Rh3DG292100

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0005202
Physical Location & Seq
Reverse (-)
30231503 .. 30233221
1719 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG292100.1

Sequence Viewer

Length: 1719 bp
ATGTCTTCACCGGGTCATAATAGCCCCGAGTCTTTCCCTCCCTCCCTCGCCAACCAGTTCAATTTCATGTCATGCTGGAATTCCCTACTCTTCATTTGTTTGCTTCAGACCACTCTTCTCCAAATGAGCAGACTCGTTTTCAAATCAAACCCACACCCTCCTCCCTGTCTTCTTCTTCTTCAAACATGTTCAAGCATGAACCAACTCAAGCAAATCCATGCCCACACACTCATCACCGGCCTAGCTCGTTTCACCTACATCACCAGCAAGCTCTTAGCCTTCTCCGCCTTATCGGAACACGGTGATTTACGCCACGCAGAGACTCTATTCAATCGAATTCCGTCACCCAATGTCTTTGATTTCAATTCCATGATCATGGGTTTCTTGAAAAAATCACATTCCGAAAAGGGTCTCTCTGTTTTTACCAAAATGAGAAGGATAGGCACCGACCCAAATGCTCAAACTTTCACAGTTTTGGTTAAAGCTTGTGTTGGGGTGCCTTTGCTTGATCAGATATGTGGTCAGATAATGAAGTTTGGACATGAGTGTGATGTTTATGTTACTAGCTCAGTTATTAGTGTGTACTGTAAATTGAGAGCTGTGGAATTTGCTCGGAGAGTGTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTATTGTGGCAATGGGTTGGTTGATGATGCCCGTGACCTATTTGATAAAATGCCTGAGAGAAATGATGTGTCTTACAGTGCAATGGTTTCAGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTCGTCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTAGATGACCATGGTTTTGAGTATGGACTTGAGCTTGGTACGGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTAAAGAGATATTTGATAAGATGCCGCATAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTACTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGAAGGGACCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTATAGCATTGCTCCAGAGATTGAGCACTATGGGTGCATGGTTGATCTCTTGGCCCGTGCTGGGCGAGTGAAAGAGGCAGAGATATTGATAAGAAGTATGGCAATAGAACCAGACGGAGCTATATGGGGGTCTTTACTTAACGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTCCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCGAACATGTATGCCAAAATGGAAAACTGGGAGGATGTGTTGAGGCTAAGGACAATGATGAAGGATAGAGAGGTAGTTTCAATTTCTGCTTGGAGTTTCATCGAGATTGAGTGTGTTGTGCATAAATTCTTAGCCAATGATAAGACTCATTCTCATTCAAGAAGTATATACCAAACATTAAGTCAACTGAGGAAGGAACTCGAAAGTTTTTCCAATGCCAATGATTGTTTGCTATTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2

Protein Analysis

572

Amino Acids

64.35

Weight (kDa)

7.53

Isoelectric Point (pI)

47.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 116 - 164 2.6e-10 PPR repeat family
PPR_1 PF12854 213 - 242 3.1e-09 PPR repeat
PPR_2 PF13041 214 - 246 4.2e-07 PPR repeat family
PPR PF01535 217 - 246 8.8e-08 PPR repeat
PPR_2 PF13041 348 - 395 2e-10 PPR repeat family
PPR PF01535 352 - 380 9.4e-06 PPR repeat
E_motif PF20431 467 - 518 3.2e-10 E motif
Eplus_motif PF20430 533 - 560 1.7e-06 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 443, 496
AciI CCGC 2 cut(s) 285, 1037
AcoI YGGCCR 1 cut(s) 1399
AcsI RAATTY 5 cut(s) 79, 336, 605, 1239, 1604
AcuI CTGAAG 1 cut(s) 89
AfaI GTAC 2 cut(s) 584, 967
AfiI CCNNNNNNNGG 1 cut(s) 1302
AflIII ACRYGT 2 cut(s) 185, 1485
AhlI ACTAGT 1 cut(s) 659
AloI GAACNNNNNNTCC 2 cut(s) 1455, 1487
AluBI AGCT 9 cut(s) 245, 271, 485, 567, 599, 797, 961, 1361, 1432
AluI AGCT 9 cut(s) 245, 271, 485, 567, 599, 797, 961, 1361, 1432
Alw21I GWGCWC 1 cut(s) 1269
Alw26I GTCTC 3 cut(s) 314, 416, 858
Ama87I CYCGRG 1 cut(s) 26
AoxI GGCC 3 cut(s) 238, 1293, 1399
ApoI RAATTY 5 cut(s) 79, 336, 605, 1239, 1604
ArsI GACNNNNNNTTYG 4 cut(s) 926, 958, 1645, 1677
AspS9I GGNCC 2 cut(s) 1139, 1294
AsuC2I CCSGG 1 cut(s) 12
AsuHPI GGTGA 6 cut(s) 226, 244, 253, 314, 336, 1103
AvaI CYCGRG 1 cut(s) 26
AvaII GGWCC 1 cut(s) 1139
BalI TGGCCA 1 cut(s) 1401
BanI GGYRCC 2 cut(s) 443, 496
BbsI GAAGAC 1 cut(s) 161
Bbv12I GWGCWC 1 cut(s) 1269
BceAI ACGGC 1 cut(s) 984
BcgI CGANNNNNNTGC 2 cut(s) 437, 471
BclI TGATCA 3 cut(s) 372, 508, 1068
BcnI CCSGG 1 cut(s) 12
BcoDI GTCTC 3 cut(s) 314, 416, 858
BcuI ACTAGT 1 cut(s) 659
BfaI CTAG 3 cut(s) 242, 564, 660
BisI GCNGC 1 cut(s) 1037
BlsI GCNGC 1 cut(s) 1038
Bme1390I CCNGG 1 cut(s) 12
Bme18I GGWCC 1 cut(s) 1139
BmeT110I CYCGRG 1 cut(s) 26
BmgT120I GGNCC 2 cut(s) 1139, 1294
BmiI GGNNCC 3 cut(s) 445, 498, 1140
BmrFI CCNGG 1 cut(s) 12
BmrI ACTGGG 1 cut(s) 1516
BmsI GCATC 3 cut(s) 691, 1000, 1023
BmuI ACTGGG 1 cut(s) 1516
BpiI GAAGAC 1 cut(s) 161
BpmI CTGGAG 1 cut(s) 1239
Bpu10I CCTNAGC 1 cut(s) 1526
BpuEI CTTGAG 2 cut(s) 191, 977
BpuMI CCSGG 1 cut(s) 12
BsaI GGTCTC 1 cut(s) 416
BsaJI CCNNGG 1 cut(s) 937
BsaXI ACNNNNNCTCC 2 cut(s) 1502, 1532
Bsc4I CCNNNNNNNGG 1 cut(s) 1302
Bse118I RCCGGY 2 cut(s) 236, 1415
Bse1I ACTGG 2 cut(s) 55, 1511
Bse3DI GCAATG 3 cut(s) 691, 762, 1248
BseDI CCNNGG 1 cut(s) 937
BseGI GGATG 1 cut(s) 1519
BseLI CCNNNNNNNGG 1 cut(s) 1302
BseMI GCAATG 3 cut(s) 691, 762, 1248
BseMII CTCAG 3 cut(s) 582, 720, 1658
BseNI ACTGG 2 cut(s) 55, 1511
BseRI GAGGAG 2 cut(s) 150, 1424
BseYI CCCAGC 1 cut(s) 1301
BshFI GGCC 3 cut(s) 240, 1295, 1401
BshNI GGYRCC 2 cut(s) 443, 496
BsiHKAI GWGCWC 1 cut(s) 1269
BsiHKCI CYCGRG 1 cut(s) 26
BsiSI CCGG 3 cut(s) 11, 237, 1416
BslFI GGGAC 2 cut(s) 1152, 1239
BslI CCNNNNNNNGG 1 cut(s) 1302
BsmAI GTCTC 3 cut(s) 314, 416, 858
BsmFI GGGAC 2 cut(s) 1152, 1239
BsmI GAATGC 2 cut(s) 784, 896
BsnI GGCC 3 cut(s) 240, 1295, 1401
Bso31I GGTCTC 1 cut(s) 416
BsoBI CYCGRG 1 cut(s) 26
Bsp1286I GDGCHC 1 cut(s) 1269
Bsp143I GATC 4 cut(s) 372, 508, 1068, 1285
Bsp19I CCATGG 1 cut(s) 937
BspACI CCGC 2 cut(s) 285, 1037
BspANI GGCC 3 cut(s) 240, 1295, 1401
BspCNI CTCAG 3 cut(s) 581, 721, 1659
BspLI GGNNCC 3 cut(s) 445, 498, 1140
BspT107I GGYRCC 2 cut(s) 443, 496
BspTNI GGTCTC 1 cut(s) 416
BsrDI GCAATG 3 cut(s) 691, 762, 1248
BsrFI RCCGGY 2 cut(s) 236, 1415
BsrI ACTGG 2 cut(s) 55, 1511
BssAI RCCGGY 2 cut(s) 236, 1415
BssECI CCNNGG 1 cut(s) 937
BssMI GATC 4 cut(s) 372, 508, 1068, 1285
BssT1I CCWWGG 1 cut(s) 937
Bst4CI ACNGT 4 cut(s) 302, 472, 587, 752
Bst6I CTCTTC 2 cut(s) 95, 120
BstC8I GCNNGC 1 cut(s) 269
BstDEI CTNAG 6 cut(s) 274, 568, 729, 1526, 1609, 1667
BstDSI CCRYGG 1 cut(s) 937
BstF5I GGATG 1 cut(s) 1519
BstKTI GATC 4 cut(s) 375, 511, 1071, 1288
BstMAI GTCTC 3 cut(s) 314, 416, 858
BstMBI GATC 4 cut(s) 372, 508, 1068, 1285
BstMWI GCNNNNNNNGC 1 cut(s) 284
BstNSI RCATGY 3 cut(s) 189, 1185, 1489
BstSCI CCNGG 1 cut(s) 10
BstV2I GAAGAC 1 cut(s) 161
BstXI CCANNNNNNTGG 1 cut(s) 376
BsuRI GGCC 3 cut(s) 240, 1295, 1401
BtgI CCRYGG 1 cut(s) 937
BtsCI GGATG 1 cut(s) 1519
BtsI GCAGTG 1 cut(s) 1176
BtsIMutI CAGTG 2 cut(s) 757, 1176
Cac8I GCNNGC 1 cut(s) 269
Cfr10I RCCGGY 2 cut(s) 236, 1415
Cfr13I GGNCC 2 cut(s) 1139, 1294
CseI GACGC 1 cut(s) 812
Csp6I GTAC 2 cut(s) 583, 966
CviQI GTAC 2 cut(s) 583, 966
DdeI CTNAG 6 cut(s) 274, 568, 729, 1526, 1609, 1667
DpnI GATC 4 cut(s) 374, 510, 1070, 1287
DpnII GATC 4 cut(s) 372, 508, 1068, 1285
EaeI YGGCCR 1 cut(s) 1399
Eam1104I CTCTTC 2 cut(s) 95, 120
EarI CTCTTC 2 cut(s) 95, 120
EciI GGCGGA 1 cut(s) 274
Eco130I CCWWGG 1 cut(s) 937
Eco31I GGTCTC 1 cut(s) 416
Eco47I GGWCC 1 cut(s) 1139
Eco57I CTGAAG 1 cut(s) 89
Eco88I CYCGRG 1 cut(s) 26
EcoO109I RGGNCCY 1 cut(s) 1139
EcoRI GAATTC 2 cut(s) 79, 336
EcoT14I CCWWGG 1 cut(s) 937
ErhI CCWWGG 1 cut(s) 937
FalI AAGNNNNNCTT 2 cut(s) 840, 872
FaqI GGGAC 2 cut(s) 1152, 1239
FbaI TGATCA 3 cut(s) 372, 508, 1068
Fnu4HI GCNGC 1 cut(s) 1037
FokI GGATG 1 cut(s) 1526
Fsp4HI GCNGC 1 cut(s) 1037
FspBI CTAG 3 cut(s) 242, 564, 660
GluI GCNGC 1 cut(s) 1037
GsaI CCCAGC 1 cut(s) 1305
GsuI CTGGAG 1 cut(s) 1239
HaeIII GGCC 3 cut(s) 240, 1295, 1401
HapII CCGG 3 cut(s) 11, 237, 1416
HgaI GACGC 1 cut(s) 812
HincII GTYRAC 1 cut(s) 1664
HindII GTYRAC 1 cut(s) 1664
HindIII AAGCTT 1 cut(s) 483
HinfI GANTC 7 cut(s) 29, 132, 322, 851, 916, 999, 1624
HpaII CCGG 3 cut(s) 11, 237, 1416
HphI GGTGA 6 cut(s) 226, 244, 253, 314, 336, 1103
Hpy166II GTNNAC 2 cut(s) 583, 1664
Hpy188I TCNGA 9 cut(s) 108, 295, 403, 513, 525, 615, 777, 921, 1392
Hpy188III TCNNGA 5 cut(s) 385, 812, 1256, 1582, 1638
Hpy8I GTNNAC 2 cut(s) 583, 1664
Hpy99I CGWCG 2 cut(s) 828, 831
HpyAV CCTTC 7 cut(s) 289, 429, 899, 1129, 1458, 1534, 1666
HpyCH4III ACNGT 4 cut(s) 302, 472, 587, 752
HpyCH4IV ACGT 1 cut(s) 1228
HpyCH4V TGCA 6 cut(s) 755, 896, 989, 1181, 1278, 1600
HpyF10VI GCNNNNNNNGC 1 cut(s) 284
HpyF3I CTNAG 6 cut(s) 274, 568, 729, 1526, 1609, 1667
HpySE526I ACGT 1 cut(s) 1228
Ksp22I TGATCA 3 cut(s) 372, 508, 1068
Kzo9I GATC 4 cut(s) 372, 508, 1068, 1285
LmnI GCTCC 3 cut(s) 1258, 1358, 1437
LweI GCATC 3 cut(s) 691, 1000, 1023
MaeI CTAG 3 cut(s) 242, 564, 660
MaeII ACGT 1 cut(s) 1228
MaeIII GTNAC 5 cut(s) 342, 559, 707, 1048, 1156
MalI GATC 4 cut(s) 374, 510, 1070, 1287
MboI GATC 4 cut(s) 372, 508, 1068, 1285
MboII GAAGA 6 cut(s) 82, 107, 161, 164, 167, 170
MhlI GDGCHC 1 cut(s) 1269
MlsI TGGCCA 1 cut(s) 1401
MluNI TGGCCA 1 cut(s) 1401
MlyI GAGTC 5 cut(s) 38, 126, 316, 860, 1618
MmeI TCCRAC 2 cut(s) 635, 1147
Mox20I TGGCCA 1 cut(s) 1401
MscI TGGCCA 1 cut(s) 1401
MseI TTAA 5 cut(s) 480, 873, 1005, 1380, 1658
MslI CAYNNNNRTG 3 cut(s) 374, 546, 1044
Msp20I TGGCCA 1 cut(s) 1401
MspI CCGG 3 cut(s) 11, 237, 1416
MspR9I CCNGG 1 cut(s) 12
Mva1269I GAATGC 2 cut(s) 784, 896
MwoI GCNNNNNNNGC 1 cut(s) 284
NciI CCSGG 1 cut(s) 12
NcoI CCATGG 1 cut(s) 937
NdeII GATC 4 cut(s) 372, 508, 1068, 1285
NlaIV GGNNCC 3 cut(s) 445, 498, 1140
NmuCI GTSAC 3 cut(s) 342, 707, 1156
NspI RCATGY 3 cut(s) 189, 1185, 1489
PciI ACATGT 2 cut(s) 185, 1485
PctI GAATGC 2 cut(s) 784, 896
PfeI GAWTC 2 cut(s) 916, 999
PkrI GCNGC 1 cut(s) 1038
PleI GAGTC 5 cut(s) 37, 126, 316, 859, 1618
PpsI GAGTC 5 cut(s) 37, 126, 316, 859, 1618
PpuMI RGGWCCY 1 cut(s) 1139
PscI ACATGT 2 cut(s) 185, 1485
Psp5II RGGWCCY 1 cut(s) 1139
PspFI CCCAGC 1 cut(s) 1301
PspN4I GGNNCC 3 cut(s) 445, 498, 1140
PspPI GGNCC 2 cut(s) 1139, 1294
PspPPI RGGWCCY 1 cut(s) 1139
RsaI GTAC 2 cut(s) 584, 967
RsaNI GTAC 2 cut(s) 583, 966
RseI CAYNNNNRTG 3 cut(s) 374, 546, 1044
SaqAI TTAA 5 cut(s) 480, 873, 1005, 1380, 1658
SatI GCNGC 1 cut(s) 1037
Sau3AI GATC 4 cut(s) 372, 508, 1068, 1285
Sau96I GGNCC 2 cut(s) 1139, 1294
SchI GAGTC 5 cut(s) 38, 126, 316, 860, 1618
ScrFI CCNGG 1 cut(s) 12
SduI GDGCHC 1 cut(s) 1269
SfaNI GCATC 3 cut(s) 691, 1000, 1023
SinI GGWCC 1 cut(s) 1139
SmiMI CAYNNNNRTG 3 cut(s) 374, 546, 1044
SmlI CTYRAG 2 cut(s) 206, 956
SmoI CTYRAG 2 cut(s) 206, 956
SpeI ACTAGT 1 cut(s) 659
SsiI CCGC 2 cut(s) 285, 1037
SspMI CTAG 3 cut(s) 242, 564, 660
StyD4I CCNGG 1 cut(s) 10
StyI CCWWGG 1 cut(s) 937
TaaI ACNGT 4 cut(s) 302, 472, 587, 752
TaiI ACGT 1 cut(s) 1231
TaqI TCGA 4 cut(s) 334, 900, 1581, 1680
TatI WGTACW 1 cut(s) 582
TauI GCSGC 1 cut(s) 1039
TfiI GAWTC 2 cut(s) 916, 999
Tru1I TTAA 5 cut(s) 480, 873, 1005, 1380, 1658
Tru9I TTAA 5 cut(s) 480, 873, 1005, 1380, 1658
TscAI CASTG 2 cut(s) 757, 1183
TseFI GTSAC 3 cut(s) 342, 707, 1156
Tsp45I GTSAC 3 cut(s) 342, 707, 1156
TspDTI ATGAA 9 cut(s) 55, 82, 212, 545, 642, 991, 1221, 1553, 1567
TspGWI ACGGA 2 cut(s) 330, 1371
TspRI CASTG 2 cut(s) 757, 1183
VpaK11BI GGWCC 1 cut(s) 1139
XapI RAATTY 5 cut(s) 79, 336, 605, 1239, 1604
XceI RCATGY 3 cut(s) 189, 1185, 1489
XspI CTAG 3 cut(s) 242, 564, 660
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.