RchiOBHm_Chr2g0173011

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0015439
Physical Location & Seq
Forward (+)
86172069 .. 86176350
4282 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1905 bp
ATGAATCGAGCTTCACTCTACTCTCCCTGTCAAACCAAAAACCCATTCTTTAACATCTGTTTCATACTAAAAATCTCAACTCTCTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTCTACAGACCATCCCAGATTCTCCCTCCACATCAATCTCAAACCCCCTTTACCATTTTCTCCCCCAAACCCAAAACCCCAACAACATAGTCAATCTCATCTGCTCAGCCCTCAAGCAACCACAGACCCACCACCATCTTTCCCATCTCCAAAACCACCTCAAACCCCTTCTTCCCCATCTGGGTGGTCAACATATCTCAAGGGTTCTCCTCAGGTTCCAATCTGATCACTCCTCAGCTCTTGTTTTCTTCAACTGGGTCAAGCATGGTTTGGGCCTCAGACCCACCACCCAGAACTATTGCATTGCTCTTCATATATTGGCTTGCTCTAAAAAGTTTCCCCAGGCTATGAAATTGTTGTGTGAATTGATAGAGCTGGTTAGGGATGTGGGTGCGTCATCCAAAGATGACATTTTTCATAGTTTGGTTGTTTGTGCTCAAGATTGTAACTGGGATCCAGTTATCTTTGACATGCTCATTAAGGCTTATGTGAAAGCAGGTATGATTAGAGATGGTTTTATCAGTTTTAAGAAGACACTAGAAGTCGGATTTGTTCCGAGTGTGATTGCTTGCAATTGTCTTATGAATGGGTTGGTGAGGTTGAATTGTTTGGATCAGTGCTGGGAGGTGTATGAGGATATGGGAAGGATTGGGGTACACCCAAATGTGTATACTTTTAATATTTTGACTAATGTTTTGTGCAAGGATGGAGATGTTGCGAAAGTGAATGCTTTTTTGGATAGAATGGAAGAAGAAGGATTTGATCCCGATATCGTGACGTATAATACTCTGATTTGTAGCTATTGTAGGAAAGGAAGGTTGGGAGATGCGTTTTATTTGTATAAGATCATGTTTAGGAGGGGTGTGATGCCGGATTTAGTGTCGTACACTGCCTTGATGCACGGTCTTTGTAAACAAGGGAATGTGAGGGAGGCTCATCAGCTTTTTCATCGGATGGTTCATAGAGGGTTGTATCCAGACATTGTGTCGTATAACACTCTTATTGGTGGTTATTGCAATGAGGGGAAGATGCCAGAGTGTAAGTCATTGTTGTATGAGATGATAAAAAATGGTCTTCGTCCAGATGATTTCACTTGTAGGATGGTCACAGAAGGATATGGCAAAGAAGGCAAGTTGCTCTCTGCACTGAATTTGGTAGTGGAGCTTCAACGATTTCAAGTGTCTATTTCTCGTCGCATTTATGATGATCTAATAGTTGCATTGTGTCAAGAAAATCGGCCGTTTGCAGCTAAAAGTCTATTAGAAAGAAGTTCTCAAGATGGTTATTTGCCTGATTTGGATATCTATAACAAATTGATGGAGTCCCTCTGCCAGAGCAATAATGTGACTGAGGCAAAGGTTTTGAAAGCCGAGATGGTTTGTAAGAACATCAAACCCAATCTTATCACATATAAAGCTCTAATATGCTGTCTATGTCGTATAAACAGAACAGTGGAAGGTGAGTCGTTACTGAAAGAGATGGTTGAATCTAGTTTGCTGCCAGATTCAGAAATATGCAGGTCATTGATAAAGGGTTACTGCAAAGAAAGGGATGTTGCTAAAGCAGAATCATTGTTAAGGTTCTTTGCCAAAGAATTTCAAGTTTTTGATTCTGAAAGTTACAATGAACTTGTCAAAATTTTCTGTCAGGATGGTGATATGGCTAAGTTGTTGAAGTTACAAGATAGAATGATGAAAGTGGGTTTTGCACCAAATAGCCTTACACTCAAGTATGCCATCCATGGATTATGGAACGCTACCAGACCAGAGAAAGATAATCTTCTTCTGGAATAA

Protein Analysis

634

Amino Acids

71.92

Weight (kDa)

8.23

Isoelectric Point (pI)

41.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 223 - 272 4e-14 PPR repeat family
PPR_long PF17177 239 - 336 2.6e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 247 - 305 1.5e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 255 - 287 1.1e-06 PPR repeat
PPR_2 PF13041 268 - 302 1.9e-06 PPR repeat family
PPR_1 PF12854 290 - 321 8.2e-12 PPR repeat
PPR_2 PF13041 293 - 342 1.6e-18 PPR repeat family
PPR PF01535 296 - 326 1.5e-07 PPR repeat
PPR_3 PF13812 321 - 377 1.1e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 324 - 357 2.6e-11 PPR repeat
PPR_2 PF13041 328 - 368 2.2e-12 PPR repeat family
PPR PF01535 331 - 361 2.4e-08 PPR repeat
PPR_1 PF12854 359 - 391 1.2e-07 PPR repeat
PPR_2 PF13041 363 - 410 6.8e-13 PPR repeat family
PPR PF01535 366 - 396 7.2e-09 PPR repeat
PPR_2 PF13041 468 - 517 4.1e-11 PPR repeat family
PPR_1 PF12854 499 - 532 7.2e-07 PPR repeat
PPR_2 PF13041 506 - 552 8.6e-06 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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Orthologous Genes (Group: OG0015439)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G40400 AT5G40400
fragaria_vesca FvH4_5g31860
malus_domestica MD09G1028300.v1.1
prunus_persica Prupe.3G290200_v2.0.a1
pyrus_communis pycom111g02230
rosa_chinensis RchiOBHm_Chr2g0173011
rosa_laevigata RLG00000022149
rosa_multiflora Rmu_sc0012743.1_g000003
rosa_roxburghii Rroxscaffold_2G00079320
rosa_samantha Rh2AG641500 Rh2AG644000 Rh2BG654800 Rh2CG620200 Rh2DG668400
rosa_wichuraiana Rw2G052920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 599, 1620
AccI GTMKAC 1 cut(s) 782
AclWI GGATC 4 cut(s) 560, 573, 732, 869
AcoI YGGCCR 1 cut(s) 1349
AcsI RAATTY 3 cut(s) 1261, 1706, 1749
AfaI GTAC 2 cut(s) 768, 998
AfiI CCNNNNNNNGG 1 cut(s) 293
AgsI TTSAA 8 cut(s) 364, 715, 1280, 1289, 1477, 1598, 1712, 1786
AhdI GACNNNNNGTC 1 cut(s) 1096
AjnI CCWGG 1 cut(s) 453
AjuI GAANNNNNNNTTGG 6 cut(s) 29, 61, 830, 862, 914, 946
AluBI AGCT 8 cut(s) 11, 350, 487, 912, 1054, 1276, 1361, 1529
AluI AGCT 8 cut(s) 11, 350, 487, 912, 1054, 1276, 1361, 1529
Alw21I GWGCWC 1 cut(s) 550
AlwI GGATC 4 cut(s) 560, 573, 732, 869
AoxI GGCC 2 cut(s) 385, 1349
ApeKI GCWGC 2 cut(s) 1358, 1609
ApoI RAATTY 3 cut(s) 1261, 1706, 1749
ArsI GACNNNNNNTTYG 2 cut(s) 790, 822
AspS9I GGNCC 1 cut(s) 385
AsuHPI GGTGA 3 cut(s) 718, 1583, 1778
AxyI CCTNAGG 1 cut(s) 323
BamHI GGATCC 1 cut(s) 565
BarI GAAGNNNNNNTAC 2 cut(s) 1260, 1292
BbsI GAAGAC 2 cut(s) 650, 1178
Bbv12I GWGCWC 1 cut(s) 550
BbvCI CCTCAGC 1 cut(s) 346
BbvI GCAGC 2 cut(s) 1370, 1596
BceAI ACGGC 1 cut(s) 1336
BciT130I CCWGG 1 cut(s) 455
BciVI GTATCC 1 cut(s) 1095
BclI TGATCA 1 cut(s) 337
BfaI CTAG 2 cut(s) 650, 1602
BfmI CTRYAG 1 cut(s) 116
BfuAI ACCTGC 2 cut(s) 599, 1620
BfuI GTATCC 1 cut(s) 1095
BisI GCNGC 2 cut(s) 1359, 1610
BlpI GCTNAGC 1 cut(s) 217
BlsI GCNGC 2 cut(s) 1360, 1611
Bme1390I CCNGG 1 cut(s) 455
BmeRI GACNNNNNGTC 1 cut(s) 1096
BmgT120I GGNCC 1 cut(s) 385
BmiI GGNNCC 2 cut(s) 329, 567
BmrFI CCNGG 1 cut(s) 455
BmrI ACTGGG 2 cut(s) 376, 571
BmsI GCATC 4 cut(s) 928, 969, 999, 1131
BmuI ACTGGG 2 cut(s) 376, 571
BpiI GAAGAC 2 cut(s) 650, 1178
BplI GAGNNNNNCTC 3 cut(s) 32, 1030, 1062
Bpu10I CCTNAGC 1 cut(s) 346
Bpu1102I GCTNAGC 1 cut(s) 217
BpuEI CTTGAG 5 cut(s) 209, 295, 534, 1371, 1823
BsaJI CCNNGG 2 cut(s) 453, 1852
Bsc4I CCNNNNNNNGG 1 cut(s) 293
Bse1I ACTGG 3 cut(s) 371, 566, 569
Bse21I CCTNAGG 1 cut(s) 323
Bse3DI GCAATG 2 cut(s) 414, 1135
BseBI CCWGG 1 cut(s) 455
BseDI CCNNGG 2 cut(s) 453, 1852
BseGI GGATG 9 cut(s) 123, 502, 509, 823, 1071, 1218, 1669, 1768, 1848
BseLI CCNNNNNNNGG 1 cut(s) 293
BseMI GCAATG 2 cut(s) 414, 1135
BseMII CTCAG 5 cut(s) 231, 337, 360, 403, 1452
BseNI ACTGG 3 cut(s) 371, 566, 569
BseRI GAGGAG 2 cut(s) 311, 334
BseX3I CGGCCG 1 cut(s) 1349
BseXI GCAGC 2 cut(s) 1370, 1596
BseYI CCCAGC 1 cut(s) 732
BsgI GTGCAG 1 cut(s) 1239
Bsh1285I CGRYCG 1 cut(s) 1352
BshFI GGCC 2 cut(s) 387, 1351
BsiEI CGRYCG 1 cut(s) 1352
BsiHKAI GWGCWC 1 cut(s) 550
BsiSI CCGG 1 cut(s) 983
BslFI GGGAC 1 cut(s) 1420
BslI CCNNNNNNNGG 1 cut(s) 293
BsmFI GGGAC 1 cut(s) 1420
BsmI GAATGC 1 cut(s) 844
BsnI GGCC 2 cut(s) 387, 1351
Bsp1286I GDGCHC 1 cut(s) 550
Bsp143I GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
Bsp1720I GCTNAGC 1 cut(s) 217
Bsp19I CCATGG 1 cut(s) 1852
BspANI GGCC 2 cut(s) 387, 1351
BspCNI CTCAG 5 cut(s) 230, 336, 359, 402, 1453
BspLI GGNNCC 2 cut(s) 329, 567
BspMI ACCTGC 2 cut(s) 599, 1620
BspPI GGATC 4 cut(s) 560, 573, 732, 869
BspQI GCTCTTC 1 cut(s) 426
BsrDI GCAATG 2 cut(s) 414, 1135
BsrI ACTGG 3 cut(s) 371, 566, 569
BssECI CCNNGG 2 cut(s) 453, 1852
BssMI GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
BssNAI GTATAC 1 cut(s) 783
BssT1I CCWWGG 1 cut(s) 1852
Bst1107I GTATAC 1 cut(s) 783
Bst2UI CCWGG 1 cut(s) 455
Bst4CI ACNGT 2 cut(s) 1016, 1564
Bst6I CTCTTC 2 cut(s) 91, 426
BstC8I GCNNGC 2 cut(s) 436, 682
BstDEI CTNAG 6 cut(s) 217, 323, 346, 389, 1461, 1776
BstDSI CCRYGG 1 cut(s) 1852
BstF5I GGATG 9 cut(s) 123, 502, 509, 823, 1071, 1218, 1669, 1768, 1848
BstKTI GATC 6 cut(s) 340, 568, 727, 877, 960, 1321
BstMBI GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
BstMCI CGRYCG 1 cut(s) 1352
BstMWI GCNNNNNNNGC 1 cut(s) 1239
BstNI CCWGG 1 cut(s) 455
BstNSI RCATGY 1 cut(s) 586
BstSCI CCNGG 1 cut(s) 453
BstSFI CTRYAG 1 cut(s) 116
BstV1I GCAGC 2 cut(s) 1370, 1596
BstV2I GAAGAC 2 cut(s) 650, 1178
BstX2I RGATCY 1 cut(s) 565
BstXI CCANNNNNNTGG 1 cut(s) 296
BstYI RGATCY 1 cut(s) 565
BstZ17I GTATAC 1 cut(s) 783
BstZI CGGCCG 1 cut(s) 1349
Bsu36I CCTNAGG 1 cut(s) 323
BsuI GTATCC 1 cut(s) 1095
BsuRI GGCC 2 cut(s) 387, 1351
BtgI CCRYGG 1 cut(s) 1852
BtsCI GGATG 9 cut(s) 123, 502, 509, 823, 1071, 1218, 1669, 1768, 1848
BtsI GCAGTG 1 cut(s) 999
BtsIMutI CAGTG 4 cut(s) 734, 999, 1256, 1569
BveI ACCTGC 2 cut(s) 599, 1620
Cac8I GCNNGC 2 cut(s) 436, 682
Cfr13I GGNCC 1 cut(s) 385
CseI GACGC 1 cut(s) 495
Csp6I GTAC 2 cut(s) 767, 997
CviAII CATG 4 cut(s) 377, 583, 961, 1853
CviQI GTAC 2 cut(s) 767, 997
DdeI CTNAG 6 cut(s) 217, 323, 346, 389, 1461, 1776
DpnI GATC 6 cut(s) 339, 567, 726, 876, 959, 1320
DpnII GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
DriI GACNNNNNGTC 1 cut(s) 1096
EaeI YGGCCR 1 cut(s) 1349
EagI CGGCCG 1 cut(s) 1349
Eam1104I CTCTTC 2 cut(s) 91, 426
Eam1105I GACNNNNNGTC 1 cut(s) 1096
EarI CTCTTC 2 cut(s) 91, 426
EclXI CGGCCG 1 cut(s) 1349
Eco130I CCWWGG 1 cut(s) 1852
Eco32I GATATC 2 cut(s) 883, 1414
Eco52I CGGCCG 1 cut(s) 1349
Eco81I CCTNAGG 1 cut(s) 323
EcoRII CCWGG 1 cut(s) 453
EcoRV GATATC 2 cut(s) 883, 1414
EcoT14I CCWWGG 1 cut(s) 1852
ErhI CCWWGG 1 cut(s) 1852
FaeI CATG 4 cut(s) 380, 586, 964, 1856
FalI AAGNNNNNCTT 1 cut(s) 1875
FaqI GGGAC 1 cut(s) 1420
FatI CATG 4 cut(s) 376, 582, 960, 1852
FbaI TGATCA 1 cut(s) 337
FblI GTMKAC 1 cut(s) 782
Fnu4HI GCNGC 2 cut(s) 1359, 1610
FokI GGATG 9 cut(s) 110, 496, 509, 830, 1078, 1225, 1676, 1775, 1835
Fsp4HI GCNGC 2 cut(s) 1359, 1610
FspBI CTAG 2 cut(s) 650, 1602
GluI GCNGC 2 cut(s) 1359, 1610
GsaI CCCAGC 1 cut(s) 736
HaeIII GGCC 2 cut(s) 387, 1351
HapII CCGG 1 cut(s) 983
HgaI GACGC 1 cut(s) 495
Hin1II CATG 4 cut(s) 380, 586, 964, 1856
HincII GTYRAC 1 cut(s) 302
HindII GTYRAC 1 cut(s) 302
HinfI GANTC 8 cut(s) 4, 131, 1433, 1574, 1598, 1616, 1679, 1721
HpaII CCGG 1 cut(s) 983
HphI GGTGA 3 cut(s) 718, 1583, 1778
Hpy166II GTNNAC 5 cut(s) 302, 769, 783, 999, 1025
Hpy188I TCNGA 8 cut(s) 337, 392, 659, 669, 903, 1065, 1621, 1726
Hpy188III TCNNGA 9 cut(s) 551, 878, 886, 1088, 1193, 1340, 1388, 1760, 1898
Hpy8I GTNNAC 5 cut(s) 302, 769, 783, 999, 1025
Hpy99I CGWCG 1 cut(s) 1308
HpyAV CCTTC 7 cut(s) 290, 750, 860, 921, 1217, 1232, 1562
HpyCH4III ACNGT 2 cut(s) 1016, 1564
HpyCH4IV ACGT 1 cut(s) 890
HpyF10VI GCNNNNNNNGC 1 cut(s) 1239
HpyF3I CTNAG 6 cut(s) 217, 323, 346, 389, 1461, 1776
HpySE526I ACGT 1 cut(s) 890
Hsp92II CATG 4 cut(s) 380, 586, 964, 1856
Ksp22I TGATCA 1 cut(s) 337
Kzo9I GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
LguI GCTCTTC 1 cut(s) 426
LmnI GCTCC 1 cut(s) 1273
Lsp1109I GCAGC 2 cut(s) 1370, 1596
LweI GCATC 4 cut(s) 928, 969, 999, 1131
MaeI CTAG 2 cut(s) 650, 1602
MaeII ACGT 1 cut(s) 890
MaeIII GTNAC 8 cut(s) 557, 886, 1216, 1456, 1578, 1646, 1730, 1788
MalI GATC 6 cut(s) 339, 567, 726, 876, 959, 1320
MboI GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
MfeI CAATTG 1 cut(s) 685
MflI RGATCY 1 cut(s) 565
MhlI GDGCHC 1 cut(s) 550
MluCI AATT 8 cut(s) 464, 476, 685, 715, 1261, 1424, 1706, 1749
MlyI GAGTC 2 cut(s) 1442, 1583
MmeI TCCRAC 1 cut(s) 637
MseI TTAA 5 cut(s) 51, 591, 639, 789, 1688
MslI CAYNNNNRTG 2 cut(s) 294, 774
MspI CCGG 1 cut(s) 983
MspR9I CCNGG 1 cut(s) 455
MunI CAATTG 1 cut(s) 685
Mva1269I GAATGC 1 cut(s) 844
MvaI CCWGG 1 cut(s) 455
MwoI GCNNNNNNNGC 1 cut(s) 1239
NcoI CCATGG 1 cut(s) 1852
NdeII GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
NlaIII CATG 4 cut(s) 380, 586, 964, 1856
NlaIV GGNNCC 2 cut(s) 329, 567
NmeAIII GCCGAG 1 cut(s) 1507
NmuCI GTSAC 3 cut(s) 886, 1216, 1456
NspI RCATGY 1 cut(s) 586
PciSI GCTCTTC 1 cut(s) 426
PctI GAATGC 1 cut(s) 844
PfeI GAWTC 6 cut(s) 4, 131, 1598, 1616, 1679, 1721
PkrI GCNGC 2 cut(s) 1360, 1611
PleI GAGTC 2 cut(s) 1441, 1582
PpsI GAGTC 2 cut(s) 1441, 1582
Psp6I CCWGG 1 cut(s) 453
PspFI CCCAGC 1 cut(s) 732
PspGI CCWGG 1 cut(s) 453
PspN4I GGNNCC 2 cut(s) 329, 567
PspPI GGNCC 1 cut(s) 385
PsuI RGATCY 1 cut(s) 565
RsaI GTAC 2 cut(s) 768, 998
RsaNI GTAC 2 cut(s) 767, 997
RseI CAYNNNNRTG 2 cut(s) 294, 774
SapI GCTCTTC 1 cut(s) 426
SaqAI TTAA 5 cut(s) 51, 591, 639, 789, 1688
SatI GCNGC 2 cut(s) 1359, 1610
Sau3AI GATC 6 cut(s) 337, 565, 724, 874, 957, 1318
Sau96I GGNCC 1 cut(s) 385
SchI GAGTC 2 cut(s) 1442, 1583
ScrFI CCNGG 1 cut(s) 455
SduI GDGCHC 1 cut(s) 550
SfaNI GCATC 4 cut(s) 928, 969, 999, 1131
SfcI CTRYAG 1 cut(s) 116
SmiMI CAYNNNNRTG 2 cut(s) 294, 774
SmlI CTYRAG 5 cut(s) 224, 310, 549, 1386, 1838
SmoI CTYRAG 5 cut(s) 224, 310, 549, 1386, 1838
Sse9I AATT 8 cut(s) 464, 476, 685, 715, 1261, 1424, 1706, 1749
SspI AATATT 1 cut(s) 793
SspMI CTAG 2 cut(s) 650, 1602
StyD4I CCNGG 1 cut(s) 453
StyI CCWWGG 1 cut(s) 1852
TaaI ACNGT 2 cut(s) 1016, 1564
TaiI ACGT 1 cut(s) 893
TaqI TCGA 1 cut(s) 7
TasI AATT 8 cut(s) 464, 476, 685, 715, 1261, 1424, 1706, 1749
TfiI GAWTC 6 cut(s) 4, 131, 1598, 1616, 1679, 1721
Tru1I TTAA 5 cut(s) 51, 591, 639, 789, 1688
Tru9I TTAA 5 cut(s) 51, 591, 639, 789, 1688
TscAI CASTG 4 cut(s) 734, 1006, 1263, 1569
TseFI GTSAC 3 cut(s) 886, 1216, 1456
TseI GCWGC 2 cut(s) 1358, 1609
Tsp45I GTSAC 3 cut(s) 886, 1216, 1456
TspRI CASTG 4 cut(s) 734, 1006, 1263, 1569
XapI RAATTY 3 cut(s) 1261, 1706, 1749
XceI RCATGY 1 cut(s) 586
XmiI GTMKAC 1 cut(s) 782
XspI CTAG 2 cut(s) 650, 1602
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.