Rh1DG082200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0004806
Physical Location & Seq
Forward (+)
15053139 .. 15054323
1185 bp
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UTR
Exon/CDS
Intron
Rh1DG082200.1

Sequence Viewer

Length: 1185 bp
ATGAATGAGATGGAAGACCCCAATGATGTGACTTTTAATATTTTGATATCTGGTTATTCTGGAGAAGAGAATTTAGTGCAGGCGCTTGTTATGTTAGACAAGTGCTTTGGTCTGGGGTATGTGCCTGATGTTGTCACGACAACCAAGGTGTTGGAAATTCTGTGCAATGATGGTCGGGTAATGGAGGCTGTCAAGGTTATAGAGAGAGTGGAGAGCAATGGAGGGTTGGTTGATGTCGTGGCATATAATACCTTGATTAAGGGTTACTGTCGATTAGGGAAAGCGAAACTTGGTCTTCGCATTTTGAAGGAGATAGAGAGAAAAGGGTGTCTTCCAAATGTTGATACCTACAATGTCTTGATCTCGGGTTTTTGTGAGTCTGGGATGTTGGATAAAGCTCTTGATCTGTTTAATGATATGAAAACAGATGGCATCAATTGGAATTTTGCTACATATGATACGTTAATAAGAGGCTTGTGTTCAGGAGGAAGAACTGAAGATGGGTTAAAAATTTTGGATTTGATGAATGAGAGCAAAGATGGTTGTAGGGGTCAAATAGGTCCTTTTAATAGTGTCTTGTATGGCATGTATAAGGAACAACGTTTGGACGAAGCACTTGAGTTTCTTGCCAATATGGGTAAACTATTTCCCAGAGCTCTTGATAGGAACTTTAGGATTTTAGGTTTCTGTGAGGAGGGTGCCACTGAGAATGCAAAGAAGGTCTATGATCAGATGATTGTGGAAAAGGCAGTCCCATGTGTTTTGATTTATGACTATCTAATCCATAGATTTTGCCAACGAGGGTGTGTTCGTCAAGCCTTTGAGCTTATGAATGAGATGATTGCTCATTGTTACTTTCCTGTTTCATCGACTTTCAATGTTCTGATTAACGGGTTTTGTGAGCAAGGAAAAGTTGGTAGTGCACTAAAGCTCCTCGATGAGATGATTGGTAGAGGTTGTTTACTTGATATAGAAAGTTATAGTCATTTGGTAGGTGCTTTTTGCCAGAAGGGGGATTTTCAGAAAGCTTTAAAACTCGTTTTGCAAATGGTAGGAAAGGGTATCACTCCTGAATATTTCACATGGAACTCGTTGCTTCTTTGTTCAAGTCGAGAGACTGTATGGTTAAACAGCAAAAGTATGTTTTATGTGAACAATCAATTACGTTGTATTATTGAGGCTTAA

Protein Analysis

394

Amino Acids

44.28

Weight (kDa)

5.22

Isoelectric Point (pI)

24.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 9 - 104 3.4e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 75 - 104 3.8e-06 PPR repeat
PPR_3 PF13812 77 - 123 7.3e-12 Pentatricopeptide repeat domain
PPR_2 PF13041 78 - 125 3e-17 PPR repeat family
PPR PF01535 80 - 110 3.4e-07 PPR repeat
PPR_1 PF12854 108 - 141 6e-14 PPR repeat
PPR_2 PF13041 112 - 160 2.1e-17 PPR repeat family
PPR PF01535 116 - 145 3.1e-10 PPR repeat
PPR_long PF17177 236 - 369 3.3e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 285 - 315 8.1e-10 PPR repeat
PPR_2 PF13041 289 - 335 6.6e-12 PPR repeat family
PPR PF01535 290 - 320 3.6e-08 PPR repeat
PPR_3 PF13812 310 - 366 5.3e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 323 - 366 1.6e-07 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 698
AclI AACGTT 1 cut(s) 601
AcsI RAATTY 4 cut(s) 70, 156, 442, 510
AcuI CTGAAG 1 cut(s) 516
AfiI CCNNNNNNNGG 1 cut(s) 1012
AgsI TTSAA 3 cut(s) 307, 877, 1107
AluBI AGCT 5 cut(s) 398, 656, 826, 931, 1028
AluI AGCT 5 cut(s) 398, 656, 826, 931, 1028
Alw21I GWGCWC 2 cut(s) 658, 925
Alw26I GTCTC 1 cut(s) 1109
Alw44I GTGCAC 1 cut(s) 921
Ama87I CYCGRG 1 cut(s) 364
ApaLI GTGCAC 1 cut(s) 921
ApoI RAATTY 4 cut(s) 70, 156, 442, 510
ArsI GACNNNNNNTTYG 2 cut(s) 89, 121
AspLEI GCGC 1 cut(s) 85
AspS9I GGNCC 1 cut(s) 560
AvaI CYCGRG 1 cut(s) 364
AvaII GGWCC 1 cut(s) 560
BaeGI GKGCMC 1 cut(s) 925
BanI GGYRCC 1 cut(s) 698
BanII GRGCYC 1 cut(s) 658
BbsI GAAGAC 3 cut(s) 21, 287, 323
Bbv12I GWGCWC 2 cut(s) 658, 925
BccI CCATC 5 cut(s) 4, 164, 422, 494, 533
BclI TGATCA 1 cut(s) 727
BcoDI GTCTC 1 cut(s) 1109
BfoI RGCGCY 1 cut(s) 86
Bme18I GGWCC 1 cut(s) 560
BmeT110I CYCGRG 1 cut(s) 364
BmgT120I GGNCC 1 cut(s) 560
BmiI GGNNCC 1 cut(s) 700
BmsI GCATC 1 cut(s) 441
BpiI GAAGAC 3 cut(s) 21, 287, 323
BpmI CTGGAG 1 cut(s) 81
BpuEI CTTGAG 1 cut(s) 638
BsaJI CCNNGG 1 cut(s) 144
BsaXI ACNNNNNCTCC 4 cut(s) 213, 243, 915, 945
Bsc4I CCNNNNNNNGG 1 cut(s) 1012
Bse3DI GCAATG 2 cut(s) 172, 223
BseDI CCNNGG 1 cut(s) 144
BseGI GGATG 1 cut(s) 390
BseLI CCNNNNNNNGG 1 cut(s) 1012
BseMI GCAATG 2 cut(s) 172, 223
BseMII CTCAG 1 cut(s) 696
BseRI GAGGAG 2 cut(s) 707, 923
BseSI GKGCMC 1 cut(s) 925
BsgI GTGCAG 1 cut(s) 98
BshNI GGYRCC 1 cut(s) 698
BsiHKAI GWGCWC 2 cut(s) 658, 925
BsiHKCI CYCGRG 1 cut(s) 364
BslFI GGGAC 1 cut(s) 737
BslI CCNNNNNNNGG 1 cut(s) 1012
BsmAI GTCTC 1 cut(s) 1109
BsmFI GGGAC 1 cut(s) 737
BsmI GAATGC 1 cut(s) 715
BsoBI CYCGRG 1 cut(s) 364
Bsp1286I GDGCHC 2 cut(s) 658, 925
Bsp143I GATC 3 cut(s) 360, 403, 727
BspCNI CTCAG 1 cut(s) 697
BspLI GGNNCC 1 cut(s) 700
BspT107I GGYRCC 1 cut(s) 698
BsrDI GCAATG 2 cut(s) 172, 223
BssECI CCNNGG 1 cut(s) 144
BssMI GATC 3 cut(s) 360, 403, 727
BssT1I CCWWGG 1 cut(s) 144
Bst4CI ACNGT 2 cut(s) 269, 1120
Bst6I CTCTTC 1 cut(s) 60
BstC8I GCNNGC 1 cut(s) 81
BstDEI CTNAG 1 cut(s) 705
BstF5I GGATG 1 cut(s) 390
BstH2I RGCGCY 1 cut(s) 86
BstHHI GCGC 1 cut(s) 85
BstKTI GATC 3 cut(s) 363, 406, 730
BstMAI GTCTC 1 cut(s) 1109
BstMBI GATC 3 cut(s) 360, 403, 727
BstNSI RCATGY 1 cut(s) 589
BstSLI GKGCMC 1 cut(s) 925
BstV2I GAAGAC 3 cut(s) 21, 287, 323
BstXI CCANNNNNNTGG 1 cut(s) 151
BtsCI GGATG 1 cut(s) 390
BtsIMutI CAGTG 1 cut(s) 702
Cac8I GCNNGC 1 cut(s) 81
CfoI GCGC 1 cut(s) 85
Cfr13I GGNCC 1 cut(s) 560
CviAII CATG 3 cut(s) 586, 756, 1083
CviJI RGCY 9 cut(s) 188, 398, 474, 656, 818, 826, 931, 1028, 1181
CviKI_1 RGCY 9 cut(s) 188, 398, 474, 656, 818, 826, 931, 1028, 1181
DdeI CTNAG 1 cut(s) 705
DpnI GATC 3 cut(s) 362, 405, 729
DpnII GATC 3 cut(s) 360, 403, 727
DraI TTTAAA 1 cut(s) 1032
Eam1104I CTCTTC 1 cut(s) 60
EarI CTCTTC 1 cut(s) 60
Ecl136II GAGCTC 1 cut(s) 656
Eco130I CCWWGG 1 cut(s) 144
Eco24I GRGCYC 1 cut(s) 658
Eco32I GATATC 1 cut(s) 48
Eco47I GGWCC 1 cut(s) 560
Eco53kI GAGCTC 1 cut(s) 656
Eco57I CTGAAG 1 cut(s) 516
Eco88I CYCGRG 1 cut(s) 364
EcoICRI GAGCTC 1 cut(s) 656
EcoO109I RGGNCCY 1 cut(s) 560
EcoRV GATATC 1 cut(s) 48
EcoT14I CCWWGG 1 cut(s) 144
EcoT38I GRGCYC 1 cut(s) 658
ErhI CCWWGG 1 cut(s) 144
FaeI CATG 3 cut(s) 589, 759, 1086
FalI AAGNNNNNCTT 4 cut(s) 273, 305, 315, 347
FaqI GGGAC 1 cut(s) 737
FatI CATG 3 cut(s) 585, 755, 1082
FauNDI CATATG 1 cut(s) 454
FbaI TGATCA 1 cut(s) 727
FokI GGATG 1 cut(s) 397
FriOI GRGCYC 1 cut(s) 658
GlaI GCGC 1 cut(s) 84
GsuI CTGGAG 1 cut(s) 81
HaeII RGCGCY 1 cut(s) 86
HhaI GCGC 1 cut(s) 85
Hin1II CATG 3 cut(s) 589, 759, 1086
Hin6I GCGC 1 cut(s) 83
HinP1I GCGC 1 cut(s) 83
HindIII AAGCTT 1 cut(s) 1026
HinfI GANTC 1 cut(s) 377
Hpy166II GTNNAC 4 cut(s) 641, 923, 962, 1153
Hpy188I TCNGA 3 cut(s) 732, 885, 1023
Hpy188III TCNNGA 8 cut(s) 60, 136, 358, 401, 483, 659, 1070, 1112
Hpy8I GTNNAC 4 cut(s) 641, 923, 962, 1153
HpyAV CCTTC 3 cut(s) 301, 712, 1003
HpyCH4III ACNGT 2 cut(s) 269, 1120
HpyCH4IV ACGT 3 cut(s) 461, 601, 1165
HpyCH4V TGCA 5 cut(s) 79, 165, 713, 923, 1045
HpyF3I CTNAG 1 cut(s) 705
HpySE526I ACGT 3 cut(s) 461, 601, 1165
Hsp92II CATG 3 cut(s) 589, 759, 1086
HspAI GCGC 1 cut(s) 83
Ksp22I TGATCA 1 cut(s) 727
Kzo9I GATC 3 cut(s) 360, 403, 727
LmnI GCTCC 1 cut(s) 936
LweI GCATC 1 cut(s) 441
MaeII ACGT 3 cut(s) 461, 601, 1165
MaeIII GTNAC 4 cut(s) 28, 133, 263, 851
MalI GATC 3 cut(s) 362, 405, 729
MboI GATC 3 cut(s) 360, 403, 727
MboII GAAGA 6 cut(s) 26, 77, 287, 323, 501, 509
MfeI CAATTG 1 cut(s) 436
MhlI GDGCHC 2 cut(s) 658, 925
MluCI AATT 6 cut(s) 70, 156, 436, 442, 510, 1160
MlyI GAGTC 1 cut(s) 386
MmeI TCCRAC 2 cut(s) 132, 369
MunI CAATTG 1 cut(s) 436
Mva1269I GAATGC 1 cut(s) 715
NdeI CATATG 1 cut(s) 454
NdeII GATC 3 cut(s) 360, 403, 727
NlaIII CATG 3 cut(s) 589, 759, 1086
NlaIV GGNNCC 1 cut(s) 700
NmuCI GTSAC 2 cut(s) 28, 133
NspI RCATGY 1 cut(s) 589
PctI GAATGC 1 cut(s) 715
PleI GAGTC 1 cut(s) 385
PpsI GAGTC 1 cut(s) 385
PpuMI RGGWCCY 1 cut(s) 560
Psp124BI GAGCTC 1 cut(s) 658
Psp1406I AACGTT 1 cut(s) 601
Psp5II RGGWCCY 1 cut(s) 560
PspN4I GGNNCC 1 cut(s) 700
PspPI GGNCC 1 cut(s) 560
PspPPI RGGWCCY 1 cut(s) 560
SacI GAGCTC 1 cut(s) 658
Sau3AI GATC 3 cut(s) 360, 403, 727
Sau96I GGNCC 1 cut(s) 560
SchI GAGTC 1 cut(s) 386
SduI GDGCHC 2 cut(s) 658, 925
SfaNI GCATC 1 cut(s) 441
SinI GGWCC 1 cut(s) 560
SmlI CTYRAG 1 cut(s) 617
SmoI CTYRAG 1 cut(s) 617
Sse9I AATT 6 cut(s) 70, 156, 436, 442, 510, 1160
SspI AATATT 2 cut(s) 40, 1076
SstI GAGCTC 1 cut(s) 658
StyI CCWWGG 1 cut(s) 144
TaaI ACNGT 2 cut(s) 269, 1120
TaiI ACGT 3 cut(s) 464, 604, 1168
TaqI TCGA 4 cut(s) 271, 869, 936, 1111
TasI AATT 6 cut(s) 70, 156, 436, 442, 510, 1160
TscAI CASTG 1 cut(s) 709
TseFI GTSAC 2 cut(s) 28, 133
Tsp45I GTSAC 2 cut(s) 28, 133
TspDTI ATGAA 5 cut(s) 17, 434, 539, 845, 855
TspRI CASTG 1 cut(s) 709
VneI GTGCAC 1 cut(s) 921
VpaK11BI GGWCC 1 cut(s) 560
XapI RAATTY 4 cut(s) 70, 156, 442, 510
XceI RCATGY 1 cut(s) 589
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.