RchiOBHm_Chr4g0440061

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0017199
Physical Location & Seq
Reverse (-)
62312344 .. 62314426
2083 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40809

Sequence Viewer

Length: 1716 bp
ATGACTCAAACTCTGGCCGTACGCCTGGGGCAAAGACTCAACCTTTGGCCTTGGGAAAGCGCAAAGCTCATTTCTCTACTGGAATGCTGCAAACAAGTCTCAGAAATCTCTCAAATCCATGGCTCTATGGTCAAGACCGGTCTTGACCACAACCCTTTCGCCATGAGCAAGCTCCTCGCCTCTTCCGTTCACCACATCCAATATGCAGCCTCCATTTTCGGCCACATTCGAAACCCGAATCGCTTCATGTTCAATACATTGCTCAGAGCCTATTCCATTAGCGACGAACCAAAACAAGCTTTTCTTGTTTTCAATAACTTGAGGGCTCGTAATATTGTTCTAGACCAGTTCTCTTTCACCACCGCGCTCAAAGCATGTGCTCGTGAATTGGCCAGTGGGACTGGCCAGGGGATTCATGGGGTTGTTGTGAGGTCTGGGCATGGCGGGTTTATCACTGTAAAGAATACCCTTCTGCACTTTTACTGTGTTTGTGGGAAGATTGAGGATGCCCACCACTTGTTCGATGAATTTCCTCAGAGAAATGATTTGATTTCATGGAATACTTTGATGGGCGGTTACCTTCATATTTCGCAGCCTCGTGTGATTGTGGACTTGTTTAAGGAAATGTGCATTGGTGGTTTTGAAGCTAGTGTAACCACTGTTCTGTATCTTTTATCGGCCATTGGTGAGTTGGGAAGTTACCTTGGAGGAGAGAGTGTTCATGGCTACTGCATTAAGATGGGATTTTCCTATAATTTACATGTGGTTACTGCTTTGATTGATGTGTATGCAAAGAATGGGGAAATTGACTTGGCGCGTCGGATTTTCGATGGAGTTGCTGTGAAGGATGTTGTTTTGTGGAATTGTTTGGTAGACAAGTATGCAAAATGTGGCATGGTAGAAGAAGCAGTAGCTTTGTTACGGCTGATGAAACTTGAAAGAACGAAACCCAATTCGTCCACATTGGCAGGACTGCTTTCAGCTTGTGCTGCTTCTGGGTCTGTGAGTGTAGGGAGGTTCATTAAGGATTATGTGGAGGAGGAGAGATTGGTTTTGGATGCGGTTCTTGGAACAGCTCTGGTTGATATGTACGCTAAATGTGGGTTTCTAGACAAGGCTCTTGACATTTTCGAAAGCATGGAAAACAGGGATGTGAAATCATGGACAGCCATGATTTCAGGTTACGGTGTTCATGGGGAGGCAGGTAATGCCTTGAGGCTTTTCTACAGAATGGAAGCGGAGGGCTGCCAACCTAATGAAGTCACTTTCTTGGCAGTTTTAAGTGCTTGTGGCCATGCAGGGCTAGTCAGAGAGGGAGTTAGTTGCTTTGAGATGATGGTTTGCAAGTATGGTTTTGTTCCAAAGGTTGAACACTACGGTTGTATGATCGATCTTTTAGGTCGTGCAGGGTTGTTGGAGGAAGCACACAACCTAATCGAAAGCTTGCCCATCAAGAGTGATGTTACTGCATGGCGTGCATTGCTTTCGGCCTGCAGGGTCTATGGGTATGTTGCTCTTGGGGAAGTTGTACAGAGAGTGCTGGCTGAACTAAACGATGACCATCCCACCAATGCAATGCTACTATCAGGGACTTATGCCATTGCTGGAAGGTTGCACGATAATACAAATATGCAGAAAACGGTGGAGGGAGAGATGGTGAGGGAAGAAAACCCAGTAAAGGAAGCTGGGCTCAGCACAATTGAGTTGGATAGTTGA

Protein Analysis

571

Amino Acids

62.91

Weight (kDa)

6.03

Isoelectric Point (pI)

32.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 79 - 128 1.9e-07 PPR repeat family
PPR_2 PF13041 282 - 330 2.1e-09 PPR repeat family
PPR_2 PF13041 384 - 431 2.4e-09 PPR repeat family
PPR_3 PF13812 384 - 432 3.4e-06 Pentatricopeptide repeat domain
PPR PF01535 387 - 416 2.8e-06 PPR repeat
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: OG0017199)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G26900
malus_domestica MD13G1073800.v1.1
prunus_persica Prupe.1G272200_v2.0.a1
pyrus_communis pycom16g06510
rosa_chinensis RchiOBHm_Chr4g0440061
rosa_laevigata RLG00000006209
rosa_multiflora Rmu_sc0001685.1_g000003
rosa_rugosa Rorug04G0324000
rosa_samantha Rh4AG374600 Rh4BG387000 Rh4CG401500 Rh4DG381200
rosa_wichuraiana Rw4G032050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1193
AccI GTMKAC 1 cut(s) 873
AccII CGCG 2 cut(s) 365, 817
AciI CCGC 5 cut(s) 363, 444, 573, 1061, 1238
AcoI YGGCCR 6 cut(s) 15, 220, 390, 403, 678, 1291
AcsI RAATTY 1 cut(s) 527
AfaI GTAC 3 cut(s) 21, 1091, 1530
AfiI CCNNNNNNNGG 1 cut(s) 1678
AflIII ACRYGT 1 cut(s) 760
AgeI ACCGGT 1 cut(s) 137
AgsI TTSAA 5 cut(s) 253, 313, 644, 938, 1370
AjnI CCWGG 2 cut(s) 24, 405
AjuI GAANNNNNNNTTGG 2 cut(s) 615, 647
AloI GAACNNNNNNTCC 2 cut(s) 702, 734
AluBI AGCT 9 cut(s) 67, 172, 299, 647, 914, 983, 1076, 1443, 1685
AluI AGCT 9 cut(s) 67, 172, 299, 647, 914, 983, 1076, 1443, 1685
Alw21I GWGCWC 1 cut(s) 382
Alw26I GTCTC 1 cut(s) 103
AoxI GGCC 8 cut(s) 15, 47, 220, 390, 403, 678, 1291, 1488
ApeKI GCWGC 5 cut(s) 87, 206, 592, 989, 1245
ApoI RAATTY 1 cut(s) 527
ArsI GACNNNNNNTTYG 2 cut(s) 27, 59
AsiGI ACCGGT 1 cut(s) 137
Asp700I GAANNNNTTC 1 cut(s) 242
AspLEI GCGC 3 cut(s) 62, 367, 817
AsuHPI GGTGA 4 cut(s) 182, 349, 698, 1669
AsuII TTCGAA 2 cut(s) 229, 1131
BalI TGGCCA 3 cut(s) 392, 405, 1293
BanII GRGCYC 2 cut(s) 328, 1692
BauI CACGAG 2 cut(s) 381, 597
Bbv12I GWGCWC 1 cut(s) 382
BbvI GCAGC 5 cut(s) 74, 218, 604, 976, 1232
BccI CCATC 7 cut(s) 562, 733, 824, 1330, 1457, 1569, 1648
BceAI ACGGC 2 cut(s) 2, 938
BcgI CGANNNNNNTGC 6 cut(s) 157, 191, 818, 852, 1467, 1501
BciT130I CCWGG 2 cut(s) 26, 407
BcoDI GTCTC 1 cut(s) 103
BfaI CTAG 4 cut(s) 341, 648, 1109, 1304
BfmI CTRYAG 2 cut(s) 1225, 1492
BfuAI ACCTGC 1 cut(s) 1193
BisI GCNGC 5 cut(s) 88, 207, 593, 990, 1246
BlpI GCTNAGC 1 cut(s) 1691
BlsI GCNGC 5 cut(s) 89, 208, 594, 991, 1247
Bme1390I CCNGG 2 cut(s) 26, 407
BmrFI CCNGG 2 cut(s) 26, 407
BmrI ACTGGG 1 cut(s) 1667
BmsI GCATC 2 cut(s) 496, 1048
BmuI ACTGGG 1 cut(s) 1667
Bpu1102I GCTNAGC 1 cut(s) 1691
Bpu14I TTCGAA 2 cut(s) 229, 1131
BpuEI CTTGAG 2 cut(s) 340, 1234
Bsa29I ATCGAT 1 cut(s) 1389
BsaBI GATNNNNATC 1 cut(s) 1560
BsaJI CCNNGG 5 cut(s) 25, 50, 118, 406, 703
BsaWI WCCGGW 1 cut(s) 137
BsaXI ACNNNNNCTCC 6 cut(s) 702, 732, 825, 855, 1641, 1671
Bsc4I CCNNNNNNNGG 1 cut(s) 1678
Bse118I RCCGGY 1 cut(s) 137
Bse1I ACTGG 5 cut(s) 84, 346, 393, 406, 1673
Bse3DI GCAATG 4 cut(s) 257, 1478, 1581, 1599
Bse8I GATNNNNATC 1 cut(s) 1560
BseBI CCWGG 2 cut(s) 26, 407
BseCI ATCGAT 1 cut(s) 1389
BseDI CCNNGG 5 cut(s) 25, 50, 118, 406, 703
BseGI GGATG 6 cut(s) 195, 511, 853, 1063, 1156, 1561
BseJI GATNNNNATC 1 cut(s) 1560
BseLI CCNNNNNNNGG 1 cut(s) 1678
BseMI GCAATG 4 cut(s) 257, 1478, 1581, 1599
BseMII CTCAG 4 cut(s) 114, 277, 548, 1705
BseNI ACTGG 5 cut(s) 84, 346, 393, 406, 1673
BseRI GAGGAG 4 cut(s) 164, 723, 1052, 1055
BseXI GCAGC 5 cut(s) 74, 218, 604, 976, 1232
BseYI CCCAGC 1 cut(s) 1685
BsgI GTGCAG 2 cut(s) 458, 1425
Bsh1236I CGCG 2 cut(s) 365, 817
BshFI GGCC 8 cut(s) 17, 49, 222, 392, 405, 680, 1293, 1490
BshTI ACCGGT 1 cut(s) 137
BshVI ATCGAT 1 cut(s) 1389
BsiHKAI GWGCWC 1 cut(s) 382
BsiSI CCGG 1 cut(s) 138
BsiWI CGTACG 1 cut(s) 19
BslFI GGGAC 2 cut(s) 412, 1603
BslI CCNNNNNNNGG 1 cut(s) 1678
BsmAI GTCTC 1 cut(s) 103
BsmFI GGGAC 2 cut(s) 412, 1603
BsmI GAATGC 1 cut(s) 89
BsnI GGCC 8 cut(s) 17, 49, 222, 392, 405, 680, 1293, 1490
Bsp119I TTCGAA 2 cut(s) 229, 1131
Bsp1286I GDGCHC 3 cut(s) 328, 382, 1692
Bsp1407I TGTACA 1 cut(s) 1528
Bsp143I GATC 2 cut(s) 1386, 1390
Bsp1720I GCTNAGC 1 cut(s) 1691
Bsp19I CCATGG 1 cut(s) 118
BspACI CCGC 5 cut(s) 363, 444, 573, 1061, 1238
BspANI GGCC 8 cut(s) 17, 49, 222, 392, 405, 680, 1293, 1490
BspCNI CTCAG 4 cut(s) 113, 276, 547, 1704
BspDI ATCGAT 1 cut(s) 1389
BspFNI CGCG 2 cut(s) 365, 817
BspMAI CTGCAG 1 cut(s) 1496
BspMI ACCTGC 1 cut(s) 1193
BspT104I TTCGAA 2 cut(s) 229, 1131
BsrDI GCAATG 4 cut(s) 257, 1478, 1581, 1599
BsrFI RCCGGY 1 cut(s) 137
BsrGI TGTACA 1 cut(s) 1528
BsrI ACTGG 5 cut(s) 84, 346, 393, 406, 1673
BssAI RCCGGY 1 cut(s) 137
BssECI CCNNGG 5 cut(s) 25, 50, 118, 406, 703
BssMI GATC 2 cut(s) 1386, 1390
BssSI CACGAG 2 cut(s) 381, 597
BssT1I CCWWGG 3 cut(s) 50, 118, 703
Bst2BI CACGAG 2 cut(s) 381, 597
Bst2UI CCWGG 2 cut(s) 26, 407
Bst4CI ACNGT 6 cut(s) 457, 485, 661, 1187, 1379, 1642
Bst6I CTCTTC 1 cut(s) 187
BstAPI GCANNNNNTGC 2 cut(s) 1208, 1475
BstAUI TGTACA 1 cut(s) 1528
BstBI TTCGAA 2 cut(s) 229, 1131
BstC8I GCNNGC 5 cut(s) 170, 1445, 1476, 1492, 1542
BstDEI CTNAG 4 cut(s) 100, 263, 534, 1691
BstDSI CCRYGG 1 cut(s) 118
BstEII GGTNACC 1 cut(s) 575
BstF5I GGATG 6 cut(s) 195, 511, 853, 1063, 1156, 1561
BstFNI CGCG 2 cut(s) 365, 817
BstHHI GCGC 3 cut(s) 62, 367, 817
BstKTI GATC 2 cut(s) 1389, 1393
BstMAI GTCTC 1 cut(s) 103
BstMBI GATC 2 cut(s) 1386, 1390
BstMWI GCNNNNNNNGC 5 cut(s) 371, 989, 1208, 1475, 1480
BstNI CCWGG 2 cut(s) 26, 407
BstNSI RCATGY 2 cut(s) 378, 764
BstPI GGTNACC 1 cut(s) 575
BstSCI CCNGG 2 cut(s) 24, 405
BstSFI CTRYAG 2 cut(s) 1225, 1492
BstUI CGCG 2 cut(s) 365, 817
BstV1I GCAGC 5 cut(s) 74, 218, 604, 976, 1232
Bsu15I ATCGAT 1 cut(s) 1389
BsuRI GGCC 8 cut(s) 17, 49, 222, 392, 405, 680, 1293, 1490
BsuTUI ATCGAT 1 cut(s) 1389
BtgI CCRYGG 1 cut(s) 118
BtsCI GGATG 6 cut(s) 195, 511, 853, 1063, 1156, 1561
BtsIMutI CAGTG 3 cut(s) 400, 453, 657
BveI ACCTGC 1 cut(s) 1193
Cac8I GCNNGC 5 cut(s) 170, 1445, 1476, 1492, 1542
CfoI GCGC 3 cut(s) 62, 367, 817
Cfr10I RCCGGY 1 cut(s) 137
ClaI ATCGAT 1 cut(s) 1389
CseI GACGC 1 cut(s) 806
Csp6I GTAC 3 cut(s) 20, 1090, 1529
CspAI ACCGGT 1 cut(s) 137
CviQI GTAC 3 cut(s) 20, 1090, 1529
DdeI CTNAG 4 cut(s) 100, 263, 534, 1691
DpnI GATC 2 cut(s) 1388, 1392
DpnII GATC 2 cut(s) 1386, 1390
EaeI YGGCCR 6 cut(s) 15, 220, 390, 403, 678, 1291
Eam1104I CTCTTC 1 cut(s) 187
EarI CTCTTC 1 cut(s) 187
Eco130I CCWWGG 3 cut(s) 50, 118, 703
Eco24I GRGCYC 2 cut(s) 328, 1692
Eco91I GGTNACC 1 cut(s) 575
EcoO65I GGTNACC 1 cut(s) 575
EcoRII CCWGG 2 cut(s) 24, 405
EcoT14I CCWWGG 3 cut(s) 50, 118, 703
EcoT38I GRGCYC 2 cut(s) 328, 1692
ErhI CCWWGG 3 cut(s) 50, 118, 703
FalI AAGNNNNNCTT 2 cut(s) 288, 320
FaqI GGGAC 2 cut(s) 412, 1603
FauI CCCGC 1 cut(s) 437
FblI GTMKAC 1 cut(s) 873
Fnu4HI GCNGC 5 cut(s) 88, 207, 593, 990, 1246
FokI GGATG 6 cut(s) 182, 518, 860, 1070, 1163, 1548
FriOI GRGCYC 2 cut(s) 328, 1692
Fsp4HI GCNGC 5 cut(s) 88, 207, 593, 990, 1246
FspBI CTAG 4 cut(s) 341, 648, 1109, 1304
GlaI GCGC 3 cut(s) 61, 366, 816
GluI GCNGC 5 cut(s) 88, 207, 593, 990, 1246
GsaI CCCAGC 1 cut(s) 1689
HaeIII GGCC 8 cut(s) 17, 49, 222, 392, 405, 680, 1293, 1490
HapII CCGG 1 cut(s) 138
HgaI GACGC 1 cut(s) 806
HhaI GCGC 3 cut(s) 62, 367, 817
Hin6I GCGC 3 cut(s) 60, 365, 815
HinP1I GCGC 3 cut(s) 60, 365, 815
HindIII AAGCTT 2 cut(s) 297, 1441
HinfI GANTC 4 cut(s) 4, 36, 238, 412
HpaII CCGG 1 cut(s) 138
HphI GGTGA 4 cut(s) 182, 349, 698, 1669
Hpy166II GTNNAC 4 cut(s) 190, 610, 874, 960
Hpy188I TCNGA 5 cut(s) 103, 266, 537, 822, 1310
Hpy188III TCNNGA 7 cut(s) 133, 143, 341, 383, 1109, 1121, 1453
Hpy8I GTNNAC 4 cut(s) 190, 610, 874, 960
Hpy99I CGWCG 2 cut(s) 287, 822
HpyAV CCTTC 4 cut(s) 479, 590, 838, 1602
HpyCH4III ACNGT 6 cut(s) 457, 485, 661, 1187, 1379, 1642
HpyF10VI GCNNNNNNNGC 5 cut(s) 371, 989, 1208, 1475, 1480
HpyF3I CTNAG 4 cut(s) 100, 263, 534, 1691
HspAI GCGC 3 cut(s) 60, 365, 815
Kzo9I GATC 2 cut(s) 1386, 1390
LmnI GCTCC 1 cut(s) 177
Lsp1109I GCAGC 5 cut(s) 74, 218, 604, 976, 1232
LweI GCATC 2 cut(s) 496, 1048
MaeI CTAG 4 cut(s) 341, 648, 1109, 1304
MaeIII GTNAC 8 cut(s) 575, 652, 698, 766, 918, 1181, 1261, 1462
MalI GATC 2 cut(s) 1388, 1392
MboI GATC 2 cut(s) 1386, 1390
MboII GAAGA 4 cut(s) 174, 508, 914, 1676
MfeI CAATTG 1 cut(s) 1698
MhlI GDGCHC 3 cut(s) 328, 382, 1692
MlsI TGGCCA 3 cut(s) 392, 405, 1293
MluCI AATT 7 cut(s) 386, 527, 754, 804, 862, 952, 1698
MluNI TGGCCA 3 cut(s) 392, 405, 1293
MlyI GAGTC 1 cut(s) 30
MmeI TCCRAC 3 cut(s) 800, 1395, 1686
Mox20I TGGCCA 3 cut(s) 392, 405, 1293
MroXI GAANNNNTTC 1 cut(s) 242
MscI TGGCCA 3 cut(s) 392, 405, 1293
MseI TTAA 4 cut(s) 618, 735, 1023, 1280
MslI CAYNNNNRTG 1 cut(s) 737
Msp20I TGGCCA 3 cut(s) 392, 405, 1293
MspI CCGG 1 cut(s) 138
MspR9I CCNGG 2 cut(s) 26, 407
MunI CAATTG 1 cut(s) 1698
Mva1269I GAATGC 1 cut(s) 89
MvaI CCWGG 2 cut(s) 26, 407
MvnI CGCG 2 cut(s) 365, 817
MwoI GCNNNNNNNGC 5 cut(s) 371, 989, 1208, 1475, 1480
NcoI CCATGG 1 cut(s) 118
NdeII GATC 2 cut(s) 1386, 1390
NmuCI GTSAC 1 cut(s) 1261
NspI RCATGY 2 cut(s) 378, 764
NspV TTCGAA 2 cut(s) 229, 1131
PciI ACATGT 1 cut(s) 760
PcsI WCGNNNNNNNCGW 1 cut(s) 183
PctI GAATGC 1 cut(s) 89
PdmI GAANNNNTTC 1 cut(s) 242
PfeI GAWTC 2 cut(s) 238, 412
Pfl23II CGTACG 1 cut(s) 19
PinAI ACCGGT 1 cut(s) 137
PkrI GCNGC 5 cut(s) 89, 208, 594, 991, 1247
PleI GAGTC 1 cut(s) 30
PpsI GAGTC 1 cut(s) 30
PscI ACATGT 1 cut(s) 760
Psp6I CCWGG 2 cut(s) 24, 405
PspEI GGTNACC 1 cut(s) 575
PspFI CCCAGC 1 cut(s) 1685
PspGI CCWGG 2 cut(s) 24, 405
PspLI CGTACG 1 cut(s) 19
PsrI GAACNNNNNNTAC 2 cut(s) 645, 677
PstI CTGCAG 1 cut(s) 1496
RsaI GTAC 3 cut(s) 21, 1091, 1530
RsaNI GTAC 3 cut(s) 20, 1090, 1529
RseI CAYNNNNRTG 1 cut(s) 737
SaqAI TTAA 4 cut(s) 618, 735, 1023, 1280
SatI GCNGC 5 cut(s) 88, 207, 593, 990, 1246
Sau3AI GATC 2 cut(s) 1386, 1390
SbfI CCTGCAGG 1 cut(s) 1496
SchI GAGTC 1 cut(s) 30
ScrFI CCNGG 2 cut(s) 26, 407
SdaI CCTGCAGG 1 cut(s) 1496
SduI GDGCHC 3 cut(s) 328, 382, 1692
SfaNI GCATC 2 cut(s) 496, 1048
SfcI CTRYAG 2 cut(s) 1225, 1492
SfuI TTCGAA 2 cut(s) 229, 1131
SmiMI CAYNNNNRTG 1 cut(s) 737
SmlI CTYRAG 2 cut(s) 319, 1213
SmoI CTYRAG 2 cut(s) 319, 1213
Sse8387I CCTGCAGG 1 cut(s) 1496
Sse9I AATT 7 cut(s) 386, 527, 754, 804, 862, 952, 1698
SsiI CCGC 5 cut(s) 363, 444, 573, 1061, 1238
SspI AATATT 1 cut(s) 334
SspMI CTAG 4 cut(s) 341, 648, 1109, 1304
StyD4I CCNGG 2 cut(s) 24, 405
StyI CCWWGG 3 cut(s) 50, 118, 703
TaaI ACNGT 6 cut(s) 457, 485, 661, 1187, 1379, 1642
TaqI TCGA 6 cut(s) 229, 522, 828, 1131, 1389, 1437
TasI AATT 7 cut(s) 386, 527, 754, 804, 862, 952, 1698
TatI WGTACW 1 cut(s) 1528
TfiI GAWTC 2 cut(s) 238, 412
Tru1I TTAA 4 cut(s) 618, 735, 1023, 1280
Tru9I TTAA 4 cut(s) 618, 735, 1023, 1280
TscAI CASTG 3 cut(s) 400, 460, 664
TseFI GTSAC 1 cut(s) 1261
TseI GCWGC 5 cut(s) 87, 206, 592, 989, 1245
Tsp45I GTSAC 1 cut(s) 1261
TspGWI ACGGA 1 cut(s) 175
TspRI CASTG 3 cut(s) 400, 460, 664
XapI RAATTY 1 cut(s) 527
XbaI TCTAGA 2 cut(s) 340, 1108
XceI RCATGY 2 cut(s) 378, 764
XcmI CCANNNNNNNNNTGG 2 cut(s) 413, 688
XmiI GTMKAC 1 cut(s) 873
XmnI GAANNNNTTC 1 cut(s) 242
XspI CTAG 4 cut(s) 341, 648, 1109, 1304
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.