDGCHC 2 cut(s) 273, 1849
MlyI GAGTC 7 cut(s) 168, 243, 254, 706, 1184, 1185, 1750
MmeI TCCRAC 2 cut(s) 618, 1715
MroI TCCGGA 1 cut(s) 969
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 5 cut(s) 303, 1055, 1410, 1451, 1481
MslI CAYNNNNRTG 3 cut(s) 762, 1493, 1726
MspI CCGG 5 cut(s) 383, 420, 444, 970, 1307
MspR9I CCNGG 3 cut(s) 445, 1512, 1725
MunI CAATTG 1 cut(s) 264
MvaI CCWGG 2 cut(s) 1512, 1725
MvnI CGCG 3 cut(s) 155, 157, 324
MwoI GCNNNNNNNGC 4 cut(s) 76, 491, 500, 911
NciI CCSGG 1 cut(s) 445
NdeII GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
NlaIV GGNNCC 2 cut(s) 1562, 1846
NmuCI GTSAC 2 cut(s) 371, 1565
NspI RCATGY 2 cut(s) 1049, 1573
OliI CACNNNNGTG 1 cut(s) 1726
PagI TCATGA 2 cut(s) 1105, 1858
PaqCI CACCTGC 1 cut(s) 970
PceI AGGCCT 1 cut(s) 1371
PcsI WCGNNNNNNNCGW 1 cut(s) 407
PdmI GAANNNNTTC 1 cut(s) 8
PfeI GAWTC 5 cut(s) 961, 1102, 1299, 1799, 1853
PflFI GACNNNGTC 1 cut(s) 437
PleI GAGTC 7 cut(s) 167, 243, 254, 705, 1184, 1184, 1750
PpsI GAGTC 7 cut(s) 167, 243, 254, 705, 1184, 1184, 1750
PshBI ATTAAT 1 cut(s) 303
PsiI TTATAA 1 cut(s) 1587
Psp6I CCWGG 2 cut(s) 1510, 1723
PspFI CCCAGC 1 cut(s) 1030
PspGI CCWGG 2 cut(s) 1510, 1723
PspN4I GGNNCC 2 cut(s) 1562, 1846
PspPI GGNCC 1 cut(s) 1514
PsuI RGATCY 2 cut(s) 1444, 1576
PsyI GACNNNGTC 1 cut(s) 437
RsaI GTAC 1 cut(s) 1785
RsaNI GTAC 1 cut(s) 1784
RseI CAYNNNNRTG 3 cut(s) 762, 1493, 1726
SaqAI TTAA 5 cut(s) 303, 1055, 1410, 1451, 1481
Sau3AI GATC 7 cut(s) 36, 1131, 1444, 1457, 1471, 1576, 1803
Sau96I GGNCC 1 cut(s) 1514
SchI GAGTC 7 cut(s) 168, 243, 254, 706, 1184, 1185, 1750
ScrFI CCNGG 3 cut(s) 445, 1512, 1725
SduI GDGCHC 2 cut(s) 273, 1849
SexAI ACCWGGT 1 cut(s) 1510
SfaNI GCATC 7 cut(s) 481, 966, 1195, 1275, 1488, 1646, 1803
SfcI CTRYAG 2 cut(s) 1381, 1503
SinI GGWCC 1 cut(s) 1514
SmiMI CAYNNNNRTG 3 cut(s) 762, 1493, 1726
SseBI AGGCCT 1 cut(s) 1371
SsiI CCGC 3 cut(s) 124, 213, 494
SspI AATATT 2 cut(s) 27, 1874
SspMI CTAG 4 cut(s) 1580, 1604, 1659, 1882
StuI AGGCCT 1 cut(s) 1371
StyD4I CCNGG 3 cut(s) 443, 1510, 1723
TaaI ACNGT 3 cut(s) 691, 1420, 1565
TaiI ACGT 2 cut(s) 398, 1674
TaqI TCGA 8 cut(s) 258, 354, 401, 695, 1134, 1456, 1474, 1802
TatI WGTACW 1 cut(s) 1783
TfiI GAWTC 5 cut(s) 961, 1102, 1299, 1799, 1853
Tru1I TTAA 5 cut(s) 303, 1055, 1410, 1451, 1481
Tru9I TTAA 5 cut(s) 303, 1055, 1410, 1451, 1481
TscAI CASTG 2 cut(s) 70, 1425
TseFI GTSAC 2 cut(s) 371, 1565
Tsp45I GTSAC 2 cut(s) 371, 1565
TspGWI ACGGA 1 cut(s) 503
TspRI CASTG 2 cut(s) 70, 1425
Tth111I GACNNNGTC 1 cut(s) 437
VpaK11BI GGWCC 1 cut(s) 1514
VspI ATTAAT 1 cut(s) 303
XapI RAATTY 5 cut(s) 505, 790, 1071, 1483, 1642
XbaI TCTAGA 1 cut(s) 1658
XceI RCATGY 2 cut(s) 1049, 1573
XmiI GTMKAC 1 cut(s) 392
XmnI GAANNNNTTC 1 cut(s) 8
XspI CTAG 4 cut(s) 1580, 1604, 1659, 1882
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.