Rh1DG082400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0004806
Physical Location & Seq
Forward (+)
15075502 .. 15079528
4027 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG082400.1

Sequence Viewer

Length: 1596 bp
ATGCTAATCTCCAATCCCTCAAAGCTTCCCCCAATCTCTTCTCTCACCCATCTTCTTCGAACTCTCTCATCCATTGCTGTTCCATCTCACAACCACATATCACATCTTCTACTCGAACAAAAATCAGCCACCCAGGTCCTCGACACCTTCCAATGGGCCTCCAAACTCCCCAGCTTCACCCACTCCCCGTCCACTTACCGAGCCCTCATCCACAAGCTCTGCTCCTTTCGCCGCTTCGACATTGCCCACCAACTGCTCGACGAAATGCCCCACTCAATCGGCCTACCCCCAGATGACCACATTTTCGTCACACTCATTCACGGCCTCGGCCGAGCCCATTTGGTGAAGCAAGTGATCAAGGTGCTTGACTTGGTTCGCAGGAATGGGAAAGTTGGGAGAGCCAGAAGCTTGATGAATGAGATGGAAGACCCCAATGATGTGACTTTTAATATTTTGATATCTGGTTATTGTGGAGAAGAGAATTTGGTGCAAGCGCTTGTTATGTTAGACAAGTGCTTTGGTCTGGGGTATGTGCCTGATGTCGTCACAATAACTAAGGTGTTGGAAATTCTGTGCAATGATGGTCGCGTAATGGAGGCTGTCAAGGTTATAGAGAGAGTGGAGAGCAATGGAGGGTTGGTTGATGTTGTGGCATATAATACCTTGATTAAGGGTTACTGTCGATTAGGGAAAGCAAAACTTGGTCTTTGCATTTTGAAGGAGATAGAGAGAAAAGGGTGTCTTCCAAATGTTGATACCTACAATGTCTTGATCTCGGGTTTTTGTGAGTCTGGGATGTTGGATAAAGCTCTTGATCTGTTTAATGATATGAAAACAGATGGCATCAATTGGAATTTTGCTACATATGATACGTTAATAAGAGGCTTGTGTTCAGGAGGAAGAACTGAAGATGGGTTAAAAATTTTGGATTTGATGAATGAGAGCAAAGATGGTTGTAGGGGTCGAATGGGTCCTTTTAATAGTGTCTTGTATGGCATGTATAAGGAAAAACGTTTCGACGAAGCACTTGAGTTTCTTGCCAATATGGGTAAACTATTTCCCAGAGCTGTTGATAGGAGCTTTAGGATTTTAGGTTTCTGTGAGGAGGGTGCCACTGAGAATGCAAAGAAGGTCTATGATCAGATGATTGTGGAAAGGGCAGTCCCATGTGTTTTGATTTATGACTGTGTAATCCATAGATTTTGCCAACAAGGGTGTGTTCGTCAAGCCTTTGAGCTTATGAATGAGATGATTGCTCATTGTTACTTTCCTGTTTCATCGACTTTCAATGTTCTGATTAACGGGTTTTGTGAGCAAGGAAAAGTTGGTAGTGCGCTAAAGCTCCTCGATGAGATGATTGGTAGAGGTTGTTTACCTGATATAGAGAGTTATAGTCATTTGTTAGGTGCTTTTTGCCAGAAGGGGGATTTTCAGAAAGCTTTAAAACTCGTTTTGCAAATGGTAGGAAAGGGTATCACTCCTGATTATTTCACATGGAACTCGTTGCTTCTTTGTTCAAGTCGAGAGACTGTATGGTTAAACAGCAAAAGTATGTTTCATGTGAACAATCAATTACGTTGTATTATTGAGGCTTAA

Protein Analysis

531

Amino Acids

59.54

Weight (kDa)

7.17

Isoelectric Point (pI)

31.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 144 - 171 2.1e-06 PPR repeat
TPR_24 PF23276 144 - 236 2.8e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 214 - 260 7.8e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 215 - 262 1.6e-16 PPR repeat family
PPR PF01535 217 - 247 2.3e-06 PPR repeat
PPR_1 PF12854 245 - 278 8.8e-14 PPR repeat
PPR_2 PF13041 249 - 297 3.2e-17 PPR repeat family
PPR PF01535 253 - 282 4.5e-10 PPR repeat
PPR_long PF17177 373 - 506 1e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 422 - 452 1.2e-09 PPR repeat
PPR_2 PF13041 426 - 473 7.2e-14 PPR repeat family
PPR PF01535 427 - 457 5.2e-08 PPR repeat
PPR_3 PF13812 447 - 503 1.2e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 455 - 488 3.8e-06 PPR repeat
PPR_2 PF13041 459 - 503 3.8e-10 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) 1109
AccII CGCG 1 cut(s) 588
AciI CCGC 1 cut(s) 232
AclI AACGTT 1 cut(s) 1012
AcoI YGGCCR 1 cut(s) 328
AcsI RAATTY 4 cut(s) 481, 567, 853, 921
AcuI CTGAAG 1 cut(s) 927
AfeI AGCGCT 1 cut(s) 495
AfiI CCNNNNNNNGG 2 cut(s) 153, 1423
AgsI TTSAA 3 cut(s) 718, 1288, 1518
AjnI CCWGG 1 cut(s) 132
Alw26I GTCTC 1 cut(s) 1520
Ama87I CYCGRG 1 cut(s) 775
Aor51HI AGCGCT 1 cut(s) 495
AoxI GGCC 4 cut(s) 156, 280, 322, 328
ApoI RAATTY 4 cut(s) 481, 567, 853, 921
ArsI GACNNNNNNTTYG 4 cut(s) 287, 319, 500, 532
AspLEI GCGC 2 cut(s) 496, 1336
AspS9I GGNCC 3 cut(s) 136, 156, 971
AsuHPI GGTGA 3 cut(s) 37, 169, 355
AsuII TTCGAA 1 cut(s) 58
AvaI CYCGRG 1 cut(s) 775
AvaII GGWCC 2 cut(s) 136, 971
BanI GGYRCC 1 cut(s) 1109
BanII GRGCYC 2 cut(s) 205, 337
BbsI GAAGAC 2 cut(s) 432, 734
BccI CCATC 7 cut(s) 57, 91, 415, 575, 833, 905, 944
BceAI ACGGC 1 cut(s) 337
BciT130I CCWGG 1 cut(s) 134
BclI TGATCA 2 cut(s) 354, 1138
BcoDI GTCTC 1 cut(s) 1520
BfoI RGCGCY 1 cut(s) 497
BisI GCNGC 1 cut(s) 232
BlsI GCNGC 1 cut(s) 233
Bme1390I CCNGG 1 cut(s) 134
Bme18I GGWCC 2 cut(s) 136, 971
BmeT110I CYCGRG 1 cut(s) 775
BmgT120I GGNCC 3 cut(s) 136, 156, 971
BmiI GGNNCC 2 cut(s) 972, 1111
BmrFI CCNGG 1 cut(s) 134
BmsI GCATC 1 cut(s) 852
BpiI GAAGAC 2 cut(s) 432, 734
Bpu14I TTCGAA 1 cut(s) 58
BpuEI CTTGAG 1 cut(s) 1049
BsaJI CCNNGG 2 cut(s) 132, 325
BsaXI ACNNNNNCTCC 2 cut(s) 624, 654
Bsc4I CCNNNNNNNGG 2 cut(s) 153, 1423
Bse3DI GCAATG 4 cut(s) 72, 240, 583, 634
BseBI CCWGG 1 cut(s) 134
BseDI CCNNGG 2 cut(s) 132, 325
BseGI GGATG 3 cut(s) 68, 207, 801
BseLI CCNNNNNNNGG 2 cut(s) 153, 1423
BseMI GCAATG 4 cut(s) 72, 240, 583, 634
BseMII CTCAG 1 cut(s) 1107
BseRI GAGGAG 2 cut(s) 1118, 1334
BseX3I CGGCCG 1 cut(s) 328
BseYI CCCAGC 1 cut(s) 170
Bsh1236I CGCG 1 cut(s) 588
Bsh1285I CGRYCG 1 cut(s) 331
BshFI GGCC 4 cut(s) 158, 282, 324, 330
BshNI GGYRCC 1 cut(s) 1109
BsiEI CGRYCG 1 cut(s) 331
BsiHKCI CYCGRG 1 cut(s) 775
BslFI GGGAC 1 cut(s) 1148
BslI CCNNNNNNNGG 2 cut(s) 153, 1423
BsmAI GTCTC 1 cut(s) 1520
BsmFI GGGAC 1 cut(s) 1148
BsmI GAATGC 1 cut(s) 1126
BsnI GGCC 4 cut(s) 158, 282, 324, 330
BsoBI CYCGRG 1 cut(s) 775
Bsp119I TTCGAA 1 cut(s) 58
Bsp1286I GDGCHC 2 cut(s) 205, 337
Bsp143I GATC 4 cut(s) 354, 771, 814, 1138
BspACI CCGC 1 cut(s) 232
BspANI GGCC 4 cut(s) 158, 282, 324, 330
BspCNI CTCAG 1 cut(s) 1108
BspFNI CGCG 1 cut(s) 588
BspLI GGNNCC 2 cut(s) 972, 1111
BspT104I TTCGAA 1 cut(s) 58
BspT107I GGYRCC 1 cut(s) 1109
BsrDI GCAATG 4 cut(s) 72, 240, 583, 634
BssECI CCNNGG 2 cut(s) 132, 325
BssMI GATC 4 cut(s) 354, 771, 814, 1138
Bst2UI CCWGG 1 cut(s) 134
Bst4CI ACNGT 3 cut(s) 680, 1187, 1531
Bst6I CTCTTC 2 cut(s) 43, 471
BstBI TTCGAA 1 cut(s) 58
BstC8I GCNNGC 1 cut(s) 492
BstDEI CTNAG 2 cut(s) 555, 1116
BstF5I GGATG 3 cut(s) 68, 207, 801
BstFNI CGCG 1 cut(s) 588
BstH2I RGCGCY 1 cut(s) 497
BstHHI GCGC 2 cut(s) 496, 1336
BstKTI GATC 4 cut(s) 357, 774, 817, 1141
BstMAI GTCTC 1 cut(s) 1520
BstMBI GATC 4 cut(s) 354, 771, 814, 1138
BstMCI CGRYCG 1 cut(s) 331
BstMWI GCNNNNNNNGC 1 cut(s) 228
BstNI CCWGG 1 cut(s) 134
BstNSI RCATGY 1 cut(s) 1000
BstSCI CCNGG 1 cut(s) 132
BstUI CGCG 1 cut(s) 588
BstV2I GAAGAC 2 cut(s) 432, 734
BstZI CGGCCG 1 cut(s) 328
BsuRI GGCC 4 cut(s) 158, 282, 324, 330
BtsCI GGATG 3 cut(s) 68, 207, 801
BtsIMutI CAGTG 1 cut(s) 1113
Cac8I GCNNGC 1 cut(s) 492
CfoI GCGC 2 cut(s) 496, 1336
Cfr13I GGNCC 3 cut(s) 136, 156, 971
CviAII CATG 4 cut(s) 997, 1167, 1494, 1559
DdeI CTNAG 2 cut(s) 555, 1116
DpnI GATC 4 cut(s) 356, 773, 816, 1140
DpnII GATC 4 cut(s) 354, 771, 814, 1138
DraI TTTAAA 1 cut(s) 1443
EaeI YGGCCR 1 cut(s) 328
EagI CGGCCG 1 cut(s) 328
Eam1104I CTCTTC 2 cut(s) 43, 471
EarI CTCTTC 2 cut(s) 43, 471
EclXI CGGCCG 1 cut(s) 328
Eco24I GRGCYC 2 cut(s) 205, 337
Eco32I GATATC 1 cut(s) 459
Eco47I GGWCC 2 cut(s) 136, 971
Eco47III AGCGCT 1 cut(s) 495
Eco52I CGGCCG 1 cut(s) 328
Eco57I CTGAAG 1 cut(s) 927
Eco88I CYCGRG 1 cut(s) 775
EcoO109I RGGNCCY 2 cut(s) 136, 971
EcoRII CCWGG 1 cut(s) 132
EcoRV GATATC 1 cut(s) 459
EcoT38I GRGCYC 2 cut(s) 205, 337
FaeI CATG 4 cut(s) 1000, 1170, 1497, 1562
FalI AAGNNNNNCTT 4 cut(s) 684, 716, 726, 758
FaqI GGGAC 1 cut(s) 1148
FatI CATG 4 cut(s) 996, 1166, 1493, 1558
FauNDI CATATG 1 cut(s) 865
FbaI TGATCA 2 cut(s) 354, 1138
Fnu4HI GCNGC 1 cut(s) 232
FokI GGATG 3 cut(s) 55, 194, 808
FriOI GRGCYC 2 cut(s) 205, 337
Fsp4HI GCNGC 1 cut(s) 232
GlaI GCGC 2 cut(s) 495, 1335
GluI GCNGC 1 cut(s) 232
GsaI CCCAGC 1 cut(s) 174
HaeII RGCGCY 1 cut(s) 497
HaeIII GGCC 4 cut(s) 158, 282, 324, 330
HhaI GCGC 2 cut(s) 496, 1336
Hin1II CATG 4 cut(s) 1000, 1170, 1497, 1562
Hin6I GCGC 2 cut(s) 494, 1334
HinP1I GCGC 2 cut(s) 494, 1334
HindIII AAGCTT 3 cut(s) 23, 406, 1437
HinfI GANTC 1 cut(s) 788
HphI GGTGA 3 cut(s) 37, 169, 355
Hpy166II GTNNAC 4 cut(s) 192, 1052, 1373, 1564
Hpy188I TCNGA 3 cut(s) 1143, 1296, 1434
Hpy188III TCNNGA 5 cut(s) 769, 812, 894, 1481, 1523
Hpy8I GTNNAC 4 cut(s) 192, 1052, 1373, 1564
Hpy99I CGWCG 2 cut(s) 263, 1022
HpyAV CCTTC 4 cut(s) 157, 712, 1123, 1414
HpyCH4III ACNGT 3 cut(s) 680, 1187, 1531
HpyCH4IV ACGT 3 cut(s) 872, 1012, 1576
HpyCH4V TGCA 5 cut(s) 490, 576, 711, 1124, 1456
HpyF10VI GCNNNNNNNGC 1 cut(s) 228
HpyF3I CTNAG 2 cut(s) 555, 1116
HpySE526I ACGT 3 cut(s) 872, 1012, 1576
Hsp92II CATG 4 cut(s) 1000, 1170, 1497, 1562
HspAI GCGC 2 cut(s) 494, 1334
Ksp22I TGATCA 2 cut(s) 354, 1138
Kzo9I GATC 4 cut(s) 354, 771, 814, 1138
LmnI GCTCC 3 cut(s) 227, 1077, 1347
LweI GCATC 1 cut(s) 852
MaeII ACGT 3 cut(s) 872, 1012, 1576
MaeIII GTNAC 5 cut(s) 307, 439, 544, 674, 1262
MalI GATC 4 cut(s) 356, 773, 816, 1140
MboI GATC 4 cut(s) 354, 771, 814, 1138
MboII GAAGA 9 cut(s) 30, 44, 47, 98, 437, 488, 734, 912, 920
MfeI CAATTG 1 cut(s) 847
MhlI GDGCHC 2 cut(s) 205, 337
MluCI AATT 6 cut(s) 481, 567, 847, 853, 921, 1571
MlyI GAGTC 1 cut(s) 797
MmeI TCCRAC 2 cut(s) 543, 780
MspR9I CCNGG 1 cut(s) 134
MunI CAATTG 1 cut(s) 847
Mva1269I GAATGC 1 cut(s) 1126
MvaI CCWGG 1 cut(s) 134
MvnI CGCG 1 cut(s) 588
MwoI GCNNNNNNNGC 1 cut(s) 228
NdeI CATATG 1 cut(s) 865
NdeII GATC 4 cut(s) 354, 771, 814, 1138
NlaIII CATG 4 cut(s) 1000, 1170, 1497, 1562
NlaIV GGNNCC 2 cut(s) 972, 1111
NmeAIII GCCGAG 2 cut(s) 306, 356
NmuCI GTSAC 3 cut(s) 307, 439, 544
NspI RCATGY 1 cut(s) 1000
NspV TTCGAA 1 cut(s) 58
PctI GAATGC 1 cut(s) 1126
PkrI GCNGC 1 cut(s) 233
PleI GAGTC 1 cut(s) 796
PpsI GAGTC 1 cut(s) 796
PpuMI RGGWCCY 2 cut(s) 136, 971
Psp1406I AACGTT 1 cut(s) 1012
Psp5II RGGWCCY 2 cut(s) 136, 971
Psp6I CCWGG 1 cut(s) 132
PspFI CCCAGC 1 cut(s) 170
PspGI CCWGG 1 cut(s) 132
PspN4I GGNNCC 2 cut(s) 972, 1111
PspPI GGNCC 3 cut(s) 136, 156, 971
PspPPI RGGWCCY 2 cut(s) 136, 971
SatI GCNGC 1 cut(s) 232
Sau3AI GATC 4 cut(s) 354, 771, 814, 1138
Sau96I GGNCC 3 cut(s) 136, 156, 971
SchI GAGTC 1 cut(s) 797
ScrFI CCNGG 1 cut(s) 134
SduI GDGCHC 2 cut(s) 205, 337
SfaNI GCATC 1 cut(s) 852
SfuI TTCGAA 1 cut(s) 58
SinI GGWCC 2 cut(s) 136, 971
SmlI CTYRAG 1 cut(s) 1028
SmoI CTYRAG 1 cut(s) 1028
Sse9I AATT 6 cut(s) 481, 567, 847, 853, 921, 1571
SsiI CCGC 1 cut(s) 232
SspI AATATT 1 cut(s) 451
StyD4I CCNGG 1 cut(s) 132
TaaI ACNGT 3 cut(s) 680, 1187, 1531
TaiI ACGT 3 cut(s) 875, 1015, 1579
TasI AATT 6 cut(s) 481, 567, 847, 853, 921, 1571
TauI GCSGC 1 cut(s) 234
TscAI CASTG 1 cut(s) 1120
TseFI GTSAC 3 cut(s) 307, 439, 544
Tsp45I GTSAC 3 cut(s) 307, 439, 544
TspDTI ATGAA 6 cut(s) 428, 845, 950, 1256, 1266, 1547
TspRI CASTG 1 cut(s) 1120
VpaK11BI GGWCC 2 cut(s) 136, 971
XapI RAATTY 4 cut(s) 481, 567, 853, 921
XceI RCATGY 1 cut(s) 1000
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.