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
Loading structure...
UTR
Exon/CDS
Intron
PRQ54027

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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.