RchiOBHm_Chr4g0432731

Pentatricopeptide repeat-containing protein At1g13040

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0012815
Physical Location & Seq
Reverse (-)
56820651 .. 56824615
3965 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40130

Sequence Viewer

Length: 1548 bp
ATGTATCACAGTCTCGGCGTCCACCGCCTCATCTACCGGAGCCGCATGGTGCACTATATCAAAACCGGCCTCATCGATCACGCCCTCCAGGTGTTCGACGAAATGACTCAATCAAATTGCCGCGTGTTCAGCATAGATTACAATCGCTTCATTGGAGTGCTGGTCAAGCACTGGCGTTACGACCTCGCCGAGCATTATTACTACGAAATGGCGCCGCAAGGCTTCTCTCTAACCCCATTCACTTACTCCAGATTTATTTCTGGGTTGTGTAATATCAAGAATTTTACCCTCATTGAGAAGCTTCTTCGAGACATGGAGAGGCTCGGGTGTGTGCCTGACATTTGGGCTTTTAATATATATTTGAATCTTCTCTGCCAAGAAAATAGGATACAGTTGGCTCTGCAAGTGTTTGATAGGATGGTTGAGAAGGGGAGAGAGCCGGATGTTGTGTCGTATACTATAGTTATCGATGGGTTGTGTAAAGCTGGAAAGTTTGATAATGCAGTTGAGGTTTGGAATTGTATGATTAGTAAAGGCTTTAGGCCTGATACTATTGCGTGCACCGCGCTTGTTGTTGGTTTGTGTGGAGGTGGAAAGGTTGATTTGGCTTATGACCTTGTAATTGGTGAGATGAAGGGTGGAGTGAAGTTCAATAATTTGATGTATAATGCGCTGATTAGTGGGTTTTGTCGGGCTCGTAGAATTGACAAGGCACAGGCAATTAAGTGGTTTATGAAGAGGAATGGGTGCCAGCCGGATTTGGTGACTCACAATGTGTTGTTGAATTATTGTTGTAATGAGTTCATGTTGGAGGAGGCAGAGAAGTTGATGAAACAAATGGAGAAGAGTGGGATGGAACTCGATGCGTATAGTTATAATGGGTTGCTCAAGGGCCTTTGTAAAGATAATAGACCGGAAAAGGCATATTTGTTGATGAGGAACATGATGGAGCCAAAAGGTTTGTGTAATGTTGTTTCATTTAATACAATCATTACAGCATTTTGCAAGGCAGGGCAGACTAGAAGGGCATACAAACTGTTTGAGGAAATGTTTCAAAAAGAAATTTTACCTGATGTGGTTACATTTACCATTCTGATAGAAGCTTTATTAAGAGAAGGTAGTTCAGATATAGCCAAGAAGCTTCTTGATCAGATGACAGGGATGGATCTGTTACCTGATCGTATATTTTACACTACAATAATTGATCACCTATGTAAGAGTGGGAAGATTGCAATGGCTTTTGATGTTTTCAATGATATGTTAGAGAAGGGAATCACCGCTGATGTGGTTTTGTATAATGCACTCATTAGCGGGCTTTGCAGGGCTTCAAGAGTGACTGAAGCCATGCATTTATATGAGGAAATGCAGACTAGAGGATGCTGTCCTGATGAGGTAACTTTCAAAGTGATAATTAGAGGTCTTATAAGAGACAAGAGGCTTTCTGTGGCTTGTGGGGTATGGGATGAGATGATGGAGAAGGGCTTTACTCTGGACAGAGTTCTTTCCCAGACACTGATTAATGCTGTCCATTCAAAAGATGTTGCATGA

Protein Analysis

515

Amino Acids

58.96

Weight (kDa)

7.74

Isoelectric Point (pI)

31.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 100 - 156 3.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 112 - 161 5.2e-16 PPR repeat family
PPR_1 PF12854 143 - 175 4.6e-12 PPR repeat
PPR_2 PF13041 147 - 195 2.9e-13 PPR repeat family
PPR PF01535 150 - 180 1.7e-08 PPR repeat
TPR_24 PF23276 198 - 308 5.1e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 213 - 266 1.3e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 214 - 240 1.8e-06 PPR repeat
PPR_2 PF13041 221 - 266 2.3e-12 PPR repeat family
PPR_1 PF12854 248 - 281 4.9e-07 PPR repeat
PPR_2 PF13041 252 - 301 1.1e-14 PPR repeat family
PPR_long PF17177 260 - 390 2.8e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 284 - 315 1.6e-06 PPR repeat
PPR_1 PF12854 320 - 350 1.7e-10 PPR repeat
PPR_3 PF13812 322 - 368 7.1e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 323 - 370 3.5e-17 PPR repeat family
PPR PF01535 325 - 353 3.1e-07 PPR repeat
PPR_3 PF13812 345 - 402 1e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 354 - 386 6.8e-07 PPR repeat
PPR_3 PF13812 380 - 437 4.5e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 389 - 420 1.9e-07 PPR repeat
PPR_2 PF13041 392 - 430 2.8e-10 PPR repeat family
PPR PF01535 397 - 425 2.5e-06 PPR repeat
TPR_24 PF23276 405 - 511 7e-08 Fungal tetratrico peptide repeats
PPR_3 PF13812 416 - 472 2.5e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 423 - 456 1.8e-10 PPR repeat
PPR_2 PF13041 428 - 475 8.9e-17 PPR repeat family
PPR PF01535 430 - 460 2.7e-08 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012815)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G13040 AT1G13040
fragaria_vesca FvH4_4g25420
malus_domestica MD13G1103100.v1.1 MD16G1103300.v1.1
prunus_persica Prupe.1G242700_v2.0.a1
pyrus_communis pycom13g09010 pycom16g08810
rosa_chinensis RchiOBHm_Chr4g0432731
rosa_laevigata RLG00000006817
rosa_multiflora Rmu_co8522421.1_g000001
rosa_roxburghii Rroxscaffold_5G00374190
rosa_rugosa Rorug04G0262000
rosa_samantha Rh4AG316500 Rh4BG324500 Rh4CG339500 Rh4DG319800
rosa_wichuraiana Rw4G027530

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 876, 1424
AccB1I GGYRCC 2 cut(s) 211, 747
AccI GTMKAC 1 cut(s) 455
AccII CGCG 2 cut(s) 123, 566
AciI CCGC 7 cut(s) 25, 43, 121, 215, 564, 1278, 1311
AclWI GGATC 1 cut(s) 1173
AcsI RAATTY 2 cut(s) 280, 1062
AcuI CTGAAG 1 cut(s) 1359
AcyI GRCGYC 2 cut(s) 18, 212
AdeI CACNNNGTG 1 cut(s) 775
AgsI TTSAA 8 cut(s) 364, 652, 784, 1055, 1252, 1329, 1402, 1533
AjnI CCWGG 1 cut(s) 87
AluBI AGCT 4 cut(s) 301, 485, 1103, 1141
AluI AGCT 4 cut(s) 301, 485, 1103, 1141
Alw21I GWGCWC 2 cut(s) 54, 563
Alw26I GTCTC 3 cut(s) 17, 303, 1422
Alw44I GTGCAC 2 cut(s) 50, 559
AlwI GGATC 1 cut(s) 1173
AlwNI CAGNNNCTG 1 cut(s) 1513
Ama87I CYCGRG 1 cut(s) 323
AoxI GGCC 3 cut(s) 67, 542, 892
ApaLI GTGCAC 2 cut(s) 50, 559
ApoI RAATTY 2 cut(s) 280, 1062
AseI ATTAAT 1 cut(s) 1518
Asp700I GAANNNNTTC 1 cut(s) 1050
AspLEI GCGC 3 cut(s) 214, 568, 673
AspS9I GGNCC 1 cut(s) 892
AsuHPI GGTGA 4 cut(s) 638, 775, 1199, 1267
AvaI CYCGRG 1 cut(s) 323
BaeGI GKGCMC 2 cut(s) 54, 563
BanI GGYRCC 2 cut(s) 211, 747
BanII GRGCYC 1 cut(s) 697
Bbv12I GWGCWC 2 cut(s) 54, 563
BccI CCATC 6 cut(s) 412, 464, 847, 940, 1156, 1465
BciT130I CCWGG 1 cut(s) 89
BciVI GTATCC 1 cut(s) 381
BclI TGATCA 2 cut(s) 1147, 1204
BcoDI GTCTC 3 cut(s) 17, 303, 1422
BfaI CTAG 2 cut(s) 1020, 1371
BfmI CTRYAG 1 cut(s) 459
BfoI RGCGCY 1 cut(s) 215
BfuI GTATCC 1 cut(s) 381
BisI GCNGC 3 cut(s) 43, 121, 215
BlsI GCNGC 3 cut(s) 44, 122, 216
Bme1390I CCNGG 1 cut(s) 89
BmeT110I CYCGRG 1 cut(s) 323
BmgT120I GGNCC 1 cut(s) 892
BmiI GGNNCC 4 cut(s) 41, 213, 749, 951
BmrFI CCNGG 1 cut(s) 89
BmsI GCATC 2 cut(s) 853, 1367
BpmI CTGGAG 2 cut(s) 71, 232
BpuEI CTTGAG 1 cut(s) 872
Bsa29I ATCGAT 2 cut(s) 75, 468
BsaBI GATNNNNATC 1 cut(s) 141
BsaHI GRCGYC 2 cut(s) 18, 212
BsaWI WCCGGW 2 cut(s) 36, 913
BsaXI ACNNNNNCTCC 2 cut(s) 147, 177
Bse118I RCCGGY 1 cut(s) 65
Bse1I ACTGG 1 cut(s) 176
Bse3DI GCAATG 1 cut(s) 1239
Bse8I GATNNNNATC 1 cut(s) 141
BseBI CCWGG 1 cut(s) 89
BseCI ATCGAT 2 cut(s) 75, 468
BseGI GGATG 6 cut(s) 423, 448, 858, 1167, 1382, 1468
BseJI GATNNNNATC 1 cut(s) 141
BseMI GCAATG 1 cut(s) 1239
BseNI ACTGG 1 cut(s) 176
BseRI GAGGAG 1 cut(s) 827
BseSI GKGCMC 2 cut(s) 54, 563
Bsh1236I CGCG 2 cut(s) 123, 566
BshFI GGCC 3 cut(s) 69, 544, 894
BshNI GGYRCC 2 cut(s) 211, 747
BshVI ATCGAT 2 cut(s) 75, 468
BsiHKAI GWGCWC 2 cut(s) 54, 563
BsiHKCI CYCGRG 1 cut(s) 323
BsiSI CCGG 5 cut(s) 37, 66, 440, 755, 914
BsmAI GTCTC 3 cut(s) 17, 303, 1422
BsnI GGCC 3 cut(s) 69, 544, 894
BsoBI CYCGRG 1 cut(s) 323
Bsp1286I GDGCHC 3 cut(s) 54, 563, 697
Bsp143I GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
BspACI CCGC 7 cut(s) 25, 43, 121, 215, 564, 1278, 1311
BspANI GGCC 3 cut(s) 69, 544, 894
BspDI ATCGAT 2 cut(s) 75, 468
BspFNI CGCG 2 cut(s) 123, 566
BspLI GGNNCC 4 cut(s) 41, 213, 749, 951
BspPI GGATC 1 cut(s) 1173
BspT107I GGYRCC 2 cut(s) 211, 747
BsrDI GCAATG 1 cut(s) 1239
BsrFI RCCGGY 1 cut(s) 65
BsrI ACTGG 1 cut(s) 176
BssAI RCCGGY 1 cut(s) 65
BssMI GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
BssNAI GTATAC 1 cut(s) 456
BssNI GRCGYC 2 cut(s) 18, 212
Bst1107I GTATAC 1 cut(s) 456
Bst2UI CCWGG 1 cut(s) 89
Bst4CI ACNGT 3 cut(s) 11, 393, 1038
Bst6I CTCTTC 2 cut(s) 731, 839
BstACI GRCGYC 2 cut(s) 18, 212
BstC8I GCNNGC 3 cut(s) 559, 752, 1313
BstF5I GGATG 6 cut(s) 423, 448, 858, 1167, 1382, 1468
BstFNI CGCG 2 cut(s) 123, 566
BstH2I RGCGCY 1 cut(s) 215
BstHHI GCGC 3 cut(s) 214, 568, 673
BstKTI GATC 5 cut(s) 79, 1150, 1168, 1180, 1207
BstMAI GTCTC 3 cut(s) 17, 303, 1422
BstMBI GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
BstMWI GCNNNNNNNGC 5 cut(s) 24, 129, 166, 563, 1317
BstNI CCWGG 1 cut(s) 89
BstSCI CCNGG 1 cut(s) 87
BstSFI CTRYAG 1 cut(s) 459
BstSLI GKGCMC 2 cut(s) 54, 563
BstUI CGCG 2 cut(s) 123, 566
BstX2I RGATCY 1 cut(s) 1165
BstYI RGATCY 1 cut(s) 1165
BstZ17I GTATAC 1 cut(s) 456
Bsu15I ATCGAT 2 cut(s) 75, 468
BsuI GTATCC 1 cut(s) 381
BsuRI GGCC 3 cut(s) 69, 544, 894
BsuTUI ATCGAT 2 cut(s) 75, 468
BtsCI GGATG 6 cut(s) 423, 448, 858, 1167, 1382, 1468
BtsIMutI CAGTG 2 cut(s) 169, 1511
Cac8I GCNNGC 3 cut(s) 559, 752, 1313
CaiI CAGNNNCTG 1 cut(s) 1513
CfoI GCGC 3 cut(s) 214, 568, 673
Cfr10I RCCGGY 1 cut(s) 65
Cfr13I GGNCC 1 cut(s) 892
ClaI ATCGAT 2 cut(s) 75, 468
CseI GACGC 1 cut(s) 7
CviAII CATG 6 cut(s) 46, 313, 805, 943, 1345, 1545
DinI GGCGCC 1 cut(s) 213
DpnI GATC 5 cut(s) 78, 1149, 1167, 1179, 1206
DpnII GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
DraIII CACNNNGTG 1 cut(s) 775
Eam1104I CTCTTC 2 cut(s) 731, 839
EarI CTCTTC 2 cut(s) 731, 839
Eco147I AGGCCT 1 cut(s) 544
Eco24I GRGCYC 1 cut(s) 697
Eco57I CTGAAG 1 cut(s) 1359
Eco88I CYCGRG 1 cut(s) 323
EcoO109I RGGNCCY 1 cut(s) 892
EcoRII CCWGG 1 cut(s) 87
EcoT22I ATGCAT 1 cut(s) 1350
EcoT38I GRGCYC 1 cut(s) 697
EgeI GGCGCC 1 cut(s) 213
EheI GGCGCC 1 cut(s) 213
FaeI CATG 6 cut(s) 49, 316, 808, 946, 1348, 1548
FatI CATG 6 cut(s) 45, 312, 804, 942, 1344, 1544
FauI CCCGC 1 cut(s) 1304
FbaI TGATCA 2 cut(s) 1147, 1204
FblI GTMKAC 1 cut(s) 455
Fnu4HI GCNGC 3 cut(s) 43, 121, 215
FokI GGATG 6 cut(s) 430, 455, 865, 1174, 1389, 1475
FriOI GRGCYC 1 cut(s) 697
Fsp4HI GCNGC 3 cut(s) 43, 121, 215
FspBI CTAG 2 cut(s) 1020, 1371
GlaI GCGC 3 cut(s) 213, 567, 672
GluI GCNGC 3 cut(s) 43, 121, 215
GsuI CTGGAG 2 cut(s) 71, 232
HaeII RGCGCY 1 cut(s) 215
HaeIII GGCC 3 cut(s) 69, 544, 894
HapII CCGG 5 cut(s) 37, 66, 440, 755, 914
HgaI GACGC 1 cut(s) 7
HhaI GCGC 3 cut(s) 214, 568, 673
Hin1I GRCGYC 2 cut(s) 18, 212
Hin1II CATG 6 cut(s) 49, 316, 808, 946, 1348, 1548
Hin6I GCGC 3 cut(s) 212, 566, 671
HinP1I GCGC 3 cut(s) 212, 566, 671
HindIII AAGCTT 3 cut(s) 299, 1101, 1139
HinfI GANTC 4 cut(s) 106, 364, 766, 1272
HpaII CCGG 5 cut(s) 37, 66, 440, 755, 914
HphI GGTGA 4 cut(s) 638, 775, 1199, 1267
Hpy166II GTNNAC 4 cut(s) 22, 52, 456, 561
Hpy188I TCNGA 3 cut(s) 1095, 1126, 1152
Hpy188III TCNNGA 7 cut(s) 249, 277, 308, 1145, 1329, 1385, 1490
Hpy8I GTNNAC 4 cut(s) 22, 52, 456, 561
Hpy99I CGWCG 1 cut(s) 101
HpyAV CCTTC 6 cut(s) 421, 628, 1017, 1109, 1261, 1471
HpyCH4III ACNGT 3 cut(s) 11, 393, 1038
HpyF10VI GCNNNNNNNGC 5 cut(s) 24, 129, 166, 563, 1317
Hsp92I GRCGYC 2 cut(s) 18, 212
Hsp92II CATG 6 cut(s) 49, 316, 808, 946, 1348, 1548
HspAI GCGC 3 cut(s) 212, 566, 671
KasI GGCGCC 1 cut(s) 211
Ksp22I TGATCA 2 cut(s) 1147, 1204
Kzo9I GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
LmnI GCTCC 2 cut(s) 39, 949
LweI GCATC 2 cut(s) 853, 1367
MaeI CTAG 2 cut(s) 1020, 1371
MaeIII GTNAC 6 cut(s) 176, 763, 1078, 1170, 1333, 1393
MalI GATC 5 cut(s) 78, 1149, 1167, 1179, 1206
MboI GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
MboII GAAGA 5 cut(s) 296, 359, 748, 856, 1237
MflI RGATCY 1 cut(s) 1165
MhlI GDGCHC 3 cut(s) 54, 563, 697
Mly113I GGCGCC 1 cut(s) 212
MlyI GAGTC 2 cut(s) 100, 760
MmeI TCCRAC 1 cut(s) 789
Mph1103I ATGCAT 1 cut(s) 1350
MroXI GAANNNNTTC 1 cut(s) 1050
MseI TTAA 5 cut(s) 351, 723, 981, 1109, 1518
MslI CAYNNNNRTG 2 cut(s) 155, 1353
MspA1I CMGCKG 1 cut(s) 1280
MspI CCGG 5 cut(s) 37, 66, 440, 755, 914
MspR9I CCNGG 1 cut(s) 89
MvaI CCWGG 1 cut(s) 89
MvnI CGCG 2 cut(s) 123, 566
MwoI GCNNNNNNNGC 5 cut(s) 24, 129, 166, 563, 1317
NarI GGCGCC 1 cut(s) 212
NdeII GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
NlaIII CATG 6 cut(s) 49, 316, 808, 946, 1348, 1548
NlaIV GGNNCC 4 cut(s) 41, 213, 749, 951
NmeAIII GCCGAG 1 cut(s) 214
NmuCI GTSAC 2 cut(s) 763, 1333
NsiI ATGCAT 1 cut(s) 1350
PceI AGGCCT 1 cut(s) 544
PcsI WCGNNNNNNNCGW 1 cut(s) 186
PdmI GAANNNNTTC 1 cut(s) 1050
PfeI GAWTC 2 cut(s) 364, 1272
PkrI GCNGC 3 cut(s) 44, 122, 216
PleI GAGTC 2 cut(s) 100, 760
PluTI GGCGCC 1 cut(s) 215
PpsI GAGTC 2 cut(s) 100, 760
PshBI ATTAAT 1 cut(s) 1518
PsiI TTATAA 2 cut(s) 876, 1424
Psp6I CCWGG 1 cut(s) 87
PspGI CCWGG 1 cut(s) 87
PspN4I GGNNCC 4 cut(s) 41, 213, 749, 951
PspPI GGNCC 1 cut(s) 892
PstNI CAGNNNCTG 1 cut(s) 1513
PsuI RGATCY 1 cut(s) 1165
RseI CAYNNNNRTG 2 cut(s) 155, 1353
SaqAI TTAA 5 cut(s) 351, 723, 981, 1109, 1518
SatI GCNGC 3 cut(s) 43, 121, 215
Sau3AI GATC 5 cut(s) 76, 1147, 1165, 1177, 1204
Sau96I GGNCC 1 cut(s) 892
SchI GAGTC 2 cut(s) 100, 760
ScrFI CCNGG 1 cut(s) 89
SduI GDGCHC 3 cut(s) 54, 563, 697
SfaNI GCATC 2 cut(s) 853, 1367
SfcI CTRYAG 1 cut(s) 459
SfoI GGCGCC 1 cut(s) 213
SmiMI CAYNNNNRTG 2 cut(s) 155, 1353
SmlI CTYRAG 1 cut(s) 887
SmoI CTYRAG 1 cut(s) 887
SseBI AGGCCT 1 cut(s) 544
SsiI CCGC 7 cut(s) 25, 43, 121, 215, 564, 1278, 1311
SspDI GGCGCC 1 cut(s) 211
SspMI CTAG 2 cut(s) 1020, 1371
StuI AGGCCT 1 cut(s) 544
StyD4I CCNGG 1 cut(s) 87
TaaI ACNGT 3 cut(s) 11, 393, 1038
TaqI TCGA 5 cut(s) 75, 96, 307, 468, 861
TauI GCSGC 3 cut(s) 45, 123, 217
TfiI GAWTC 2 cut(s) 364, 1272
Tru1I TTAA 5 cut(s) 351, 723, 981, 1109, 1518
Tru9I TTAA 5 cut(s) 351, 723, 981, 1109, 1518
TscAI CASTG 2 cut(s) 176, 1518
TseFI GTSAC 2 cut(s) 763, 1333
Tsp45I GTSAC 2 cut(s) 763, 1333
TspDTI ATGAA 6 cut(s) 139, 647, 749, 793, 845, 966
TspRI CASTG 2 cut(s) 176, 1518
VneI GTGCAC 2 cut(s) 50, 559
VspI ATTAAT 1 cut(s) 1518
XapI RAATTY 2 cut(s) 280, 1062
XmiI GTMKAC 1 cut(s) 455
XmnI GAANNNNTTC 1 cut(s) 1050
XspI CTAG 2 cut(s) 1020, 1371
Zsp2I ATGCAT 1 cut(s) 1350
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.