Rh3AG263400

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0005202
Physical Location & Seq
Reverse (-)
29321778 .. 29323430
1653 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG263400.1

Sequence Viewer

Length: 1653 bp
ATGTCATGCTGGAATTCCCTACTCTTCATTTGTTTGCTTCAGACCACTCTTCTCCAAATGAGCAGACTCGTTTTCAAATCAAACCCACACCCTGCTCCCTGTCTTCTTCTTCTTCAAACATGTTCAAGCATGAACCAACTCAAGCAAATCCACGCCCAAACACTGATCACCGGCCTAGCTCGTTTCACCTACATCACCAGCAAGCTCTTAGCCTTCTCCGCCTTATCGGAACATGGGGATTTACGCCACGCAGAGACTCTATTCAATCGAATTCCGGCACCCAATGTCTTTGATTTCAATTCCATGATCATGGGTTTCTTGAAAAACTCACATTCCAAAAAGGGTCTCTCTGTTTTTACCCAAATGAGAAGGATAGGTGCTGACCCAAATGCTCGAACTTTCACAGTTTTGGTTAAAGCTTGTGTTGGGGTGCCTTTGCTTGATCAGATATATGGTCAGATAATGAAGTTTGGACATGAGTGTGATGTTTATGTTACTAGCTCAGTTATTAGTGTGTACTGTAAATTGAGAGCTGTGGAATTTGCTCGGAGAGTGTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTATTGTGGCAATGGGTTGGTTGATGATGCCCGTGACCTGTTCGATAAAATGCCTGAGAGAAATGATGTGTCTTACAGTGCAATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTTGTCGTGCGAATGTGAGGTTGACAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGACGTATTTAGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACGGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTAAAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTACTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGATGGGACCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCATTGCATGCAATCACAAAACTCTGATAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTATAGCATTGCTCCAGAGATTGAGCACTATGGGTGCATGGTTGATCTCTTGGCCCGTGCTGGGCGAGTGAAAGAGGCAGAGATATTGATAAGAAGTATGGCAATGGAACCAGACGGAGCTATATGGGGGTCTTTACTTAACGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCGAACATGTATGCCAAAATGGAAAACTGGGAGGATGTGTTGAGGCTAAGGAAAATGATGAAGGATAGAGAGGTAGTTTCAATTTCTGCTTGGAGTTTCATCGAGATTGATGGTGTTGTGCATAAATTCTTAGCCAATGATAAGTCTCATTCTCATTCAAGAAGTATATACCAAACATTAAGTCAACTGAGGAAGGAACTCGAAAGTTTTTCCAATGCCAATGATTCTTTGCTATTGTAA
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

550

Amino Acids

61.86

Weight (kDa)

7.84

Isoelectric Point (pI)

39.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 94 - 142 6.4e-10 PPR repeat family
PPR_1 PF12854 191 - 220 2.9e-09 PPR repeat
PPR_2 PF13041 192 - 224 4e-07 PPR repeat family
PPR PF01535 195 - 224 8.4e-08 PPR repeat
PPR_2 PF13041 326 - 373 3.1e-09 PPR repeat family
E_motif PF20431 445 - 496 1.2e-10 E motif
Eplus_motif PF20430 511 - 538 4.1e-07 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) 277, 430
AccII CGCG 1 cut(s) 973
AciI CCGC 2 cut(s) 219, 971
AcoI YGGCCR 1 cut(s) 1333
AcsI RAATTY 5 cut(s) 13, 270, 539, 1173, 1538
AcuI CTGAAG 1 cut(s) 23
AfaI GTAC 2 cut(s) 518, 901
AfiI CCNNNNNNNGG 1 cut(s) 1236
AflIII ACRYGT 2 cut(s) 119, 1419
AhlI ACTAGT 1 cut(s) 593
AloI GAACNNNNNNTCC 2 cut(s) 1389, 1421
AluBI AGCT 9 cut(s) 179, 205, 419, 501, 533, 731, 895, 1295, 1366
AluI AGCT 9 cut(s) 179, 205, 419, 501, 533, 731, 895, 1295, 1366
Alw21I GWGCWC 2 cut(s) 897, 1203
Alw26I GTCTC 4 cut(s) 248, 350, 792, 1563
AoxI GGCC 3 cut(s) 172, 1227, 1333
ApoI RAATTY 5 cut(s) 13, 270, 539, 1173, 1538
ArsI GACNNNNNNTTYG 4 cut(s) 860, 892, 1579, 1611
AspS9I GGNCC 2 cut(s) 1073, 1228
AsuHPI GGTGA 4 cut(s) 160, 178, 187, 1037
AvaII GGWCC 1 cut(s) 1073
BalI TGGCCA 1 cut(s) 1335
BanI GGYRCC 2 cut(s) 277, 430
BanII GRGCYC 1 cut(s) 897
BbsI GAAGAC 1 cut(s) 95
Bbv12I GWGCWC 2 cut(s) 897, 1203
BccI CCATC 2 cut(s) 1063, 1517
BceAI ACGGC 1 cut(s) 918
BcgI CGANNNNNNTGC 2 cut(s) 678, 712
BclI TGATCA 4 cut(s) 165, 306, 442, 1002
BcoDI GTCTC 4 cut(s) 248, 350, 792, 1563
BcuI ACTAGT 1 cut(s) 593
BfaI CTAG 3 cut(s) 176, 498, 594
BisI GCNGC 1 cut(s) 971
BlsI GCNGC 1 cut(s) 972
Bme18I GGWCC 1 cut(s) 1073
BmgT120I GGNCC 2 cut(s) 1073, 1228
BmiI GGNNCC 4 cut(s) 279, 432, 1074, 1284
BmrI ACTGGG 1 cut(s) 1450
BmsI GCATC 3 cut(s) 625, 934, 957
BmuI ACTGGG 1 cut(s) 1450
BpiI GAAGAC 1 cut(s) 95
BpmI CTGGAG 1 cut(s) 1173
Bpu10I CCTNAGC 1 cut(s) 1460
BpuEI CTTGAG 2 cut(s) 125, 911
BsaI GGTCTC 1 cut(s) 350
BsaJI CCNNGG 1 cut(s) 871
BsaXI ACNNNNNCTCC 2 cut(s) 1436, 1466
Bsc4I CCNNNNNNNGG 1 cut(s) 1236
Bse118I RCCGGY 2 cut(s) 170, 1349
Bse1I ACTGG 1 cut(s) 1445
Bse3DI GCAATG 5 cut(s) 625, 696, 1110, 1182, 1284
BseDI CCNNGG 1 cut(s) 871
BseGI GGATG 1 cut(s) 1453
BseLI CCNNNNNNNGG 1 cut(s) 1236
BseMI GCAATG 5 cut(s) 625, 696, 1110, 1182, 1284
BseMII CTCAG 3 cut(s) 516, 654, 1592
BseNI ACTGG 1 cut(s) 1445
BseYI CCCAGC 1 cut(s) 1235
Bsh1236I CGCG 1 cut(s) 973
BshFI GGCC 3 cut(s) 174, 1229, 1335
BshNI GGYRCC 2 cut(s) 277, 430
BsiHKAI GWGCWC 2 cut(s) 897, 1203
BsiSI CCGG 3 cut(s) 171, 275, 1350
BslFI GGGAC 2 cut(s) 1086, 1173
BslI CCNNNNNNNGG 1 cut(s) 1236
BsmAI GTCTC 4 cut(s) 248, 350, 792, 1563
BsmFI GGGAC 2 cut(s) 1086, 1173
BsmI GAATGC 2 cut(s) 718, 830
BsnI GGCC 3 cut(s) 174, 1229, 1335
Bso31I GGTCTC 1 cut(s) 350
Bsp1286I GDGCHC 2 cut(s) 897, 1203
Bsp143I GATC 5 cut(s) 165, 306, 442, 1002, 1219
Bsp19I CCATGG 1 cut(s) 871
BspACI CCGC 2 cut(s) 219, 971
BspANI GGCC 3 cut(s) 174, 1229, 1335
BspCNI CTCAG 3 cut(s) 515, 655, 1593
BspFNI CGCG 1 cut(s) 973
BspLI GGNNCC 4 cut(s) 279, 432, 1074, 1284
BspT107I GGYRCC 2 cut(s) 277, 430
BspTNI GGTCTC 1 cut(s) 350
BsrDI GCAATG 5 cut(s) 625, 696, 1110, 1182, 1284
BsrFI RCCGGY 2 cut(s) 170, 1349
BsrI ACTGG 1 cut(s) 1445
BssAI RCCGGY 2 cut(s) 170, 1349
BssECI CCNNGG 1 cut(s) 871
BssMI GATC 5 cut(s) 165, 306, 442, 1002, 1219
BssT1I CCWWGG 1 cut(s) 871
Bst4CI ACNGT 3 cut(s) 406, 521, 686
Bst6I CTCTTC 2 cut(s) 29, 54
BstC8I GCNNGC 2 cut(s) 203, 1117
BstDEI CTNAG 6 cut(s) 208, 502, 663, 1460, 1543, 1601
BstDSI CCRYGG 1 cut(s) 871
BstF5I GGATG 1 cut(s) 1453
BstFNI CGCG 1 cut(s) 973
BstKTI GATC 5 cut(s) 168, 309, 445, 1005, 1222
BstMAI GTCTC 4 cut(s) 248, 350, 792, 1563
BstMBI GATC 5 cut(s) 165, 306, 442, 1002, 1219
BstMWI GCNNNNNNNGC 1 cut(s) 218
BstNSI RCATGY 3 cut(s) 123, 1119, 1423
BstUI CGCG 1 cut(s) 973
BstV2I GAAGAC 1 cut(s) 95
BstXI CCANNNNNNTGG 1 cut(s) 310
BsuRI GGCC 3 cut(s) 174, 1229, 1335
BtgI CCRYGG 1 cut(s) 871
BtsCI GGATG 1 cut(s) 1453
BtsIMutI CAGTG 2 cut(s) 161, 691
Cac8I GCNNGC 2 cut(s) 203, 1117
Cfr10I RCCGGY 2 cut(s) 170, 1349
Cfr13I GGNCC 2 cut(s) 1073, 1228
Csp6I GTAC 2 cut(s) 517, 900
CviQI GTAC 2 cut(s) 517, 900
DdeI CTNAG 6 cut(s) 208, 502, 663, 1460, 1543, 1601
DpnI GATC 5 cut(s) 167, 308, 444, 1004, 1221
DpnII GATC 5 cut(s) 165, 306, 442, 1002, 1219
EaeI YGGCCR 1 cut(s) 1333
Eam1104I CTCTTC 2 cut(s) 29, 54
EarI CTCTTC 2 cut(s) 29, 54
EciI GGCGGA 1 cut(s) 208
Ecl136II GAGCTC 1 cut(s) 895
Eco130I CCWWGG 1 cut(s) 871
Eco24I GRGCYC 1 cut(s) 897
Eco31I GGTCTC 1 cut(s) 350
Eco47I GGWCC 1 cut(s) 1073
Eco53kI GAGCTC 1 cut(s) 895
Eco57I CTGAAG 1 cut(s) 23
EcoICRI GAGCTC 1 cut(s) 895
EcoO109I RGGNCCY 1 cut(s) 1073
EcoRI GAATTC 2 cut(s) 13, 270
EcoT14I CCWWGG 1 cut(s) 871
EcoT38I GRGCYC 1 cut(s) 897
ErhI CCWWGG 1 cut(s) 871
FaqI GGGAC 2 cut(s) 1086, 1173
FbaI TGATCA 4 cut(s) 165, 306, 442, 1002
Fnu4HI GCNGC 1 cut(s) 971
FokI GGATG 1 cut(s) 1460
FriOI GRGCYC 1 cut(s) 897
Fsp4HI GCNGC 1 cut(s) 971
FspBI CTAG 3 cut(s) 176, 498, 594
GluI GCNGC 1 cut(s) 971
GsaI CCCAGC 1 cut(s) 1239
GsuI CTGGAG 1 cut(s) 1173
HaeIII GGCC 3 cut(s) 174, 1229, 1335
HapII CCGG 3 cut(s) 171, 275, 1350
HincII GTYRAC 2 cut(s) 780, 1598
HindII GTYRAC 2 cut(s) 780, 1598
HindIII AAGCTT 2 cut(s) 417, 1364
HinfI GANTC 6 cut(s) 66, 256, 785, 850, 933, 1637
HpaII CCGG 3 cut(s) 171, 275, 1350
HphI GGTGA 4 cut(s) 160, 178, 187, 1037
Hpy166II GTNNAC 3 cut(s) 517, 780, 1598
Hpy188I TCNGA 9 cut(s) 42, 229, 447, 459, 549, 711, 855, 1134, 1326
Hpy188III TCNNGA 5 cut(s) 319, 746, 1190, 1516, 1572
Hpy8I GTNNAC 3 cut(s) 517, 780, 1598
HpyAV CCTTC 6 cut(s) 223, 363, 833, 1392, 1468, 1600
HpyCH4III ACNGT 3 cut(s) 406, 521, 686
HpyCH4IV ACGT 2 cut(s) 857, 1162
HpyCH4V TGCA 7 cut(s) 689, 830, 923, 1115, 1119, 1212, 1534
HpyF10VI GCNNNNNNNGC 1 cut(s) 218
HpyF3I CTNAG 6 cut(s) 208, 502, 663, 1460, 1543, 1601
HpySE526I ACGT 2 cut(s) 857, 1162
Ksp22I TGATCA 4 cut(s) 165, 306, 442, 1002
Kzo9I GATC 5 cut(s) 165, 306, 442, 1002, 1219
LmnI GCTCC 3 cut(s) 100, 1192, 1292
LweI GCATC 3 cut(s) 625, 934, 957
MaeI CTAG 3 cut(s) 176, 498, 594
MaeII ACGT 2 cut(s) 857, 1162
MaeIII GTNAC 4 cut(s) 493, 641, 982, 1090
MalI GATC 5 cut(s) 167, 308, 444, 1004, 1221
MboI GATC 5 cut(s) 165, 306, 442, 1002, 1219
MboII GAAGA 6 cut(s) 16, 41, 95, 98, 101, 104
MhlI GDGCHC 2 cut(s) 897, 1203
MlsI TGGCCA 1 cut(s) 1335
MluCI AATT 9 cut(s) 13, 270, 298, 524, 539, 1173, 1376, 1494, 1538
MluNI TGGCCA 1 cut(s) 1335
MlyI GAGTC 3 cut(s) 60, 250, 794
MmeI TCCRAC 2 cut(s) 569, 1081
MnlI CCTC 8 cut(s) 768, 829, 1243, 1395, 1438, 1449, 1477, 1596
Mox20I TGGCCA 1 cut(s) 1335
MscI TGGCCA 1 cut(s) 1335
MseI TTAA 5 cut(s) 414, 807, 939, 1314, 1592
MslI CAYNNNNRTG 2 cut(s) 308, 480
Msp20I TGGCCA 1 cut(s) 1335
MspI CCGG 3 cut(s) 171, 275, 1350
Mva1269I GAATGC 2 cut(s) 718, 830
MvnI CGCG 1 cut(s) 973
MwoI GCNNNNNNNGC 1 cut(s) 218
NcoI CCATGG 1 cut(s) 871
NdeII GATC 5 cut(s) 165, 306, 442, 1002, 1219
NlaIV GGNNCC 4 cut(s) 279, 432, 1074, 1284
NmuCI GTSAC 2 cut(s) 641, 1090
NspI RCATGY 3 cut(s) 123, 1119, 1423
PaeI GCATGC 1 cut(s) 1119
PciI ACATGT 2 cut(s) 119, 1419
PctI GAATGC 2 cut(s) 718, 830
PfeI GAWTC 3 cut(s) 850, 933, 1637
PflFI GACNNNGTC 1 cut(s) 784
PkrI GCNGC 1 cut(s) 972
PleI GAGTC 3 cut(s) 60, 250, 793
PpsI GAGTC 3 cut(s) 60, 250, 793
PpuMI RGGWCCY 1 cut(s) 1073
PscI ACATGT 2 cut(s) 119, 1419
Psp124BI GAGCTC 1 cut(s) 897
Psp5II RGGWCCY 1 cut(s) 1073
PspFI CCCAGC 1 cut(s) 1235
PspN4I GGNNCC 4 cut(s) 279, 432, 1074, 1284
PspPI GGNCC 2 cut(s) 1073, 1228
PspPPI RGGWCCY 1 cut(s) 1073
PsyI GACNNNGTC 1 cut(s) 784
RsaI GTAC 2 cut(s) 518, 901
RsaNI GTAC 2 cut(s) 517, 900
RseI CAYNNNNRTG 2 cut(s) 308, 480
SacI GAGCTC 1 cut(s) 897
SaqAI TTAA 5 cut(s) 414, 807, 939, 1314, 1592
SatI GCNGC 1 cut(s) 971
Sau3AI GATC 5 cut(s) 165, 306, 442, 1002, 1219
Sau96I GGNCC 2 cut(s) 1073, 1228
SchI GAGTC 3 cut(s) 60, 250, 794
SduI GDGCHC 2 cut(s) 897, 1203
SfaNI GCATC 3 cut(s) 625, 934, 957
SinI GGWCC 1 cut(s) 1073
SmiMI CAYNNNNRTG 2 cut(s) 308, 480
SmlI CTYRAG 2 cut(s) 140, 890
SmoI CTYRAG 2 cut(s) 140, 890
SpeI ACTAGT 1 cut(s) 593
SphI GCATGC 1 cut(s) 1119
Sse9I AATT 9 cut(s) 13, 270, 298, 524, 539, 1173, 1376, 1494, 1538
SsiI CCGC 2 cut(s) 219, 971
SspMI CTAG 3 cut(s) 176, 498, 594
SstI GAGCTC 1 cut(s) 897
StyI CCWWGG 1 cut(s) 871
TaaI ACNGT 3 cut(s) 406, 521, 686
TaiI ACGT 2 cut(s) 860, 1165
TaqI TCGA 6 cut(s) 268, 394, 651, 834, 1515, 1614
TasI AATT 9 cut(s) 13, 270, 298, 524, 539, 1173, 1376, 1494, 1538
TatI WGTACW 1 cut(s) 516
TauI GCSGC 1 cut(s) 973
TfiI GAWTC 3 cut(s) 850, 933, 1637
Tru1I TTAA 5 cut(s) 414, 807, 939, 1314, 1592
Tru9I TTAA 5 cut(s) 414, 807, 939, 1314, 1592
TscAI CASTG 2 cut(s) 168, 691
TseFI GTSAC 2 cut(s) 641, 1090
Tsp45I GTSAC 2 cut(s) 641, 1090
TspDTI ATGAA 8 cut(s) 16, 146, 479, 576, 925, 1155, 1487, 1501
TspGWI ACGGA 1 cut(s) 1305
TspRI CASTG 2 cut(s) 168, 691
Tth111I GACNNNGTC 1 cut(s) 784
VpaK11BI GGWCC 1 cut(s) 1073
XapI RAATTY 5 cut(s) 13, 270, 539, 1173, 1538
XceI RCATGY 3 cut(s) 123, 1119, 1423
XspI CTAG 3 cut(s) 176, 498, 594
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.