Rh5BG187100

Pentatricopeptide repeat-containing protein At1g79080

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0012459
Physical Location & Seq
Forward (+)
20527710 .. 20530077
2368 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG187100.1

Sequence Viewer

Length: 1443 bp
ATGATAGGGAAGGGCCAAAAGCCTGATGTGGGCCAAGCAACTCAGCTCTTGTATGATCTGTGCAAGGCGAGTAAGATGAGGAAAGCGGTGAGAGTGATCGAAATGATGGTTGCTTCAGGCATTATACCTGATGCAGCTTCATATACCTTCTTGGTGAACTATTTGTGTAAAAGAGGGAATATTGGTTATGCAATGCAGTTGGTTGAGAAGATGGAGGAGTATGGATATCCGACGAATACTGTTACCTATAATTCACTTGTTAGAGGGCTTTGTGTGCGTGGAAATTTGAATCAAAGCTTGCAGCTTTTGGATAAGCTGATACGGAAGGGGCTGGTCCCGAATGTTTATACTTACTCTTTCTTGCTTGAAGCGGCTTATAAGGAAAGAGGGGTCAACGAAGCGATGAAGCTCCTGGAGGAGATCATTGCTAAAGGTGGAAAGCCTAATTTGGTTAGTTACAATGTTTTGTTGACTGGTTTGTGCAAGGAAGGTAGGAGTGATGAGGCAATGAAGTTTTTTAGGAGTTTGCCTTCGATGGGATTCAGACCGAATGTTGTGAGCTATAACATTGTGCTGAGGAGCTTGTGTTATGAGGGTAGGTGGGAAGAGGCGAATGTGCTTTTAGCTGAGATGGATGGTGAGGATCGGACACCCTCCATAGTTACATATAACATCTTAATCAGTTCTCTTGCCCTTCATGGTAGAACAGAACATGCTCTTGAAGTTTTGGATGAAATGGTTAAGGGTCGGTTCAAGCCTACTGCTGCAAGCTACAATCCGATAATTACTCGTCTCTGCAAAGAGGGGAAGGTGGATCATGTGGTGAAGTGTCTAGACCAAATGATGTTCCGGCGATGTAATCCAAATGAGGGAACATTCAATGCCATTGCTGTGCTATGTGAGCAAGGTATGGTGCAAGAAGCATACTCCATCATTCAAAGCCTCGGAAATAAACAGAAATGCTCCACGAATGAGTTCTACAGAAATGTAATCACAAGCTTGTGCAGGAAAGGGAATACATATCCAGCATTTCAGATGTTATATGAAATGACCAAGTATGGTTTTACTCCAGATTCTTATACCTATTCATCTTTGATCAGAGGGTTGTGTCTGGAGGGTATGCTAAATGAAGCAATGGAGATTTTCAAGGTCATGGAGGAAAACAACCAAAGGCCTGATACTGAGAATTTCAATGCACTTATACTTGGATTTTGCAAATGTCGAAGAACAGATCTATCCTTGCAGGTTTTCGAGATGATGATTGAGAAAAGGCTAATGCCTAATGAAATGACATATACCATTCTCGTGGAAGGGCTTGCACATGAAAACGAAACGGAGCTGGCAGCTGAGGTTTTGAGGGAGTTGCAGGGGAGACGGGTTATGAGTCCAAATACAGTGGAAAGACTTGTTATGCAGTATGACCTTGAGGAAATACCATTGTAG

Protein Analysis

480

Amino Acids

54.58

Weight (kDa)

6.52

Isoelectric Point (pI)

35.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 16 - 57 3.9e-07 PPR repeat family
PPR_long PF17177 25 - 126 2e-07 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 40 - 72 5.7e-07 PPR repeat
PPR_2 PF13041 43 - 91 4.4e-12 PPR repeat family
TPR_24 PF23276 59 - 175 2.9e-07 Fungal tetratrico peptide repeats
PPR_3 PF13812 67 - 124 8.5e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 76 - 105 2.5e-06 PPR repeat
PPR_2 PF13041 79 - 124 8.7e-12 PPR repeat family
PPR_2 PF13041 121 - 162 9.2e-08 PPR repeat family
PPR_3 PF13812 136 - 193 2e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 144 - 174 3.2e-10 PPR repeat
PPR_2 PF13041 148 - 196 2.9e-15 PPR repeat family
PPR PF01535 151 - 181 7.3e-07 PPR repeat
PPR_1 PF12854 179 - 211 1.6e-07 PPR repeat
PPR_2 PF13041 183 - 231 4.8e-13 PPR repeat family
PPR_3 PF13812 207 - 263 4.4e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 218 - 247 1.6e-08 PPR repeat
PPR_2 PF13041 218 - 259 1.1e-09 PPR repeat family
PPR PF01535 221 - 248 4.1e-07 PPR repeat
PPR_2 PF13041 253 - 295 7.5e-09 PPR repeat family
PPR_2 PF13041 327 - 370 1e-11 PPR repeat family
PPR_3 PF13812 347 - 401 5.6e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 354 - 386 1.7e-11 PPR repeat
PPR PF01535 360 - 389 1.9e-07 PPR repeat
PPR_2 PF13041 392 - 441 3.5e-11 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G79080
fragaria_vesca FvH4_3g15990
malus_domestica MD05G1216400.v1.1 MD10G1198700.v1.1
prunus_persica Prupe.4G143000_v2.0.a1
pyrus_communis pycom05g19870 pycom10g17140
rosa_chinensis RchiOBHm_Chr5g0026921
rosa_laevigata RLG00000032970
rosa_multiflora Rmu_co8463079.1_g000001 Rmu_sc0004223.1_g000006 Rmu_sc0008732.1_g000003
rosa_roxburghii Rroxscaffold_1G00052550
rosa_rugosa Rorug05G0095900
rosa_samantha Rh5AG189500 Rh5BG187100 Rh5CG206800 Rh5DG188800
rosa_wichuraiana Rw5G017240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 378
Acc36I ACCTGC 1 cut(s) 1234
AciI CCGC 2 cut(s) 86, 371
AclWI GGATC 2 cut(s) 651, 822
AcsI RAATTY 2 cut(s) 283, 1186
AcuI CTGAAG 1 cut(s) 99
AfiI CCNNNNNNNGG 3 cut(s) 29, 536, 869
AgsI TTSAA 8 cut(s) 289, 368, 722, 754, 880, 938, 1147, 1192
AjnI CCWGG 1 cut(s) 411
Alw26I GTCTC 2 cut(s) 797, 1366
AlwI GGATC 2 cut(s) 651, 822
AoxI GGCC 3 cut(s) 13, 31, 1172
ApeKI GCWGC 4 cut(s) 134, 301, 764, 1343
ApoI RAATTY 2 cut(s) 283, 1186
Asp700I GAANNNNTTC 1 cut(s) 974
AspS9I GGNCC 3 cut(s) 13, 31, 334
AsuHPI GGTGA 4 cut(s) 100, 166, 650, 835
AvaII GGWCC 1 cut(s) 334
BauI CACGAG 1 cut(s) 1304
BbvCI CCTCAGC 2 cut(s) 575, 1347
BbvI GCAGC 4 cut(s) 146, 313, 751, 1355
BccI CCATC 6 cut(s) 100, 205, 529, 625, 629, 938
BciT130I CCWGG 1 cut(s) 413
BclI TGATCA 1 cut(s) 1095
BcoDI GTCTC 2 cut(s) 797, 1366
BfaI CTAG 1 cut(s) 833
BfmI CTRYAG 1 cut(s) 979
BfuAI ACCTGC 1 cut(s) 1234
BglII AGATCT 1 cut(s) 1231
BisI GCNGC 5 cut(s) 135, 302, 372, 765, 1344
BlsI GCNGC 5 cut(s) 136, 303, 373, 766, 1345
Bme1390I CCNGG 1 cut(s) 413
Bme18I GGWCC 1 cut(s) 334
BmgT120I GGNCC 3 cut(s) 13, 31, 334
BmiI GGNNCC 1 cut(s) 336
BmrFI CCNGG 1 cut(s) 413
BmsI GCATC 1 cut(s) 121
BpmI CTGGAG 3 cut(s) 434, 1053, 1133
Bpu10I CCTNAGC 2 cut(s) 575, 1347
BsaJI CCNNGG 1 cut(s) 943
BsaXI ACNNNNNCTCC 2 cut(s) 571, 601
Bsc4I CCNNNNNNNGG 3 cut(s) 29, 536, 869
Bse1I ACTGG 1 cut(s) 478
Bse3DI GCAATG 5 cut(s) 198, 423, 513, 885, 1140
BseBI CCWGG 1 cut(s) 413
BseDI CCNNGG 1 cut(s) 943
BseGI GGATG 2 cut(s) 640, 736
BseLI CCNNNNNNNGG 3 cut(s) 29, 536, 869
BseMI GCAATG 5 cut(s) 198, 423, 513, 885, 1140
BseMII CTCAG 5 cut(s) 56, 566, 618, 1173, 1338
BseNI ACTGG 1 cut(s) 478
BseRI GAGGAG 3 cut(s) 230, 431, 592
BseXI GCAGC 4 cut(s) 146, 313, 751, 1355
BsgI GTGCAG 1 cut(s) 1024
BshFI GGCC 3 cut(s) 15, 33, 1174
BsiSI CCGG 1 cut(s) 850
BslFI GGGAC 1 cut(s) 320
BslI CCNNNNNNNGG 3 cut(s) 29, 536, 869
BsmAI GTCTC 2 cut(s) 797, 1366
BsmBI CGTCTC 2 cut(s) 797, 1366
BsmFI GGGAC 1 cut(s) 320
BsnI GGCC 3 cut(s) 15, 33, 1174
Bsp143I GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
BspACI CCGC 2 cut(s) 86, 371
BspANI GGCC 3 cut(s) 15, 33, 1174
BspCNI CTCAG 5 cut(s) 55, 567, 619, 1174, 1339
BspLI GGNNCC 1 cut(s) 336
BspMI ACCTGC 1 cut(s) 1234
BspPI GGATC 2 cut(s) 651, 822
BsrDI GCAATG 5 cut(s) 198, 423, 513, 885, 1140
BsrI ACTGG 1 cut(s) 478
BssECI CCNNGG 1 cut(s) 943
BssMI GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
BssSI CACGAG 1 cut(s) 1304
Bst2BI CACGAG 1 cut(s) 1304
Bst2UI CCWGG 1 cut(s) 413
Bst4CI ACNGT 2 cut(s) 241, 1396
Bst6I CTCTTC 1 cut(s) 600
BstC8I GCNNGC 4 cut(s) 299, 769, 1317, 1341
BstDEI CTNAG 5 cut(s) 42, 575, 627, 1182, 1347
BstF5I GGATG 2 cut(s) 640, 736
BstKTI GATC 7 cut(s) 58, 99, 423, 646, 817, 1098, 1234
BstMAI GTCTC 2 cut(s) 797, 1366
BstMBI GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
BstMWI GCNNNNNNNGC 2 cut(s) 274, 901
BstNI CCWGG 1 cut(s) 413
BstNSI RCATGY 1 cut(s) 716
BstSCI CCNGG 1 cut(s) 411
BstSFI CTRYAG 1 cut(s) 979
BstV1I GCAGC 4 cut(s) 146, 313, 751, 1355
BstX2I RGATCY 1 cut(s) 1231
BstXI CCANNNNNNTGG 1 cut(s) 1306
BstYI RGATCY 1 cut(s) 1231
BsuRI GGCC 3 cut(s) 15, 33, 1174
BtgZI GCGATG 2 cut(s) 416, 868
BtsCI GGATG 2 cut(s) 640, 736
BtsIMutI CAGTG 1 cut(s) 1401
BveI ACCTGC 1 cut(s) 1234
Cac8I GCNNGC 4 cut(s) 299, 769, 1317, 1341
Cfr13I GGNCC 3 cut(s) 13, 31, 334
CspCI CAANNNNNGTGG 2 cut(s) 1377, 1412
CviAII CATG 5 cut(s) 698, 713, 818, 1153, 1322
DdeI CTNAG 5 cut(s) 42, 575, 627, 1182, 1347
DpnI GATC 7 cut(s) 57, 98, 422, 645, 816, 1097, 1233
DpnII GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
Eam1104I CTCTTC 1 cut(s) 600
EarI CTCTTC 1 cut(s) 600
Eco147I AGGCCT 1 cut(s) 1174
Eco32I GATATC 1 cut(s) 227
Eco47I GGWCC 1 cut(s) 334
Eco57I CTGAAG 1 cut(s) 99
EcoRII CCWGG 1 cut(s) 411
EcoRV GATATC 1 cut(s) 227
Esp3I CGTCTC 2 cut(s) 797, 1366
FaeI CATG 5 cut(s) 701, 716, 821, 1156, 1325
FaqI GGGAC 1 cut(s) 320
FatI CATG 5 cut(s) 697, 712, 817, 1152, 1321
FbaI TGATCA 1 cut(s) 1095
Fnu4HI GCNGC 5 cut(s) 135, 302, 372, 765, 1344
FokI GGATG 2 cut(s) 647, 743
Fsp4HI GCNGC 5 cut(s) 135, 302, 372, 765, 1344
FspBI CTAG 1 cut(s) 833
GluI GCNGC 5 cut(s) 135, 302, 372, 765, 1344
GsuI CTGGAG 3 cut(s) 434, 1053, 1133
HaeIII GGCC 3 cut(s) 15, 33, 1174
HapII CCGG 1 cut(s) 850
Hin1II CATG 5 cut(s) 701, 716, 821, 1156, 1325
HincII GTYRAC 2 cut(s) 394, 471
HindII GTYRAC 2 cut(s) 394, 471
HindIII AAGCTT 2 cut(s) 295, 997
HinfI GANTC 4 cut(s) 289, 540, 1073, 1384
HpaII CCGG 1 cut(s) 850
HphI GGTGA 4 cut(s) 100, 166, 650, 835
Hpy166II GTNNAC 3 cut(s) 157, 394, 471
Hpy188I TCNGA 7 cut(s) 231, 545, 648, 780, 947, 1035, 1100
Hpy188III TCNNGA 6 cut(s) 337, 719, 833, 1070, 1112, 1252
Hpy8I GTNNAC 3 cut(s) 157, 394, 471
Hpy99I CGWCG 1 cut(s) 235
HpyAV CCTTC 8 cut(s) 4, 157, 319, 482, 540, 704, 802, 1304
HpyCH4III ACNGT 2 cut(s) 241, 1396
HpyF10VI GCNNNNNNNGC 2 cut(s) 274, 901
HpyF3I CTNAG 5 cut(s) 42, 575, 627, 1182, 1347
Hsp92II CATG 5 cut(s) 701, 716, 821, 1156, 1325
Ksp22I TGATCA 1 cut(s) 1095
Kzo9I GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
LmnI GCTCC 4 cut(s) 414, 579, 968, 1336
Lsp1109I GCAGC 4 cut(s) 146, 313, 751, 1355
LweI GCATC 1 cut(s) 121
MaeI CTAG 1 cut(s) 833
MaeIII GTNAC 3 cut(s) 241, 455, 661
MalI GATC 7 cut(s) 57, 98, 422, 645, 816, 1097, 1233
MboI GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
MboII GAAGA 3 cut(s) 220, 617, 1236
MflI RGATCY 1 cut(s) 1231
MluCI AATT 5 cut(s) 250, 283, 445, 783, 1186
MlyI GAGTC 1 cut(s) 1393
MmeI TCCRAC 1 cut(s) 254
MroXI GAANNNNTTC 1 cut(s) 974
MseI TTAA 2 cut(s) 677, 741
MslI CAYNNNNRTG 2 cut(s) 890, 1304
MspA1I CMGCKG 1 cut(s) 1346
MspI CCGG 1 cut(s) 850
MspR9I CCNGG 1 cut(s) 413
MvaI CCWGG 1 cut(s) 413
MwoI GCNNNNNNNGC 2 cut(s) 274, 901
NdeII GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
NlaIII CATG 5 cut(s) 701, 716, 821, 1156, 1325
NlaIV GGNNCC 1 cut(s) 336
NspI RCATGY 1 cut(s) 716
PceI AGGCCT 1 cut(s) 1174
PdmI GAANNNNTTC 1 cut(s) 974
PfeI GAWTC 3 cut(s) 289, 540, 1073
PfoI TCCNGGA 1 cut(s) 411
PkrI GCNGC 5 cut(s) 136, 303, 373, 766, 1345
PleI GAGTC 1 cut(s) 1392
PpsI GAGTC 1 cut(s) 1392
PsiI TTATAA 1 cut(s) 378
Psp6I CCWGG 1 cut(s) 411
PspGI CCWGG 1 cut(s) 411
PspN4I GGNNCC 1 cut(s) 336
PspPI GGNCC 3 cut(s) 13, 31, 334
PsuI RGATCY 1 cut(s) 1231
PvuII CAGCTG 1 cut(s) 1346
RseI CAYNNNNRTG 2 cut(s) 890, 1304
SaqAI TTAA 2 cut(s) 677, 741
SatI GCNGC 5 cut(s) 135, 302, 372, 765, 1344
Sau3AI GATC 7 cut(s) 55, 96, 420, 643, 814, 1095, 1231
Sau96I GGNCC 3 cut(s) 13, 31, 334
SchI GAGTC 1 cut(s) 1393
ScrFI CCNGG 1 cut(s) 413
SfaNI GCATC 1 cut(s) 121
SfcI CTRYAG 1 cut(s) 979
SinI GGWCC 1 cut(s) 334
SmiMI CAYNNNNRTG 2 cut(s) 890, 1304
SmlI CTYRAG 1 cut(s) 1424
SmoI CTYRAG 1 cut(s) 1424
Sse9I AATT 5 cut(s) 250, 283, 445, 783, 1186
SseBI AGGCCT 1 cut(s) 1174
SsiI CCGC 2 cut(s) 86, 371
SspI AATATT 1 cut(s) 181
SspMI CTAG 1 cut(s) 833
StuI AGGCCT 1 cut(s) 1174
StyD4I CCNGG 1 cut(s) 411
TaaI ACNGT 2 cut(s) 241, 1396
TaqI TCGA 4 cut(s) 99, 533, 1222, 1251
TaqII GACCGA 1 cut(s) 562
TasI AATT 5 cut(s) 250, 283, 445, 783, 1186
TauI GCSGC 1 cut(s) 374
TfiI GAWTC 3 cut(s) 289, 540, 1073
Tru1I TTAA 2 cut(s) 677, 741
Tru9I TTAA 2 cut(s) 677, 741
TscAI CASTG 1 cut(s) 1401
TseI GCWGC 4 cut(s) 134, 301, 764, 1343
TspGWI ACGGA 2 cut(s) 337, 1349
TspRI CASTG 1 cut(s) 1401
VpaK11BI GGWCC 1 cut(s) 334
XapI RAATTY 2 cut(s) 283, 1186
XbaI TCTAGA 1 cut(s) 832
XceI RCATGY 1 cut(s) 716
XmnI GAANNNNTTC 1 cut(s) 974
XspI CTAG 1 cut(s) 833
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.