Rw4G024940

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0005202
Physical Location & Seq
Reverse (-)
50927290 .. 50928884
1595 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G024940.1

Sequence Viewer

Length: 1545 bp
ATGAGCAGACTCGTTTTCAAATCAAACCCACACCCTCCTCCTTGTCTTCTTCTTCTTCAAAAATGTTCAAGCATGAACCAACTCAAGCAAATCCATGCCCACACACTCATCACCGGCCTAGCTCGTTTCACCTACATCACCAGCAAGCTCTTAGCCTTCTCCGCCTTATCGGAACACGGTGATTTACGCCACGCAAAGACTCTATTCAATCGAATTCCGACACCCAATGTCTTTGATTTCAATTCCATGATCATGGGTTTCTTGAAAAACTCACATTCCGAAAAGGGTCTCTCTGTTTTTACCAAAATGAGAAGGATAGGCGCTGACCCAAATGCTCGAACTTTCACAGTTTTGGTTAAAGCTTGTGTTGGGGTGCCTTTGCTTGATCAGATATATGGTCTGATACTGAAGTTTGGACATGAGTGTGATGTTTATGTTACTAGCTCAGTTATTAGCGTGTACTGTAAATTGAGAGCTGTGGAATTTGCTCAGAGAGTTTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTATTGTGGCAATGGGTTGGTTGATGATGCCCGTGACTTGTTCTATAAAATGCCTGTGAGAAATGATGTGTCTTACAGTGCAATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTCGTCGTGCGAATGTGAGGTTCAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATCCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACAGCAGGAATAGATTTTTATGCAAAATATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTACTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGAAGGGACCTAAACCAAATGCTGTGACATTTCTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTCAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTATAGCATTGCTCCAGAGATTGAGCACTATGGGTGCATGGTCGATCTCTTGGCCCGTGCTGGGCGAGTGAAAGAGGCAGAGATATTAATAAGAAGTATGGCAATGGAACCAGACGGAGCTATATGGGGGTCTTTACTTAACGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTATGATTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCAAATATGTATGCCAAAATGGAAAAGTGGGAGGATGTGTTGAGGCTAAGGAAAATGATGAAGGATAGAGAGGTAGTTTCAATATCTGCTTGGAGTTTCATCGAGGTTGATGGTGTTATGCATAAATTCTTAGCCAATGATAAGTCTCATTCTCATTCAAGAAGTACATACCAAACATTGAGTCAACTGAGGAAGGAAATCGAAAGTTTTTCCAATGCCAATGATTCTTTGCTATTGTAA
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

514

Amino Acids

57.91

Weight (kDa)

8.67

Isoelectric Point (pI)

39.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 75 - 123 4.2e-10 PPR repeat family
PPR_1 PF12854 172 - 201 1.6e-07 PPR repeat
PPR PF01535 176 - 203 1.3e-06 PPR repeat
PPR_2 PF13041 292 - 337 2.2e-09 PPR repeat family
PPR PF01535 294 - 322 8.3e-06 PPR repeat
E_motif PF20431 410 - 460 1.9e-10 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 373
AciI CCGC 1 cut(s) 162
AclWI GGATC 2 cut(s) 787, 800
AcoI YGGCCR 1 cut(s) 1225
AcsI RAATTY 4 cut(s) 213, 482, 1065, 1430
AcuI CTGAAG 1 cut(s) 428
AfaI GTAC 3 cut(s) 461, 844, 1471
AfiI CCNNNNNNNGG 1 cut(s) 1128
AhlI ACTAGT 1 cut(s) 536
AloI GAACNNNNNNTCC 2 cut(s) 1281, 1313
AluBI AGCT 9 cut(s) 122, 148, 362, 444, 476, 674, 838, 1187, 1258
AluI AGCT 9 cut(s) 122, 148, 362, 444, 476, 674, 838, 1187, 1258
Alw21I GWGCWC 2 cut(s) 840, 1095
Alw26I GTCTC 3 cut(s) 293, 735, 1455
AlwI GGATC 2 cut(s) 787, 800
AoxI GGCC 3 cut(s) 115, 1119, 1225
ApoI RAATTY 4 cut(s) 213, 482, 1065, 1430
ArsI GACNNNNNNTTYG 6 cut(s) 803, 835, 1011, 1043, 1471, 1503
AseI ATTAAT 1 cut(s) 1154
AspLEI GCGC 1 cut(s) 323
AspS9I GGNCC 2 cut(s) 965, 1120
AsuHPI GGTGA 5 cut(s) 103, 121, 130, 191, 929
AvaII GGWCC 1 cut(s) 965
BaeI ACNNNNGTAYC 2 cut(s) 395, 428
BalI TGGCCA 1 cut(s) 1227
BamHI GGATCC 1 cut(s) 792
BanI GGYRCC 1 cut(s) 373
BanII GRGCYC 1 cut(s) 840
BbsI GAAGAC 1 cut(s) 38
Bbv12I GWGCWC 2 cut(s) 840, 1095
BccI CCATC 1 cut(s) 1409
BcgI CGANNNNNNTGC 2 cut(s) 621, 655
BclI TGATCA 3 cut(s) 249, 385, 894
BcoDI GTCTC 3 cut(s) 293, 735, 1455
BcuI ACTAGT 1 cut(s) 536
BfaI CTAG 3 cut(s) 119, 441, 537
BfoI RGCGCY 1 cut(s) 324
Bme18I GGWCC 1 cut(s) 965
BmgT120I GGNCC 2 cut(s) 965, 1120
BmiI GGNNCC 4 cut(s) 375, 794, 966, 1176
BmsI GCATC 1 cut(s) 568
BpiI GAAGAC 1 cut(s) 38
BpmI CTGGAG 1 cut(s) 1065
Bpu10I CCTNAGC 1 cut(s) 1352
BpuEI CTTGAG 2 cut(s) 68, 854
BsaI GGTCTC 1 cut(s) 293
BsaJI CCNNGG 1 cut(s) 814
BsaXI ACNNNNNCTCC 2 cut(s) 1328, 1358
Bsc4I CCNNNNNNNGG 1 cut(s) 1128
Bse118I RCCGGY 2 cut(s) 113, 1241
Bse3DI GCAATG 4 cut(s) 568, 639, 1074, 1176
BseDI CCNNGG 1 cut(s) 814
BseGI GGATG 2 cut(s) 814, 1345
BseLI CCNNNNNNNGG 1 cut(s) 1128
BseMI GCAATG 4 cut(s) 568, 639, 1074, 1176
BseMII CTCAG 3 cut(s) 459, 503, 1484
BseRI GAGGAG 1 cut(s) 27
BseYI CCCAGC 1 cut(s) 1127
BshFI GGCC 3 cut(s) 117, 1121, 1227
BshNI GGYRCC 1 cut(s) 373
BsiHKAI GWGCWC 2 cut(s) 840, 1095
BsiSI CCGG 2 cut(s) 114, 1242
BslFI GGGAC 2 cut(s) 978, 1065
BslI CCNNNNNNNGG 1 cut(s) 1128
BsmAI GTCTC 3 cut(s) 293, 735, 1455
BsmFI GGGAC 2 cut(s) 978, 1065
BsmI GAATGC 2 cut(s) 661, 773
BsnI GGCC 3 cut(s) 117, 1121, 1227
Bso31I GGTCTC 1 cut(s) 293
Bsp1286I GDGCHC 2 cut(s) 840, 1095
Bsp143I GATC 5 cut(s) 249, 385, 792, 894, 1111
Bsp19I CCATGG 1 cut(s) 814
BspACI CCGC 1 cut(s) 162
BspANI GGCC 3 cut(s) 117, 1121, 1227
BspCNI CTCAG 3 cut(s) 458, 502, 1485
BspLI GGNNCC 4 cut(s) 375, 794, 966, 1176
BspPI GGATC 2 cut(s) 787, 800
BspT107I GGYRCC 1 cut(s) 373
BspTNI GGTCTC 1 cut(s) 293
BsrDI GCAATG 4 cut(s) 568, 639, 1074, 1176
BsrFI RCCGGY 2 cut(s) 113, 1241
BssAI RCCGGY 2 cut(s) 113, 1241
BssECI CCNNGG 1 cut(s) 814
BssMI GATC 5 cut(s) 249, 385, 792, 894, 1111
BssT1I CCWWGG 1 cut(s) 814
Bst4CI ACNGT 4 cut(s) 179, 349, 464, 629
BstC8I GCNNGC 1 cut(s) 146
BstDEI CTNAG 6 cut(s) 151, 445, 489, 1352, 1435, 1493
BstDSI CCRYGG 1 cut(s) 814
BstF5I GGATG 2 cut(s) 814, 1345
BstH2I RGCGCY 1 cut(s) 324
BstHHI GCGC 1 cut(s) 323
BstKTI GATC 5 cut(s) 252, 388, 795, 897, 1114
BstMAI GTCTC 3 cut(s) 293, 735, 1455
BstMBI GATC 5 cut(s) 249, 385, 792, 894, 1111
BstMWI GCNNNNNNNGC 1 cut(s) 161
BstNSI RCATGY 1 cut(s) 1011
BstV2I GAAGAC 1 cut(s) 38
BstX2I RGATCY 1 cut(s) 792
BstXI CCANNNNNNTGG 1 cut(s) 253
BstYI RGATCY 1 cut(s) 792
BsuRI GGCC 3 cut(s) 117, 1121, 1227
BtgI CCRYGG 1 cut(s) 814
BtsCI GGATG 2 cut(s) 814, 1345
BtsI GCAGTG 1 cut(s) 1002
BtsIMutI CAGTG 2 cut(s) 634, 1002
Cac8I GCNNGC 1 cut(s) 146
CfoI GCGC 1 cut(s) 323
Cfr10I RCCGGY 2 cut(s) 113, 1241
Cfr13I GGNCC 2 cut(s) 965, 1120
CseI GACGC 1 cut(s) 689
Csp6I GTAC 3 cut(s) 460, 843, 1470
CviQI GTAC 3 cut(s) 460, 843, 1470
DdeI CTNAG 6 cut(s) 151, 445, 489, 1352, 1435, 1493
DpnI GATC 5 cut(s) 251, 387, 794, 896, 1113
DpnII GATC 5 cut(s) 249, 385, 792, 894, 1111
EaeI YGGCCR 1 cut(s) 1225
EciI GGCGGA 1 cut(s) 151
Ecl136II GAGCTC 1 cut(s) 838
Eco130I CCWWGG 1 cut(s) 814
Eco24I GRGCYC 1 cut(s) 840
Eco31I GGTCTC 1 cut(s) 293
Eco47I GGWCC 1 cut(s) 965
Eco53kI GAGCTC 1 cut(s) 838
Eco57I CTGAAG 1 cut(s) 428
EcoICRI GAGCTC 1 cut(s) 838
EcoO109I RGGNCCY 1 cut(s) 965
EcoRI GAATTC 1 cut(s) 213
EcoT14I CCWWGG 1 cut(s) 814
EcoT22I ATGCAT 1 cut(s) 1428
EcoT38I GRGCYC 1 cut(s) 840
ErhI CCWWGG 1 cut(s) 814
FalI AAGNNNNNCTT 2 cut(s) 717, 749
FaqI GGGAC 2 cut(s) 978, 1065
FbaI TGATCA 3 cut(s) 249, 385, 894
FokI GGATG 2 cut(s) 821, 1352
FriOI GRGCYC 1 cut(s) 840
FspBI CTAG 3 cut(s) 119, 441, 537
GlaI GCGC 1 cut(s) 322
GsaI CCCAGC 1 cut(s) 1131
GsuI CTGGAG 1 cut(s) 1065
HaeII RGCGCY 1 cut(s) 324
HaeIII GGCC 3 cut(s) 117, 1121, 1227
HapII CCGG 2 cut(s) 114, 1242
HgaI GACGC 1 cut(s) 689
HhaI GCGC 1 cut(s) 323
Hin6I GCGC 1 cut(s) 321
HinP1I GCGC 1 cut(s) 321
HincII GTYRAC 1 cut(s) 1490
HindII GTYRAC 1 cut(s) 1490
HindIII AAGCTT 2 cut(s) 360, 1256
HinfI GANTC 5 cut(s) 9, 199, 728, 1486, 1529
HpaII CCGG 2 cut(s) 114, 1242
HphI GGTGA 5 cut(s) 103, 121, 130, 191, 929
Hpy166II GTNNAC 2 cut(s) 460, 1490
Hpy188I TCNGA 8 cut(s) 172, 219, 280, 390, 402, 492, 654, 1218
Hpy188III TCNNGA 5 cut(s) 262, 689, 796, 1082, 1464
Hpy8I GTNNAC 2 cut(s) 460, 1490
Hpy99I CGWCG 2 cut(s) 705, 708
HpyAV CCTTC 7 cut(s) 166, 306, 776, 955, 1284, 1360, 1492
HpyCH4III ACNGT 4 cut(s) 179, 349, 464, 629
HpyCH4IV ACGT 1 cut(s) 1054
HpyCH4V TGCA 6 cut(s) 632, 773, 866, 1007, 1104, 1426
HpyF10VI GCNNNNNNNGC 1 cut(s) 161
HpyF3I CTNAG 6 cut(s) 151, 445, 489, 1352, 1435, 1493
HpySE526I ACGT 1 cut(s) 1054
HspAI GCGC 1 cut(s) 321
Ksp22I TGATCA 3 cut(s) 249, 385, 894
Kzo9I GATC 5 cut(s) 249, 385, 792, 894, 1111
LmnI GCTCC 2 cut(s) 1084, 1184
LweI GCATC 1 cut(s) 568
MaeI CTAG 3 cut(s) 119, 441, 537
MaeII ACGT 1 cut(s) 1054
MaeIII GTNAC 4 cut(s) 436, 584, 874, 982
MalI GATC 5 cut(s) 251, 387, 794, 896, 1113
MboI GATC 5 cut(s) 249, 385, 792, 894, 1111
MboII GAAGA 4 cut(s) 38, 41, 44, 47
MflI RGATCY 1 cut(s) 792
MhlI GDGCHC 2 cut(s) 840, 1095
MlsI TGGCCA 1 cut(s) 1227
MluCI AATT 7 cut(s) 213, 241, 467, 482, 1065, 1268, 1430
MluNI TGGCCA 1 cut(s) 1227
MlyI GAGTC 4 cut(s) 3, 193, 737, 1495
MmeI TCCRAC 2 cut(s) 242, 512
Mox20I TGGCCA 1 cut(s) 1227
Mph1103I ATGCAT 1 cut(s) 1428
MscI TGGCCA 1 cut(s) 1227
MseI TTAA 4 cut(s) 357, 750, 1154, 1206
MslI CAYNNNNRTG 2 cut(s) 251, 423
Msp20I TGGCCA 1 cut(s) 1227
MspI CCGG 2 cut(s) 114, 1242
Mva1269I GAATGC 2 cut(s) 661, 773
MwoI GCNNNNNNNGC 1 cut(s) 161
NcoI CCATGG 1 cut(s) 814
NdeII GATC 5 cut(s) 249, 385, 792, 894, 1111
NlaIV GGNNCC 4 cut(s) 375, 794, 966, 1176
NmuCI GTSAC 2 cut(s) 584, 982
NsiI ATGCAT 1 cut(s) 1428
NspI RCATGY 1 cut(s) 1011
PctI GAATGC 2 cut(s) 661, 773
PfeI GAWTC 1 cut(s) 1529
PleI GAGTC 4 cut(s) 3, 193, 736, 1494
PpsI GAGTC 4 cut(s) 3, 193, 736, 1494
PpuMI RGGWCCY 1 cut(s) 965
PshBI ATTAAT 1 cut(s) 1154
Psp124BI GAGCTC 1 cut(s) 840
Psp5II RGGWCCY 1 cut(s) 965
PspFI CCCAGC 1 cut(s) 1127
PspN4I GGNNCC 4 cut(s) 375, 794, 966, 1176
PspPI GGNCC 2 cut(s) 965, 1120
PspPPI RGGWCCY 1 cut(s) 965
PsuI RGATCY 1 cut(s) 792
RsaI GTAC 3 cut(s) 461, 844, 1471
RsaNI GTAC 3 cut(s) 460, 843, 1470
RseI CAYNNNNRTG 2 cut(s) 251, 423
SacI GAGCTC 1 cut(s) 840
SaqAI TTAA 4 cut(s) 357, 750, 1154, 1206
Sau3AI GATC 5 cut(s) 249, 385, 792, 894, 1111
Sau96I GGNCC 2 cut(s) 965, 1120
SchI GAGTC 4 cut(s) 3, 193, 737, 1495
SduI GDGCHC 2 cut(s) 840, 1095
SfaNI GCATC 1 cut(s) 568
SinI GGWCC 1 cut(s) 965
SmiMI CAYNNNNRTG 2 cut(s) 251, 423
SmlI CTYRAG 2 cut(s) 83, 833
SmoI CTYRAG 2 cut(s) 83, 833
SpeI ACTAGT 1 cut(s) 536
Sse9I AATT 7 cut(s) 213, 241, 467, 482, 1065, 1268, 1430
SsiI CCGC 1 cut(s) 162
SspMI CTAG 3 cut(s) 119, 441, 537
SstI GAGCTC 1 cut(s) 840
StyI CCWWGG 1 cut(s) 814
TaaI ACNGT 4 cut(s) 179, 349, 464, 629
TaiI ACGT 1 cut(s) 1057
TaqI TCGA 6 cut(s) 211, 337, 777, 1110, 1407, 1506
TasI AATT 7 cut(s) 213, 241, 467, 482, 1065, 1268, 1430
TatI WGTACW 2 cut(s) 459, 1469
TfiI GAWTC 1 cut(s) 1529
Tru1I TTAA 4 cut(s) 357, 750, 1154, 1206
Tru9I TTAA 4 cut(s) 357, 750, 1154, 1206
TscAI CASTG 2 cut(s) 634, 1009
TseFI GTSAC 2 cut(s) 584, 982
Tsp45I GTSAC 2 cut(s) 584, 982
TspDTI ATGAA 5 cut(s) 89, 519, 1047, 1379, 1393
TspGWI ACGGA 1 cut(s) 1197
TspRI CASTG 2 cut(s) 634, 1009
VpaK11BI GGWCC 1 cut(s) 965
VspI ATTAAT 1 cut(s) 1154
XapI RAATTY 4 cut(s) 213, 482, 1065, 1430
XceI RCATGY 1 cut(s) 1011
XspI CTAG 3 cut(s) 119, 441, 537
Zsp2I ATGCAT 1 cut(s) 1428
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.