Rh4AG233900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0016096
Physical Location & Seq
Reverse (-)
53837580 .. 53839568
1989 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG233900.1

Sequence Viewer

Length: 1329 bp
ATGAAAAAGCCGTTGAACCAAATCCTCCACCTCACCGCCGCCTCTTCAAACTTTTCCCGCCAAAACCAACCGTCGCATTTTCACCTCATCCAACACCTCCTCCGCAACTGTAACCACTCCACCTCCGCAAACTCCATCCATTCCGTCGTGATAAAGTCTGGCTCTTTCTACGACACTTTCACCGCCAACCATCTCATCAATTGCTATGTCAGGTTCCGCAGAATCGAGTCTGCAGCCAAGGTGTTCGACGAAATGCGTGACCCAAACGTCGTGTCGTGGACGTCGCTCATCTCCGGCTACGTCAGCGCGGATCGCCCGCGAGTGGGTCTGTGGCTGTTTGGGAGGATGTCGGAATGTTCGGTTCTGCCCAACGAGTTTACTTTCGCTACTGTCATTAATGCGTGTTCGGTGCTTGCTGATGTTGAAACCGGCAGAAAAATTCATGCCCGTGTTGAAATATTGGGTGTGCAAAAGAACCTTGTTGTGTGTTCCGCGCTGGTTGATATGTACGGGAAGTGCAATGATGTCGGTGGCGCTCGGCGGGTTTTTGAGTTGACGGGTGGGAGGAATGTTGTTACTTGGACTTCCATTATTGCTGCTTATGCCCAGAACGGACGAGGCCAGGATGCGCTCCAGCTCTTTAGGGAATTTAATCGTGGGATGATGGAGCGTCCGAATCATTTCATGTTGGCTAGTGTTGTAAATGCTTGTGCGAGCTTGGGTCGTTTAGTTTCTGGCAAAGTTGCACATGGAGCAGTGATTCGCCGTGGACATGATCTGAATGATGTGATTGCGAGTGCATTGGTTGACATGTATGCTAAATGTGGGAGTGTTGAGTATTCTGACAAGGTTTTCAGGCGAATCCCAAATCCCTCTGTAATAGCCTACACTTCGATGATTGTGGCTGCTGCGAAGCTTCGTGGAAGGGTTGACATTGCTGTTGAAGCTAGTAGACGGCTAATAGATTCCAACCAACAGGTATCGGGTGCATATGTCACGTTGTCAAATGCTTATGCGTTGGGTGGAGAGTGGGAGACCGCTCATGGTCTTCGGTCAGAAATGAAGCGTACTGGGGTTAGGAAAGAACCCGGCTGCAGTTGGGTTGAGATTAAGGACTCAAATTATGTGTTCTATGCTGGAGATGTATCATCATGTGCACGCCGGAGTGAGGTGGTTACTTTGCTGAGGGAGTTGGAGGGTAAAATGAAACAAAGAGGATATGTAGGAGGGAGTATAGGATTGGTCTTTGTTGATGTAGAGGAGGAGGCCAAAGAGGAAATTATATCTTCAGCTTTGATAAAAGCCGCCATTTTCTGTACTCTTTTCTAA

Protein Analysis

442

Amino Acids

48.79

Weight (kDa)

9.13

Isoelectric Point (pI)

39.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 88 - 135 2.2e-09 PPR repeat family
PPR_2 PF13041 189 - 217 9.6e-06 PPR repeat family
PPR PF01535 192 - 216 1e-05 PPR repeat
E_motif PF20431 310 - 369 2.5e-14 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0016096)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G15720
fragaria_vesca FvH4_3g12520
malus_domestica MD13G1170500.v1.1
prunus_persica Prupe.1G138900_v2.0.a1
pyrus_communis pycom13g14610
rosa_chinensis RchiOBHm_Chr4g0421681
rosa_laevigata RLG00000007659
rosa_multiflora Rmu_sc0004533.1_g000011
rosa_roxburghii Rroxscaffold_5G00363920
rosa_rugosa Rorug04G0174600
rosa_samantha Rh4AG233900 Rh4BG237000 Rh4CG248800
rosa_wichuraiana Rw0G007720 Rw4G020010

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 266
AatII GACGTC 1 cut(s) 284
AccBSI CCGCTC 1 cut(s) 1040
AccI GTMKAC 1 cut(s) 952
AccII CGCG 3 cut(s) 308, 319, 494
AclWI GGATC 1 cut(s) 318
AcsI RAATTY 2 cut(s) 438, 647
AcuI CTGAAG 1 cut(s) 1272
AcyI GRCGYC 1 cut(s) 281
AfaI GTAC 3 cut(s) 509, 1069, 1318
AfiI CCNNNNNNNGG 3 cut(s) 322, 323, 1168
AflIII ACRYGT 1 cut(s) 810
AgsI TTSAA 5 cut(s) 16, 48, 425, 455, 944
AjnI CCWGG 1 cut(s) 621
AluBI AGCT 5 cut(s) 637, 717, 916, 947, 1292
AluI AGCT 5 cut(s) 637, 717, 916, 947, 1292
Alw21I GWGCWC 1 cut(s) 1159
Alw26I GTCTC 1 cut(s) 1028
Alw44I GTGCAC 1 cut(s) 1155
AlwI GGATC 1 cut(s) 318
AoxI GGCC 2 cut(s) 619, 1266
ApaLI GTGCAC 1 cut(s) 1155
ApeKI GCWGC 5 cut(s) 233, 596, 905, 908, 1092
ApoI RAATTY 2 cut(s) 438, 647
ArsI GACNNNNNNTTYG 2 cut(s) 257, 289
AseI ATTAAT 1 cut(s) 396
Asp700I GAANNNNTTC 1 cut(s) 680
AspLEI GCGC 4 cut(s) 308, 496, 536, 631
AsuC2I CCSGG 1 cut(s) 1089
AsuHPI GGTGA 3 cut(s) 25, 74, 172
BaeGI GKGCMC 1 cut(s) 1159
BbsI GAAGAC 1 cut(s) 1040
Bbv12I GWGCWC 1 cut(s) 1159
BbvCI CCTCAGC 1 cut(s) 1184
BbvI GCAGC 5 cut(s) 245, 583, 892, 895, 1079
BccI CCATC 3 cut(s) 143, 198, 658
BceAI ACGGC 2 cut(s) 750, 971
BcgI CGANNNNNNTGC 2 cut(s) 508, 542
BciT130I CCWGG 1 cut(s) 623
BcnI CCSGG 1 cut(s) 1089
BcoDI GTCTC 1 cut(s) 1028
BfaI CTAG 2 cut(s) 693, 948
BfmI CTRYAG 2 cut(s) 231, 1093
BfoI RGCGCY 1 cut(s) 537
BisI GCNGC 7 cut(s) 39, 234, 597, 906, 909, 1093, 1305
BlsI GCNGC 7 cut(s) 40, 235, 598, 907, 910, 1094, 1306
Bme1390I CCNGG 2 cut(s) 623, 1089
BmiI GGNNCC 1 cut(s) 215
BmrFI CCNGG 2 cut(s) 623, 1089
BmrI ACTGGG 1 cut(s) 1080
BmsI GCATC 1 cut(s) 616
BmuI ACTGGG 1 cut(s) 1080
BpiI GAAGAC 1 cut(s) 1040
BpmI CTGGAG 2 cut(s) 617, 1158
Bpu10I CCTNAGC 1 cut(s) 1184
BpuMI CCSGG 1 cut(s) 1089
BsaHI GRCGYC 1 cut(s) 281
BsaI GGTCTC 1 cut(s) 1028
BsaJI CCNNGG 2 cut(s) 237, 766
BsaXI ACNNNNNCTCC 4 cut(s) 84, 107, 114, 137
Bsc4I CCNNNNNNNGG 3 cut(s) 322, 323, 1168
Bse118I RCCGGY 1 cut(s) 428
Bse1I ACTGG 1 cut(s) 1075
Bse3DI GCAATG 2 cut(s) 526, 933
BseBI CCWGG 1 cut(s) 623
BseDI CCNNGG 2 cut(s) 237, 766
BseGI GGATG 5 cut(s) 87, 135, 351, 631, 666
BseLI CCNNNNNNNGG 3 cut(s) 322, 323, 1168
BseMI GCAATG 2 cut(s) 526, 933
BseMII CTCAG 1 cut(s) 1175
BseNI ACTGG 1 cut(s) 1075
BseRI GAGGAG 3 cut(s) 89, 1274, 1277
BseSI GKGCMC 1 cut(s) 1159
BseXI GCAGC 5 cut(s) 245, 583, 892, 895, 1079
Bsh1236I CGCG 3 cut(s) 308, 319, 494
BshFI GGCC 2 cut(s) 621, 1268
BsiHKAI GWGCWC 1 cut(s) 1159
BsiSI CCGG 4 cut(s) 294, 429, 1089, 1162
BslI CCNNNNNNNGG 3 cut(s) 322, 323, 1168
BsmAI GTCTC 1 cut(s) 1028
BsnI GGCC 2 cut(s) 621, 1268
Bso31I GGTCTC 1 cut(s) 1028
Bsp1286I GDGCHC 1 cut(s) 1159
Bsp143I GATC 2 cut(s) 310, 775
BspANI GGCC 2 cut(s) 621, 1268
BspCNI CTCAG 1 cut(s) 1176
BspFNI CGCG 3 cut(s) 308, 319, 494
BspLI GGNNCC 1 cut(s) 215
BspMAI CTGCAG 2 cut(s) 235, 1097
BspPI GGATC 1 cut(s) 318
BspTNI GGTCTC 1 cut(s) 1028
BsrBI CCGCTC 1 cut(s) 1040
BsrDI GCAATG 2 cut(s) 526, 933
BsrFI RCCGGY 1 cut(s) 428
BsrI ACTGG 1 cut(s) 1075
BssAI RCCGGY 1 cut(s) 428
BssECI CCNNGG 2 cut(s) 237, 766
BssMI GATC 2 cut(s) 310, 775
BssNI GRCGYC 1 cut(s) 281
BssT1I CCWWGG 1 cut(s) 237
Bst2UI CCWGG 1 cut(s) 623
Bst4CI ACNGT 3 cut(s) 72, 110, 391
Bst6I CTCTTC 1 cut(s) 49
BstACI GRCGYC 1 cut(s) 281
BstC8I GCNNGC 4 cut(s) 317, 414, 715, 1159
BstDEI CTNAG 1 cut(s) 1184
BstDSI CCRYGG 1 cut(s) 766
BstF5I GGATG 5 cut(s) 87, 135, 351, 631, 666
BstFNI CGCG 3 cut(s) 308, 319, 494
BstH2I RGCGCY 1 cut(s) 537
BstHHI GCGC 4 cut(s) 308, 496, 536, 631
BstKTI GATC 2 cut(s) 313, 778
BstMAI GTCTC 1 cut(s) 1028
BstMBI GATC 2 cut(s) 310, 775
BstMWI GCNNNNNNNGC 5 cut(s) 303, 312, 602, 752, 944
BstNI CCWGG 1 cut(s) 623
BstNSI RCATGY 1 cut(s) 814
BstSCI CCNGG 2 cut(s) 621, 1087
BstSFI CTRYAG 2 cut(s) 231, 1093
BstSLI GKGCMC 1 cut(s) 1159
BstUI CGCG 3 cut(s) 308, 319, 494
BstV1I GCAGC 5 cut(s) 245, 583, 892, 895, 1079
BstV2I GAAGAC 1 cut(s) 1040
BsuRI GGCC 2 cut(s) 621, 1268
BtgI CCRYGG 1 cut(s) 766
BtsCI GGATG 5 cut(s) 87, 135, 351, 631, 666
BtsI GCAGTG 1 cut(s) 762
BtsIMutI CAGTG 1 cut(s) 762
Cac8I GCNNGC 4 cut(s) 317, 414, 715, 1159
CfoI GCGC 4 cut(s) 308, 496, 536, 631
Cfr10I RCCGGY 1 cut(s) 428
CseI GACGC 1 cut(s) 659
Csp6I GTAC 3 cut(s) 508, 1068, 1317
CviAII CATG 7 cut(s) 443, 685, 749, 773, 811, 1043, 1152
CviQI GTAC 3 cut(s) 508, 1068, 1317
DdeI CTNAG 1 cut(s) 1184
DpnI GATC 2 cut(s) 312, 777
DpnII GATC 2 cut(s) 310, 775
DrdI GACNNNNNNGTC 1 cut(s) 266
DseDI GACNNNNNNGTC 1 cut(s) 266
Eam1104I CTCTTC 1 cut(s) 49
EarI CTCTTC 1 cut(s) 49
Eco130I CCWWGG 1 cut(s) 237
Eco31I GGTCTC 1 cut(s) 1028
Eco57I CTGAAG 1 cut(s) 1272
EcoRII CCWGG 1 cut(s) 621
EcoT14I CCWWGG 1 cut(s) 237
ErhI CCWWGG 1 cut(s) 237
FaeI CATG 7 cut(s) 446, 688, 752, 776, 814, 1046, 1155
FatI CATG 7 cut(s) 442, 684, 748, 772, 810, 1042, 1151
FauI CCCGC 3 cut(s) 65, 324, 534
FauNDI CATATG 1 cut(s) 991
FblI GTMKAC 1 cut(s) 952
Fnu4HI GCNGC 7 cut(s) 39, 234, 597, 906, 909, 1093, 1305
FokI GGATG 5 cut(s) 74, 122, 358, 638, 673
Fsp4HI GCNGC 7 cut(s) 39, 234, 597, 906, 909, 1093, 1305
FspBI CTAG 2 cut(s) 693, 948
GlaI GCGC 4 cut(s) 307, 495, 535, 630
GluI GCNGC 7 cut(s) 39, 234, 597, 906, 909, 1093, 1305
GsuI CTGGAG 2 cut(s) 617, 1158
HaeII RGCGCY 1 cut(s) 537
HaeIII GGCC 2 cut(s) 621, 1268
HapII CCGG 4 cut(s) 294, 429, 1089, 1162
HgaI GACGC 1 cut(s) 659
HhaI GCGC 4 cut(s) 308, 496, 536, 631
Hin1I GRCGYC 1 cut(s) 281
Hin1II CATG 7 cut(s) 446, 688, 752, 776, 814, 1046, 1155
Hin6I GCGC 4 cut(s) 306, 494, 534, 629
HinP1I GCGC 4 cut(s) 306, 494, 534, 629
HincII GTYRAC 3 cut(s) 555, 808, 931
HindII GTYRAC 3 cut(s) 555, 808, 931
HindIII AAGCTT 1 cut(s) 914
HinfI GANTC 7 cut(s) 222, 227, 676, 760, 861, 965, 1115
HpaII CCGG 4 cut(s) 294, 429, 1089, 1162
HphI GGTGA 3 cut(s) 25, 74, 172
Hpy166II GTNNAC 8 cut(s) 279, 378, 555, 770, 808, 931, 953, 1157
Hpy188I TCNGA 5 cut(s) 352, 675, 780, 844, 1057
Hpy188III TCNNGA 1 cut(s) 148
Hpy8I GTNNAC 8 cut(s) 279, 378, 555, 770, 808, 931, 953, 1157
Hpy99I CGWCG 5 cut(s) 76, 149, 251, 272, 286
HpyAV CCTTC 1 cut(s) 918
HpyCH4III ACNGT 3 cut(s) 72, 110, 391
HpyCH4IV ACGT 4 cut(s) 267, 281, 300, 998
HpyCH4V TGCA 8 cut(s) 233, 469, 519, 746, 800, 989, 1095, 1157
HpyF10VI GCNNNNNNNGC 5 cut(s) 303, 312, 602, 752, 944
HpyF3I CTNAG 1 cut(s) 1184
HpySE526I ACGT 4 cut(s) 267, 281, 300, 998
Hsp92I GRCGYC 1 cut(s) 281
Hsp92II CATG 7 cut(s) 446, 688, 752, 776, 814, 1046, 1155
HspAI GCGC 4 cut(s) 306, 494, 534, 629
Kzo9I GATC 2 cut(s) 310, 775
LmnI GCTCC 3 cut(s) 636, 667, 752
Lsp1109I GCAGC 5 cut(s) 245, 583, 892, 895, 1079
LweI GCATC 1 cut(s) 616
MaeI CTAG 2 cut(s) 693, 948
MaeII ACGT 4 cut(s) 267, 281, 300, 998
MaeIII GTNAC 5 cut(s) 110, 257, 574, 994, 1174
MalI GATC 2 cut(s) 312, 777
MbiI CCGCTC 1 cut(s) 1040
MboI GATC 2 cut(s) 310, 775
MboII GAAGA 3 cut(s) 36, 1040, 1278
MfeI CAATTG 1 cut(s) 199
MhlI GDGCHC 1 cut(s) 1159
MluCI AATT 5 cut(s) 199, 438, 647, 1120, 1278
MlyI GAGTC 2 cut(s) 236, 1109
MmeI TCCRAC 4 cut(s) 115, 330, 993, 1173
MroXI GAANNNNTTC 1 cut(s) 680
MseI TTAA 3 cut(s) 396, 651, 1110
MslI CAYNNNNRTG 2 cut(s) 447, 893
MspI CCGG 4 cut(s) 294, 429, 1089, 1162
MspR9I CCNGG 2 cut(s) 623, 1089
MunI CAATTG 1 cut(s) 199
MvaI CCWGG 1 cut(s) 623
MvnI CGCG 3 cut(s) 308, 319, 494
MwoI GCNNNNNNNGC 5 cut(s) 303, 312, 602, 752, 944
NciI CCSGG 1 cut(s) 1089
NdeI CATATG 1 cut(s) 991
NdeII GATC 2 cut(s) 310, 775
NlaIII CATG 7 cut(s) 446, 688, 752, 776, 814, 1046, 1155
NlaIV GGNNCC 1 cut(s) 215
NmeAIII GCCGAG 1 cut(s) 517
NmuCI GTSAC 2 cut(s) 257, 994
NspI RCATGY 1 cut(s) 814
PciI ACATGT 1 cut(s) 810
PdmI GAANNNNTTC 1 cut(s) 680
PfeI GAWTC 5 cut(s) 222, 676, 760, 861, 965
PkrI GCNGC 7 cut(s) 40, 235, 598, 907, 910, 1094, 1306
PleI GAGTC 2 cut(s) 235, 1109
PpsI GAGTC 2 cut(s) 235, 1109
PscI ACATGT 1 cut(s) 810
PshBI ATTAAT 1 cut(s) 396
Psp6I CCWGG 1 cut(s) 621
PspGI CCWGG 1 cut(s) 621
PspN4I GGNNCC 1 cut(s) 215
PstI CTGCAG 2 cut(s) 235, 1097
RsaI GTAC 3 cut(s) 509, 1069, 1318
RsaNI GTAC 3 cut(s) 508, 1068, 1317
RseI CAYNNNNRTG 2 cut(s) 447, 893
SaqAI TTAA 3 cut(s) 396, 651, 1110
SatI GCNGC 7 cut(s) 39, 234, 597, 906, 909, 1093, 1305
Sau3AI GATC 2 cut(s) 310, 775
SchI GAGTC 2 cut(s) 236, 1109
ScrFI CCNGG 2 cut(s) 623, 1089
SduI GDGCHC 1 cut(s) 1159
SfaNI GCATC 1 cut(s) 616
SfcI CTRYAG 2 cut(s) 231, 1093
SmiMI CAYNNNNRTG 2 cut(s) 447, 893
Sse9I AATT 5 cut(s) 199, 438, 647, 1120, 1278
SspI AATATT 1 cut(s) 459
SspMI CTAG 2 cut(s) 693, 948
StyD4I CCNGG 2 cut(s) 621, 1087
StyI CCWWGG 1 cut(s) 237
TaaI ACNGT 3 cut(s) 72, 110, 391
TaiI ACGT 4 cut(s) 270, 284, 303, 1001
TaqI TCGA 3 cut(s) 225, 246, 893
TaqII GACCGA 1 cut(s) 1041
TasI AATT 5 cut(s) 199, 438, 647, 1120, 1278
TatI WGTACW 1 cut(s) 1316
TauI GCSGC 2 cut(s) 41, 1307
TfiI GAWTC 5 cut(s) 222, 676, 760, 861, 965
Tru1I TTAA 3 cut(s) 396, 651, 1110
Tru9I TTAA 3 cut(s) 396, 651, 1110
TscAI CASTG 1 cut(s) 762
TseFI GTSAC 2 cut(s) 257, 994
TseI GCWGC 5 cut(s) 233, 596, 905, 908, 1092
Tsp45I GTSAC 2 cut(s) 257, 994
TspDTI ATGAA 5 cut(s) 17, 431, 673, 1076, 1220
TspGWI ACGGA 2 cut(s) 133, 627
TspRI CASTG 1 cut(s) 762
VneI GTGCAC 1 cut(s) 1155
VspI ATTAAT 1 cut(s) 396
XapI RAATTY 2 cut(s) 438, 647
XceI RCATGY 1 cut(s) 814
XmiI GTMKAC 1 cut(s) 952
XmnI GAANNNNTTC 1 cut(s) 680
XspI CTAG 2 cut(s) 693, 948
ZraI GACGTC 1 cut(s) 282
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.