Rh6BG023900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0015238
Physical Location & Seq
Forward (+)
3460994 .. 3462436
1443 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG023900.1

Sequence Viewer

Length: 1443 bp
ATGGCGGCAGTTCAAATCTTCAAAAGCTCTCGTCTTTTCCCTACTACAAAACCCAACCCCCTCCTCTGCCTCTCCCACTTCTCCTCCTCCGCGCCGTCCGATCAAACCCCACCAGAACCCAACCCCCTAATCCCCTCCGTTGCCTCCATCCTAACCCACCTCCGATCCAAGTCCCGCTGGGGCTACCTCCGCACTCTCTACCCTTCCGGCTTCACCCCAACCGACTTTTCCCAAATCGCCCTCCACATCAAAAACAATCCCCACCTCGTCCTCCGCTTCTTCCAATGGACCCACAACCACAACCACAACCACAACCTCCTCTCCTTCTCCACCACCATCCACATCCTCGCTCGCTCCCGCCTCAAATCCCAAGCCTATTCCCTCATCCGCGACGCCATTCGGGTTTCGGAGCCTCTGCAAGTGTTCGAAGCCCTGGTCAAGACTTACCGGCAATGCGGGTCGGCGCCGTTCGTGTTTGATTACCTGATCAGAGCTTGTTTGGAGTCCAGGAAAATCGACCCGGCACTGCAGATTGTTAGAATGTTGCTCAGTCGCGGCATCAATCCTGGTTTGAACACCTGCAATAGTCTGATTCGGTGCGTGATGCAGGCTCGAGGTGCGTGGGCGGGTTATGAGATTTACAGAGAGGTTTTCGGATTGGATGGTGGGGTTAGGGTTGCGAGAGCTAGGCCGAATGTGCAGACTTTCAATGAGTTGATGTTGGGGTTTTATCAGGACGGGGCGGTGGAGATGGTGGAGGAGATTTGGGACCAAATGCCGGAGTTTGGTTGCTGTGCTGATGTTTATAGTTACAGCATTTTGATGGAGACTTATTGTGAGGACGAGAAAATGAGTAAAGCCGAGGATTTGTGGGAAGAAATGAGAGGTAAGGGTGTGGAGCCTGATGCTGTTGCTTACAACACTATGATTGGGGGGTTTTGCAGAGTTGGGGAGATTGAAATGGCTGAAGAGTTTTTCAAACAAATGGGATTGAGTGGGATAGAGAGTAGTGGTGCCGCTTGCGAGCATCTGGTTAGAGGGTACTGTAAAATAGGGAAAATTGATGAAGCAATGCTGGTGTATAAGGATATGCTTAGGAAAGATTTTAGGGCTGAGAGTTTAACTGTGGATGAGTTGATTAGAGGGCTTTGTGGTGAGAGCAGGGTTTTAGAAGCCTTGGAGGTTATGAGAGCGGCAATGATAGATTATGGTTTTTGTCCAAGGGAGAAGTCGTATGAGTTTTTGATAGGAGGGTTGTGTGAGCAGGGGAAGTTGGAAGAAGCACTTAAGCTTCAGGCTCAGATGGTGGGAAAAGGGTTTAAGCCAAACTCCGAAATCTATAGTGCATTTATTAGCGGCTATATGAAAGAAGGGAACACGGAAGTAGCAGAATTGTTGAGGAATGAAATGTTGGATACTCAGGTGTGTGGGATTGCGGATTAG

Protein Analysis

480

Amino Acids

54.14

Weight (kDa)

5.8

Isoelectric Point (pI)

40.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 231 - 279 6.9e-10 PPR repeat family
PPR_1 PF12854 263 - 295 1.8e-07 PPR repeat
PPR_2 PF13041 273 - 315 1.3e-12 PPR repeat family
PPR_1 PF12854 297 - 329 2.7e-11 PPR repeat
PPR_2 PF13041 301 - 335 6.4e-09 PPR repeat family
PPR PF01535 304 - 334 5.4e-08 PPR repeat
PPR_2 PF13041 341 - 384 8.6e-07 PPR repeat family
PPR_2 PF13041 411 - 444 9.9e-07 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: OG0015238)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G15980
fragaria_vesca FvH4_2g02001 FvH4_2g02001 FvH4_2g02001
malus_domestica MD10G1084800.v1.1
prunus_persica Prupe.8G107700_v2.0.a1
pyrus_communis pycom10g06650
rosa_chinensis RchiOBHm_Chr6g0245191
rosa_laevigata RLG00000015317
rosa_multiflora Rmu_sc0027529.1_g000005 Rmu_sc0038123.1_g000001
rosa_roxburghii Rroxscaffold_7G00215370
rosa_rugosa Rorug05G0512900
rosa_samantha Rh6AG027800 Rh6BG023900
rosa_wichuraiana Rw6G002350

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 587
Acc36I ACCTGC 1 cut(s) 587
AccB1I GGYRCC 2 cut(s) 463, 1013
AccBSI CCGCTC 1 cut(s) 1193
AccII CGCG 3 cut(s) 92, 390, 555
AclWI GGATC 1 cut(s) 159
AcuI CTGAAG 2 cut(s) 987, 1277
AcyI GRCGYC 2 cut(s) 393, 464
AfaI GTAC 1 cut(s) 1043
AfiI CCNNNNNNNGG 2 cut(s) 778, 785
AflII CTTAAG 1 cut(s) 1286
AgsI TTSAA 6 cut(s) 14, 22, 574, 709, 959, 979
AjnI CCWGG 3 cut(s) 432, 506, 565
AjuI GAANNNNNNNTTGG 4 cut(s) 211, 243, 1394, 1426
AluBI AGCT 4 cut(s) 27, 494, 686, 1291
AluI AGCT 4 cut(s) 27, 494, 686, 1291
Alw26I GTCTC 1 cut(s) 821
AlwI GGATC 1 cut(s) 159
Ama87I CYCGRG 1 cut(s) 612
AoxI GGCC 1 cut(s) 689
ArsI GACNNNNNNTTYG 2 cut(s) 420, 452
AspLEI GCGC 2 cut(s) 94, 466
AspS9I GGNCC 2 cut(s) 288, 769
AsuC2I CCSGG 1 cut(s) 521
AsuHPI GGTGA 2 cut(s) 205, 1166
AsuII TTCGAA 1 cut(s) 426
AvaI CYCGRG 1 cut(s) 612
AvaII GGWCC 2 cut(s) 288, 769
BaeI ACNNNNGTAYC 2 cut(s) 1407, 1440
BanI GGYRCC 2 cut(s) 463, 1013
BccI CCATC 6 cut(s) 155, 344, 656, 745, 817, 1297
BceAI ACGGC 2 cut(s) 79, 451
BciT130I CCWGG 3 cut(s) 434, 508, 567
BciVI GTATCC 1 cut(s) 1408
BclI TGATCA 1 cut(s) 486
BcnI CCSGG 1 cut(s) 521
BcoDI GTCTC 1 cut(s) 821
BfaI CTAG 1 cut(s) 687
BfmI CTRYAG 2 cut(s) 527, 1339
BfoI RGCGCY 1 cut(s) 467
BfrI CTTAAG 1 cut(s) 1286
BfuAI ACCTGC 1 cut(s) 587
BfuI GTATCC 1 cut(s) 1408
BisI GCNGC 5 cut(s) 6, 556, 1017, 1194, 1357
BlsI GCNGC 5 cut(s) 7, 557, 1018, 1195, 1358
Bme1390I CCNGG 4 cut(s) 434, 508, 521, 567
Bme18I GGWCC 2 cut(s) 288, 769
BmeT110I CYCGRG 1 cut(s) 612
BmgT120I GGNCC 2 cut(s) 288, 769
BmiI GGNNCC 6 cut(s) 290, 411, 465, 770, 900, 1015
BmrFI CCNGG 4 cut(s) 434, 508, 521, 567
BmsI GCATC 4 cut(s) 567, 594, 895, 1036
Bpu10I CCTNAGC 1 cut(s) 1094
Bpu14I TTCGAA 1 cut(s) 426
BpuMI CCSGG 1 cut(s) 521
BsaHI GRCGYC 2 cut(s) 393, 464
BsaJI CCNNGG 4 cut(s) 432, 861, 1176, 1220
BsaXI ACNNNNNCTCC 6 cut(s) 68, 98, 305, 335, 1217, 1247
Bsc4I CCNNNNNNNGG 2 cut(s) 778, 785
Bse118I RCCGGY 1 cut(s) 447
Bse3DI GCAATG 3 cut(s) 458, 1077, 1203
BseBI CCWGG 3 cut(s) 434, 508, 567
BseDI CCNNGG 4 cut(s) 432, 861, 1176, 1220
BseGI GGATG 6 cut(s) 147, 336, 342, 384, 667, 1135
BseLI CCNNNNNNNGG 2 cut(s) 778, 785
BseMI GCAATG 3 cut(s) 458, 1077, 1203
BseMII CTCAG 4 cut(s) 562, 1104, 1313, 1433
BseRI GAGGAG 5 cut(s) 53, 73, 76, 308, 773
BseYI CCCAGC 1 cut(s) 177
BsgI GTGCAG 1 cut(s) 719
Bsh1236I CGCG 3 cut(s) 92, 390, 555
BshFI GGCC 1 cut(s) 691
BshNI GGYRCC 2 cut(s) 463, 1013
BsiHKCI CYCGRG 1 cut(s) 612
BsiSI CCGG 4 cut(s) 207, 448, 521, 779
BslFI GGGAC 2 cut(s) 157, 782
BslI CCNNNNNNNGG 2 cut(s) 778, 785
BsmAI GTCTC 1 cut(s) 821
BsmFI GGGAC 2 cut(s) 157, 782
BsnI GGCC 1 cut(s) 691
BsoBI CYCGRG 1 cut(s) 612
Bsp119I TTCGAA 1 cut(s) 426
Bsp143I GATC 3 cut(s) 100, 164, 486
BspANI GGCC 1 cut(s) 691
BspCNI CTCAG 4 cut(s) 561, 1105, 1312, 1432
BspFNI CGCG 3 cut(s) 92, 390, 555
BspLI GGNNCC 6 cut(s) 290, 411, 465, 770, 900, 1015
BspMAI CTGCAG 1 cut(s) 531
BspMI ACCTGC 1 cut(s) 587
BspPI GGATC 1 cut(s) 159
BspT104I TTCGAA 1 cut(s) 426
BspT107I GGYRCC 2 cut(s) 463, 1013
BspTI CTTAAG 1 cut(s) 1286
BsrBI CCGCTC 1 cut(s) 1193
BsrDI GCAATG 3 cut(s) 458, 1077, 1203
BsrFI RCCGGY 1 cut(s) 447
BssAI RCCGGY 1 cut(s) 447
BssECI CCNNGG 4 cut(s) 432, 861, 1176, 1220
BssMI GATC 3 cut(s) 100, 164, 486
BssNI GRCGYC 2 cut(s) 393, 464
BssT1I CCWWGG 2 cut(s) 1176, 1220
Bst2UI CCWGG 3 cut(s) 434, 508, 567
Bst4CI ACNGT 2 cut(s) 1046, 1126
Bst6I CTCTTC 1 cut(s) 963
BstACI GRCGYC 2 cut(s) 393, 464
BstAFI CTTAAG 1 cut(s) 1286
BstBI TTCGAA 1 cut(s) 426
BstC8I GCNNGC 4 cut(s) 352, 609, 1021, 1025
BstDEI CTNAG 5 cut(s) 548, 1094, 1113, 1299, 1419
BstF5I GGATG 6 cut(s) 147, 336, 342, 384, 667, 1135
BstFNI CGCG 3 cut(s) 92, 390, 555
BstH2I RGCGCY 1 cut(s) 467
BstHHI GCGC 2 cut(s) 94, 466
BstKTI GATC 3 cut(s) 103, 167, 489
BstMAI GTCTC 1 cut(s) 821
BstMBI GATC 3 cut(s) 100, 164, 486
BstMWI GCNNNNNNNGC 3 cut(s) 189, 617, 697
BstNI CCWGG 3 cut(s) 434, 508, 567
BstSCI CCNGG 4 cut(s) 432, 506, 519, 565
BstSFI CTRYAG 2 cut(s) 527, 1339
BstUI CGCG 3 cut(s) 92, 390, 555
BsuI GTATCC 1 cut(s) 1408
BsuRI GGCC 1 cut(s) 691
BtsCI GGATG 6 cut(s) 147, 336, 342, 384, 667, 1135
BtsI GCAGTG 1 cut(s) 524
BtsIMutI CAGTG 1 cut(s) 524
BveI ACCTGC 1 cut(s) 587
Cac8I GCNNGC 4 cut(s) 352, 609, 1021, 1025
CfoI GCGC 2 cut(s) 94, 466
Cfr10I RCCGGY 1 cut(s) 447
Cfr13I GGNCC 2 cut(s) 288, 769
CseI GACGC 1 cut(s) 401
Csp6I GTAC 1 cut(s) 1042
CviQI GTAC 1 cut(s) 1042
DdeI CTNAG 5 cut(s) 548, 1094, 1113, 1299, 1419
DinI GGCGCC 1 cut(s) 465
DpnI GATC 3 cut(s) 102, 166, 488
DpnII GATC 3 cut(s) 100, 164, 486
Eam1104I CTCTTC 1 cut(s) 963
EarI CTCTTC 1 cut(s) 963
Eco130I CCWWGG 2 cut(s) 1176, 1220
Eco47I GGWCC 2 cut(s) 288, 769
Eco57I CTGAAG 2 cut(s) 987, 1277
Eco88I CYCGRG 1 cut(s) 612
EcoRII CCWGG 3 cut(s) 432, 506, 565
EcoT14I CCWWGG 2 cut(s) 1176, 1220
EgeI GGCGCC 1 cut(s) 465
EheI GGCGCC 1 cut(s) 465
ErhI CCWWGG 2 cut(s) 1176, 1220
FalI AAGNNNNNCTT 2 cut(s) 1269, 1301
FaqI GGGAC 2 cut(s) 157, 782
FauI CCCGC 4 cut(s) 182, 365, 449, 619
FbaI TGATCA 1 cut(s) 486
Fnu4HI GCNGC 5 cut(s) 6, 556, 1017, 1194, 1357
FokI GGATG 6 cut(s) 134, 323, 329, 371, 674, 1142
Fsp4HI GCNGC 5 cut(s) 6, 556, 1017, 1194, 1357
FspBI CTAG 1 cut(s) 687
GlaI GCGC 2 cut(s) 93, 465
GluI GCNGC 5 cut(s) 6, 556, 1017, 1194, 1357
GsaI CCCAGC 1 cut(s) 181
HaeII RGCGCY 1 cut(s) 467
HaeIII GGCC 1 cut(s) 691
HapII CCGG 4 cut(s) 207, 448, 521, 779
HgaI GACGC 1 cut(s) 401
HhaI GCGC 2 cut(s) 94, 466
Hin1I GRCGYC 2 cut(s) 393, 464
Hin6I GCGC 2 cut(s) 92, 464
HinP1I GCGC 2 cut(s) 92, 464
HindIII AAGCTT 1 cut(s) 1289
HinfI GANTC 2 cut(s) 503, 592
HpaII CCGG 4 cut(s) 207, 448, 521, 779
HphI GGTGA 2 cut(s) 205, 1166
Hpy188I TCNGA 8 cut(s) 100, 164, 409, 491, 591, 656, 1302, 1333
Hpy188III TCNNGA 2 cut(s) 439, 734
Hpy99I CGWCG 1 cut(s) 395
HpyAV CCTTC 3 cut(s) 213, 334, 1364
HpyCH4III ACNGT 2 cut(s) 1046, 1126
HpyCH4V TGCA 7 cut(s) 418, 529, 582, 607, 700, 942, 1346
HpyF10VI GCNNNNNNNGC 3 cut(s) 189, 617, 697
HpyF3I CTNAG 5 cut(s) 548, 1094, 1113, 1299, 1419
Hsp92I GRCGYC 2 cut(s) 393, 464
HspAI GCGC 2 cut(s) 92, 464
KasI GGCGCC 1 cut(s) 463
Ksp22I TGATCA 1 cut(s) 486
Kzo9I GATC 3 cut(s) 100, 164, 486
LmnI GCTCC 3 cut(s) 359, 409, 898
LweI GCATC 4 cut(s) 567, 594, 895, 1036
MaeI CTAG 1 cut(s) 687
MaeIII GTNAC 1 cut(s) 809
MalI GATC 3 cut(s) 102, 166, 488
MbiI CCGCTC 1 cut(s) 1193
MboI GATC 3 cut(s) 100, 164, 486
MboII GAAGA 5 cut(s) 10, 271, 887, 980, 1289
MluCI AATT 2 cut(s) 1059, 1391
Mly113I GGCGCC 1 cut(s) 464
MlyI GAGTC 1 cut(s) 512
MmeI TCCRAC 2 cut(s) 1254, 1392
MseI TTAA 3 cut(s) 1121, 1287, 1320
MslI CAYNNNNRTG 1 cut(s) 821
MspA1I CMGCKG 1 cut(s) 177
MspCI CTTAAG 1 cut(s) 1286
MspI CCGG 4 cut(s) 207, 448, 521, 779
MspR9I CCNGG 4 cut(s) 434, 508, 521, 567
MvaI CCWGG 3 cut(s) 434, 508, 567
MvnI CGCG 3 cut(s) 92, 390, 555
MwoI GCNNNNNNNGC 3 cut(s) 189, 617, 697
NarI GGCGCC 1 cut(s) 464
NciI CCSGG 1 cut(s) 521
NdeII GATC 3 cut(s) 100, 164, 486
NlaIV GGNNCC 6 cut(s) 290, 411, 465, 770, 900, 1015
NmeAIII GCCGAG 1 cut(s) 886
NspV TTCGAA 1 cut(s) 426
PaeR7I CTCGAG 1 cut(s) 612
PaqCI CACCTGC 1 cut(s) 587
PfeI GAWTC 1 cut(s) 592
PfoI TCCNGGA 1 cut(s) 506
PkrI GCNGC 5 cut(s) 7, 557, 1018, 1195, 1358
PleI GAGTC 1 cut(s) 511
PluTI GGCGCC 1 cut(s) 467
PpsI GAGTC 1 cut(s) 511
Psp6I CCWGG 3 cut(s) 432, 506, 565
PspFI CCCAGC 1 cut(s) 177
PspGI CCWGG 3 cut(s) 432, 506, 565
PspN4I GGNNCC 6 cut(s) 290, 411, 465, 770, 900, 1015
PspPI GGNCC 2 cut(s) 288, 769
PspXI VCTCGAGB 1 cut(s) 612
PstI CTGCAG 1 cut(s) 531
RsaI GTAC 1 cut(s) 1043
RsaNI GTAC 1 cut(s) 1042
RseI CAYNNNNRTG 1 cut(s) 821
SaqAI TTAA 3 cut(s) 1121, 1287, 1320
SatI GCNGC 5 cut(s) 6, 556, 1017, 1194, 1357
Sau3AI GATC 3 cut(s) 100, 164, 486
Sau96I GGNCC 2 cut(s) 288, 769
SchI GAGTC 1 cut(s) 512
ScrFI CCNGG 4 cut(s) 434, 508, 521, 567
SfaNI GCATC 4 cut(s) 567, 594, 895, 1036
SfcI CTRYAG 2 cut(s) 527, 1339
SfoI GGCGCC 1 cut(s) 465
Sfr274I CTCGAG 1 cut(s) 612
SfuI TTCGAA 1 cut(s) 426
SinI GGWCC 2 cut(s) 288, 769
SlaI CTCGAG 1 cut(s) 612
SmiMI CAYNNNNRTG 1 cut(s) 821
SmlI CTYRAG 2 cut(s) 612, 1286
SmoI CTYRAG 2 cut(s) 612, 1286
Sse9I AATT 2 cut(s) 1059, 1391
SspDI GGCGCC 1 cut(s) 463
SspMI CTAG 1 cut(s) 687
StyD4I CCNGG 4 cut(s) 432, 506, 519, 565
StyI CCWWGG 2 cut(s) 1176, 1220
TaaI ACNGT 2 cut(s) 1046, 1126
TaqI TCGA 3 cut(s) 426, 516, 613
TasI AATT 2 cut(s) 1059, 1391
TauI GCSGC 5 cut(s) 8, 558, 1019, 1196, 1359
TfiI GAWTC 1 cut(s) 592
Tru1I TTAA 3 cut(s) 1121, 1287, 1320
Tru9I TTAA 3 cut(s) 1121, 1287, 1320
TscAI CASTG 1 cut(s) 531
TspDTI ATGAA 3 cut(s) 1080, 1379, 1419
TspGWI ACGGA 2 cut(s) 127, 1394
TspRI CASTG 1 cut(s) 531
Vha464I CTTAAG 1 cut(s) 1286
VpaK11BI GGWCC 2 cut(s) 288, 769
XhoI CTCGAG 1 cut(s) 612
XspI CTAG 1 cut(s) 687
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.