RchiOBHm_Chr5g0064911

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0013053
Physical Location & Seq
Reverse (-)
70834222 .. 70836940
2719 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1707 bp
ATGTCACCAACGAACGAAGCTCTTGTCCTCATCCAAAAAATGGTGAAAAGCTCGCCACTCAAAGCCTTGTCAATCTTCAACTCCTCAACTCTCCAAGGCTTCCACCACACCCACCACTCCATCTCCTTCATTCTTCACAATCTCATCTCCTCCAATATGCCAATGCACGCCCAGTCTCTCATTCTTCAACTCCTCTCCGGTCGAATCTCATCCCCATTCTTCACTCCCTCGTCTCTCCTCCACGATTTAACTCAACCCAAGTTGAGCTCAGTCCCCACCTCTGGTCATCTATACGAAGCAATCATCAACGCCCACGTTCAAACTCAGTTGCCAGAGCAAGCCCTTTACTATTTGAACAAAATGGTTGATCAAGGCCTCGTTCCCAGATCAAACACTTTCAATAACGTATTGGGTTTCCTTGTTAAGTCGAGAGATTTTGAAAAGGCTTGGTGGGTGTTCAATGAGTTTAAAGGTAAGGTGGGATTGGATTTGTATAGTTTTGGGATAGTTTTAAAAAGTTGCTGCGAGGGTGGTGAATTGGATAGGGGGTTTGGGGTTTTTGATGAGATGGAGGAAATGAGTTGGTCTCCAAATGTGGTTATATATACTACATTGATTGATGGGTGTTGCAAGAATGGTGATTTAGAGAGGGCAGAGAAGATGTTTTGTAAAATGGGGGAGCTTGGTTTGGTTGCTAATCAGTTTACATATACTGTGTTGATTGATGGGCTTTTCAAGAAAGGTCGGAATAAAGAAGGGTTTGAGTTGTATGAGAAGATGAAGATTAATGGGGTTGTTCCTAACATGCGTACTTATACTTGTTTGATCAGTGGGTGCTGCAACGATGGAAAAATGAATAGTGCCTTGAACCTGTTCGATGAAATGCGTGAGAGAGGAATGGCCTGCAATGTGGTCACATATAACATCCTAATTGGTGGGTTGTGTCGAGAAATGAGGGTTTGGGAAGCTGAGAAGTTTGTGAATGAGATGAAGAGGGATGGTATTAGTCCAAGTATAGTTACTTTCAACACTCTGATTGATGGGTTTTGTGGTCTTGGAAAGTTAGACAAGGCGTTGAGTTTGTTTGATCAGTTGAAGTCGAATGGACAATCTCCGTCTCTGGTGACTTACAATGTTCTGATTCAAGGCTTTACCAAAGCTCGAAACTCTGCTGGAGTTATTGATTTGGTGAGAGAGATGGAGAACAGAGGCATGTCTCCTTCTAAAGTGACGTATACAATTGTAATTGATGCCTTGGTTCGATCTGATGACATGGAAAGAGCATTTCATGTGTTCTCCTCCATGGGGAAGGCTGGTCTGGTGCCTGATGTCTACACCTATGGGGTCTTAATACATGGATTATGCATGAAAGGTAATATGATTGAAGCATCAAAGCTGTTACAATCAATGAGCGATTCACATTTGGAGCCAAGTGATGTCATATTTAATATAATGATTCATGGCTACTGCAAAGAGGGTAGCTCTTACAGGGCACTGAGGTTGCTCAAAGAAATGAGAAAGAAAGGAATGGTTCCGAATGTGGCTAGTTATAGTTCGACCATTGGAGTTCTTTGTAATGATGGGAAATGGGAAGAAGCTGAAATACTACTTAAAGAAATGACGGACTCAGATTCGAAACCATCAGTTTCTTTGTATAATATAGTCTCTAGAGTGAAAGATGATACACCGGTGAAGTTATCAACCTAA

Protein Analysis

568

Amino Acids

63.36

Weight (kDa)

6.89

Isoelectric Point (pI)

40.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 161 - 284 3.5e-08 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 186 - 242 4.9e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 196 - 225 2.3e-12 PPR repeat
PPR_2 PF13041 197 - 246 3.9e-17 PPR repeat family
PPR PF01535 200 - 230 1.2e-09 PPR repeat
PPR_long PF17177 205 - 318 3.3e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 229 - 261 1.1e-07 PPR repeat
PPR_2 PF13041 233 - 281 2.2e-16 PPR repeat family
PPR PF01535 235 - 265 2.9e-06 PPR repeat
PPR_3 PF13812 256 - 312 5.8e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 263 - 296 2.4e-12 PPR repeat
PPR_2 PF13041 271 - 316 2e-18 PPR repeat family
PPR PF01535 271 - 299 3.6e-09 PPR repeat
TPR_24 PF23276 272 - 364 3.2e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 298 - 331 1.2e-12 PPR repeat
PPR_2 PF13041 303 - 350 1.2e-17 PPR repeat family
PPR PF01535 305 - 335 6e-08 PPR repeat
PPR_3 PF13812 327 - 384 4.8e-13 Pentatricopeptide repeat domain
PPR_1 PF12854 333 - 365 2.1e-11 PPR repeat
PPR_2 PF13041 337 - 386 1.1e-16 PPR repeat family
PPR PF01535 340 - 369 4.3e-08 PPR repeat
PPR_long PF17177 356 - 480 1.4e-09 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 372 - 421 2.7e-13 PPR repeat family
PPR_3 PF13812 396 - 452 9.3e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 410 - 455 8.6e-15 PPR repeat family
PPR_3 PF13812 438 - 489 9.1e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 439 - 470 1.2e-09 PPR repeat
PPR_3 PF13812 465 - 524 5e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 475 - 506 1.9e-08 PPR repeat
PPR_2 PF13041 477 - 526 4.3e-14 PPR repeat family
PPR PF01535 480 - 509 3.4e-08 PPR repeat
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: OG0013053)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G11690 AT4G11690
fragaria_vesca FvH4_3g36170
malus_domestica MD03G1092900.v1.1
prunus_persica Prupe.6G076800_v2.0.a1
pyrus_communis pycom03g07420
rosa_chinensis RchiOBHm_Chr5g0064671 RchiOBHm_Chr5g0064911
rosa_laevigata RLG00000035740 RLG00000035742
rosa_multiflora Rmu_sc0020903.1_g000003 Rmu_sc0025431.1_g000001
rosa_roxburghii Rroxscaffold_1G00016400
rosa_rugosa Rorug05G0366600
rosa_samantha Rh5AG425100 Rh5CG462600 Rh5DG453100
rosa_wichuraiana Rw5G039940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1321
AccB7I CCANNNNNTGG 1 cut(s) 40
AccI GTMKAC 2 cut(s) 1235, 1332
AfaI GTAC 1 cut(s) 811
AfiI CCNNNNNNNGG 3 cut(s) 40, 281, 1305
AgeI ACCGGT 1 cut(s) 1687
AluBI AGCT 9 cut(s) 20, 51, 267, 682, 968, 1160, 1396, 1482, 1598
AluI AGCT 9 cut(s) 20, 51, 267, 682, 968, 1160, 1396, 1482, 1598
Alw21I GWGCWC 1 cut(s) 269
Alw26I GTCTC 6 cut(s) 180, 237, 591, 1122, 1221, 1669
AoxI GGCC 2 cut(s) 373, 900
ApeKI GCWGC 2 cut(s) 522, 837
ArsI GACNNNNNNTTYG 2 cut(s) 9, 41
AseI ATTAAT 1 cut(s) 786
AsiGI ACCGGT 1 cut(s) 1687
Asp700I GAANNNNTTC 1 cut(s) 872
AsuHPI GGTGA 6 cut(s) 55, 545, 650, 1135, 1201, 1702
AsuII TTCGAA 1 cut(s) 1634
BaeGI GKGCMC 1 cut(s) 1495
BaeI ACNNNNGTAYC 2 cut(s) 1674, 1707
BanI GGYRCC 1 cut(s) 1321
BanII GRGCYC 1 cut(s) 269
BarI GAAGNNNNNNTAC 2 cut(s) 1587, 1619
Bbv12I GWGCWC 1 cut(s) 269
BbvI GCAGC 2 cut(s) 509, 824
BclI TGATCA 3 cut(s) 367, 825, 1087
BcoDI GTCTC 6 cut(s) 180, 237, 591, 1122, 1221, 1669
BfaI CTAG 2 cut(s) 1545, 1668
BisI GCNGC 2 cut(s) 523, 838
BlsI GCNGC 2 cut(s) 524, 839
BmiI GGNNCC 3 cut(s) 1323, 1428, 1533
BmrI ACTGGG 1 cut(s) 166
BmsI GCATC 2 cut(s) 1240, 1397
BmuI ACTGGG 1 cut(s) 166
BplI GAGNNNNNCTC 4 cut(s) 571, 603, 1466, 1498
BpmI CTGGAG 1 cut(s) 1194
Bpu14I TTCGAA 1 cut(s) 1634
BsaI GGTCTC 1 cut(s) 591
BsaJI CCNNGG 3 cut(s) 94, 1254, 1302
BsaWI WCCGGW 2 cut(s) 197, 1687
BsaXI ACNNNNNCTCC 2 cut(s) 107, 137
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 281, 1305
Bse118I RCCGGY 1 cut(s) 1687
Bse1I ACTGG 1 cut(s) 172
Bse3DI GCAATG 1 cut(s) 913
BseDI CCNNGG 3 cut(s) 94, 1254, 1302
BseGI GGATG 4 cut(s) 30, 209, 924, 1003
BseLI CCNNNNNNNGG 3 cut(s) 40, 281, 1305
BseMI GCAATG 1 cut(s) 913
BseMII CTCAG 5 cut(s) 282, 338, 960, 1487, 1641
BseNI ACTGG 1 cut(s) 172
BseRI GAGGAG 5 cut(s) 73, 139, 182, 227, 1288
BseSI GKGCMC 1 cut(s) 1495
BseXI GCAGC 2 cut(s) 509, 824
Bsh1285I CGRYCG 1 cut(s) 202
BshFI GGCC 2 cut(s) 375, 902
BshNI GGYRCC 1 cut(s) 1321
BshTI ACCGGT 1 cut(s) 1687
BsiEI CGRYCG 1 cut(s) 202
BsiHKAI GWGCWC 1 cut(s) 269
BsiSI CCGG 2 cut(s) 198, 1688
BslFI GGGAC 1 cut(s) 257
BslI CCNNNNNNNGG 3 cut(s) 40, 281, 1305
BsmAI GTCTC 6 cut(s) 180, 237, 591, 1122, 1221, 1669
BsmBI CGTCTC 2 cut(s) 237, 1122
BsmFI GGGAC 1 cut(s) 257
BsnI GGCC 2 cut(s) 375, 902
Bso31I GGTCTC 1 cut(s) 591
Bsp119I TTCGAA 1 cut(s) 1634
Bsp1286I GDGCHC 2 cut(s) 269, 1495
Bsp143I GATC 5 cut(s) 367, 386, 825, 1087, 1262
Bsp19I CCATGG 1 cut(s) 1302
BspANI GGCC 2 cut(s) 375, 902
BspCNI CTCAG 5 cut(s) 281, 337, 961, 1488, 1640
BspLI GGNNCC 3 cut(s) 1323, 1428, 1533
BspT104I TTCGAA 1 cut(s) 1634
BspT107I GGYRCC 1 cut(s) 1321
BspTNI GGTCTC 1 cut(s) 591
BsrDI GCAATG 1 cut(s) 913
BsrFI RCCGGY 1 cut(s) 1687
BsrI ACTGG 1 cut(s) 172
BssAI RCCGGY 1 cut(s) 1687
BssECI CCNNGG 3 cut(s) 94, 1254, 1302
BssMI GATC 5 cut(s) 367, 386, 825, 1087, 1262
BssNAI GTATAC 1 cut(s) 1236
BssT1I CCWWGG 3 cut(s) 94, 1254, 1302
Bst1107I GTATAC 1 cut(s) 1236
Bst4CI ACNGT 1 cut(s) 715
Bst6I CTCTTC 1 cut(s) 986
BstBI TTCGAA 1 cut(s) 1634
BstC8I GCNNGC 4 cut(s) 53, 168, 339, 904
BstDEI CTNAG 5 cut(s) 268, 324, 969, 1496, 1627
BstDSI CCRYGG 1 cut(s) 1302
BstF5I GGATG 4 cut(s) 30, 209, 924, 1003
BstKTI GATC 5 cut(s) 370, 389, 828, 1090, 1265
BstMAI GTCTC 6 cut(s) 180, 237, 591, 1122, 1221, 1669
BstMBI GATC 5 cut(s) 367, 386, 825, 1087, 1262
BstMCI CGRYCG 1 cut(s) 202
BstNSI RCATGY 2 cut(s) 808, 1216
BstSLI GKGCMC 1 cut(s) 1495
BstV1I GCAGC 2 cut(s) 509, 824
BstZ17I GTATAC 1 cut(s) 1236
BsuRI GGCC 2 cut(s) 375, 902
BtgI CCRYGG 1 cut(s) 1302
BtsCI GGATG 4 cut(s) 30, 209, 924, 1003
BtsIMutI CAGTG 2 cut(s) 835, 1493
Cac8I GCNNGC 4 cut(s) 53, 168, 339, 904
Cfr10I RCCGGY 1 cut(s) 1687
Csp6I GTAC 1 cut(s) 810
CspAI ACCGGT 1 cut(s) 1687
CviAII CATG 8 cut(s) 805, 1213, 1273, 1289, 1303, 1355, 1366, 1460
CviQI GTAC 1 cut(s) 810
DdeI CTNAG 5 cut(s) 268, 324, 969, 1496, 1627
DpnI GATC 5 cut(s) 369, 388, 827, 1089, 1264
DpnII GATC 5 cut(s) 367, 386, 825, 1087, 1262
DraI TTTAAA 2 cut(s) 469, 513
Eam1104I CTCTTC 1 cut(s) 986
EarI CTCTTC 1 cut(s) 986
Ecl136II GAGCTC 1 cut(s) 267
Eco130I CCWWGG 3 cut(s) 94, 1254, 1302
Eco147I AGGCCT 1 cut(s) 375
Eco24I GRGCYC 1 cut(s) 269
Eco31I GGTCTC 1 cut(s) 591
Eco53kI GAGCTC 1 cut(s) 267
EcoICRI GAGCTC 1 cut(s) 267
EcoT14I CCWWGG 3 cut(s) 94, 1254, 1302
EcoT22I ATGCAT 1 cut(s) 1367
EcoT38I GRGCYC 1 cut(s) 269
ErhI CCWWGG 3 cut(s) 94, 1254, 1302
Esp3I CGTCTC 2 cut(s) 237, 1122
FaeI CATG 8 cut(s) 808, 1216, 1276, 1292, 1306, 1358, 1369, 1463
FaqI GGGAC 1 cut(s) 257
FatI CATG 8 cut(s) 804, 1212, 1272, 1288, 1302, 1354, 1365, 1459
FbaI TGATCA 3 cut(s) 367, 825, 1087
FblI GTMKAC 2 cut(s) 1235, 1332
Fnu4HI GCNGC 2 cut(s) 523, 838
FokI GGATG 4 cut(s) 17, 196, 911, 1010
FriOI GRGCYC 1 cut(s) 269
Fsp4HI GCNGC 2 cut(s) 523, 838
FspBI CTAG 2 cut(s) 1545, 1668
GluI GCNGC 2 cut(s) 523, 838
GsuI CTGGAG 1 cut(s) 1194
HaeIII GGCC 2 cut(s) 375, 902
HapII CCGG 2 cut(s) 198, 1688
Hin1II CATG 8 cut(s) 808, 1216, 1276, 1292, 1306, 1358, 1369, 1463
HinfI GANTC 6 cut(s) 204, 1141, 1415, 1456, 1625, 1631
HpaII CCGG 2 cut(s) 198, 1688
HphI GGTGA 6 cut(s) 55, 545, 650, 1135, 1201, 1702
Hpy166II GTNNAC 3 cut(s) 705, 1236, 1333
Hpy188I TCNGA 6 cut(s) 747, 1035, 1140, 1267, 1536, 1630
Hpy188III TCNNGA 4 cut(s) 429, 736, 947, 1668
Hpy8I GTNNAC 3 cut(s) 705, 1236, 1333
HpyAV CCTTC 4 cut(s) 136, 749, 1230, 1303
HpyCH4III ACNGT 1 cut(s) 715
HpyCH4IV ACGT 3 cut(s) 315, 405, 1232
HpyCH4V TGCA 6 cut(s) 166, 630, 840, 906, 1365, 1470
HpyF3I CTNAG 5 cut(s) 268, 324, 969, 1496, 1627
HpySE526I ACGT 3 cut(s) 315, 405, 1232
Hsp92II CATG 8 cut(s) 808, 1216, 1276, 1292, 1306, 1358, 1369, 1463
Ksp22I TGATCA 3 cut(s) 367, 825, 1087
Kzo9I GATC 5 cut(s) 367, 386, 825, 1087, 1262
LmnI GCTCC 2 cut(s) 679, 1426
Lsp1109I GCAGC 2 cut(s) 509, 824
LweI GCATC 2 cut(s) 1240, 1397
MaeI CTAG 2 cut(s) 1545, 1668
MaeII ACGT 3 cut(s) 315, 405, 1232
MaeIII GTNAC 6 cut(s) 3, 913, 1018, 1123, 1228, 1398
MalI GATC 5 cut(s) 369, 388, 827, 1089, 1264
MboI GATC 5 cut(s) 367, 386, 825, 1087, 1262
MboII GAAGA 9 cut(s) 67, 125, 176, 211, 670, 787, 793, 1003, 1604
MfeI CAATTG 1 cut(s) 1239
MhlI GDGCHC 2 cut(s) 269, 1495
MluCI AATT 4 cut(s) 536, 930, 1239, 1245
MlyI GAGTC 1 cut(s) 1619
MmeI TCCRAC 1 cut(s) 725
Mph1103I ATGCAT 1 cut(s) 1367
MroXI GAANNNNTTC 1 cut(s) 872
MseI TTAA 8 cut(s) 248, 423, 468, 512, 786, 1349, 1446, 1611
MspI CCGG 2 cut(s) 198, 1688
MunI CAATTG 1 cut(s) 1239
NcoI CCATGG 1 cut(s) 1302
NdeII GATC 5 cut(s) 367, 386, 825, 1087, 1262
NlaIII CATG 8 cut(s) 808, 1216, 1276, 1292, 1306, 1358, 1369, 1463
NlaIV GGNNCC 3 cut(s) 1323, 1428, 1533
NmuCI GTSAC 4 cut(s) 3, 913, 1123, 1228
NsiI ATGCAT 1 cut(s) 1367
NspI RCATGY 2 cut(s) 808, 1216
NspV TTCGAA 1 cut(s) 1634
PceI AGGCCT 1 cut(s) 375
PdmI GAANNNNTTC 1 cut(s) 872
PfeI GAWTC 5 cut(s) 204, 1141, 1415, 1456, 1631
PflMI CCANNNNNTGG 1 cut(s) 40
PinAI ACCGGT 1 cut(s) 1687
PkrI GCNGC 2 cut(s) 524, 839
PleI GAGTC 1 cut(s) 1619
PpsI GAGTC 1 cut(s) 1619
PshBI ATTAAT 1 cut(s) 786
Psp124BI GAGCTC 1 cut(s) 269
PspN4I GGNNCC 3 cut(s) 1323, 1428, 1533
RsaI GTAC 1 cut(s) 811
RsaNI GTAC 1 cut(s) 810
SacI GAGCTC 1 cut(s) 269
SaqAI TTAA 8 cut(s) 248, 423, 468, 512, 786, 1349, 1446, 1611
SatI GCNGC 2 cut(s) 523, 838
Sau3AI GATC 5 cut(s) 367, 386, 825, 1087, 1262
SchI GAGTC 1 cut(s) 1619
SduI GDGCHC 2 cut(s) 269, 1495
SfaNI GCATC 2 cut(s) 1240, 1397
SfuI TTCGAA 1 cut(s) 1634
SgrAI CRCCGGYG 1 cut(s) 1687
Sse9I AATT 4 cut(s) 536, 930, 1239, 1245
SseBI AGGCCT 1 cut(s) 375
SspMI CTAG 2 cut(s) 1545, 1668
SstI GAGCTC 1 cut(s) 269
StuI AGGCCT 1 cut(s) 375
StyI CCWWGG 3 cut(s) 94, 1254, 1302
TaaI ACNGT 1 cut(s) 715
TaiI ACGT 3 cut(s) 318, 408, 1235
TaqI TCGA 9 cut(s) 202, 428, 876, 946, 1100, 1162, 1261, 1556, 1634
TasI AATT 4 cut(s) 536, 930, 1239, 1245
TfiI GAWTC 5 cut(s) 204, 1141, 1415, 1456, 1631
Tru1I TTAA 8 cut(s) 248, 423, 468, 512, 786, 1349, 1446, 1611
Tru9I TTAA 8 cut(s) 248, 423, 468, 512, 786, 1349, 1446, 1611
TscAI CASTG 2 cut(s) 835, 1500
TseFI GTSAC 4 cut(s) 3, 913, 1123, 1228
TseI GCWGC 2 cut(s) 522, 837
Tsp45I GTSAC 4 cut(s) 3, 913, 1123, 1228
TspDTI ATGAA 8 cut(s) 118, 794, 869, 894, 1004, 1277, 1382, 1448
TspGWI ACGGA 2 cut(s) 1104, 1637
TspRI CASTG 2 cut(s) 835, 1500
Van91I CCANNNNNTGG 1 cut(s) 40
VspI ATTAAT 1 cut(s) 786
XbaI TCTAGA 1 cut(s) 1667
XceI RCATGY 2 cut(s) 808, 1216
XmiI GTMKAC 2 cut(s) 1235, 1332
XmnI GAANNNNTTC 1 cut(s) 872
XspI CTAG 2 cut(s) 1545, 1668
Zsp2I ATGCAT 1 cut(s) 1367
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.