Rh6DG513600

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0009978
Physical Location & Seq
Forward (+)
66601320 .. 66606494
5175 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG513600.1

Sequence Viewer

Length: 1377 bp
ATGGACATCATAAGGGGTTTATGCGTTGATGGTAAGTTGGGGTCTGCCTTTTGGCTTCGGAGAAAGATGATGAAGAAAGGGATTATTCCAGATGTATCGACACATAATTATCTATTGAATGGACTGTGTAAAGCTGGCGACTTGGAGAAGGCAAATTTGCTTATCAGGGAGATGCTAGAAATGGGTCCCGCTCCCAACTGTGTCACATACAACACTTTTATTAAGGGTTATTGCCTTCTTGATAAAGTGGATAAAGCTCTTTATCTTTTCTCCACAATGGGTAACAGTGGTATTAGGCCGAATGGTATTACTTGTAATATTCTTGTACATGCATTGTGCAAGAAAGGTCTTGTGGAGAATGCTAGGAAGCTTCTTGAAGAGATATTAGATGATGATGATGATGAGAAAACAGACTCAGGTATAATCACCTTAACTACACTTATGGATGGTTATCTTAAAAATGGAAATATGGTTCAGGCACTTAGTCTTTGGGTTGACATCCAAAGGAATACCCAAGTAGATGTCATTGCTTATAATGTTCTCATCCGTGGATTTTGTTTGAGTCAGCAAATGAACCTTGCTTATGGATACTTCTGTGAAATGACCAAAAGAGGTTTACATCCTGATGTTTTTACTTGTAATACACTTATAAGTGGTCTTTGCAAAGAAAGAAAGTTTGAGGAGGCTTGTTACATCCATGGTATTATGCCAAGAATGGGAATTACTCCAGATAAAGTTTCATACAAAATAATTATACAAGGCCTATGTATCCAGGGAGATGTTGTCAAAGCTCATGAATTTCTTCTTAGTATGTTAGAGAAGTCAATGGTGCCTGAGCCTTTGATATGGAATTGTATTATTGATTGTTATGGAAGATATGGGGATCTTAGTAATGCAGTTTCTGTTAAGGATCAGATGTTTGCTTTTGGTGTTCAACCAAACGTATATACTTACAATGCATTGATCCACGCACAAGTGAAAGGAGGAAATATCATTGATGCTCTTTCTCTTGAAAAGGAAATGCTTCTGTCTGGTCTTTTTCCTGATGTGGTCACTTATAATATGTTGATAGGGGGAGCTTGTAACTCAGGGCATTTGGAATTTGCCACGGAGCTATATCATAAAATGCTGAAAATAGGACTTGATCCAGATATATATACTTACACTGAACTAATCAGAGGGAACTGCAAGAGAGGTAATATCAAGGAGGCAGAAAATGTTCTTGCGAAGATACAGGCATCTGGTTTGCCTATTGATGATGTTCCATTTCAGATACTTTTCAAGAAGTACTGCAAAATGAGGGAGCCTGATAAAGCATCTGGCATTTACGAGAAGTGGCTCGTGAGGAGGAATGAGTTGCCCTCTTTAAGAACTTAG

Protein Analysis

458

Amino Acids

51.5

Weight (kDa)

7.03

Isoelectric Point (pI)

22.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 3 - 44 2.6e-09 PPR repeat family
PPR_3 PF13812 20 - 77 3.8e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 26 - 58 4.6e-09 PPR repeat
PPR_2 PF13041 30 - 78 5.5e-14 PPR repeat family
PPR PF01535 34 - 62 9.4e-06 PPR repeat
PPR_1 PF12854 62 - 93 1.1e-09 PPR repeat
PPR_2 PF13041 65 - 114 1.1e-14 PPR repeat family
PPR PF01535 68 - 98 5.6e-06 PPR repeat
PPR_1 PF12854 97 - 127 2.6e-07 PPR repeat
PPR_2 PF13041 174 - 222 6.9e-16 PPR repeat family
PPR_3 PF13812 200 - 253 6.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 204 - 230 9.8e-08 PPR repeat
PPR_2 PF13041 208 - 256 3.1e-15 PPR repeat family
PPR PF01535 211 - 241 1e-05 PPR repeat
PPR_1 PF12854 239 - 271 1.7e-06 PPR repeat
PPR_2 PF13041 282 - 324 8.6e-11 PPR repeat family
PPR_long PF17177 291 - 433 1.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 301 - 358 8.4e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 313 - 362 1e-12 PPR repeat family
PPR_1 PF12854 345 - 376 2.4e-09 PPR repeat
PPR_2 PF13041 348 - 397 8.2e-16 PPR repeat family
PPR_1 PF12854 380 - 408 4.9e-07 PPR repeat
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)
AanI TTATAA 3 cut(s) 534, 650, 1059
AccB1I GGYRCC 1 cut(s) 829
AccBSI CCGCTC 1 cut(s) 191
AciI CCGC 1 cut(s) 189
AclWI GGATC 4 cut(s) 891, 918, 958, 1139
AcsI RAATTY 3 cut(s) 154, 797, 1100
AfaI GTAC 2 cut(s) 327, 1289
AfiI CCNNNNNNNGG 1 cut(s) 716
AgsI TTSAA 5 cut(s) 118, 377, 935, 1013, 1282
AjnI CCWGG 1 cut(s) 771
AloI GAACNNNNNNTCC 2 cut(s) 456, 488
AluBI AGCT 6 cut(s) 134, 257, 370, 791, 1079, 1114
AluI AGCT 6 cut(s) 134, 257, 370, 791, 1079, 1114
AlwI GGATC 4 cut(s) 891, 918, 958, 1139
AlwNI CAGNNNCTG 1 cut(s) 902
AoxI GGCC 2 cut(s) 296, 760
ApoI RAATTY 3 cut(s) 154, 797, 1100
Asp700I GAANNNNTTC 3 cut(s) 801, 1023, 1218
AspS9I GGNCC 1 cut(s) 185
AsuHPI GGTGA 1 cut(s) 418
AvaII GGWCC 1 cut(s) 185
BaeI ACNNNNGTAYC 2 cut(s) 580, 613
BanI GGYRCC 1 cut(s) 829
BauI CACGAG 1 cut(s) 1340
BccI CCATC 2 cut(s) 23, 440
BciT130I CCWGG 1 cut(s) 773
BciVI GTATCC 2 cut(s) 581, 779
BfaI CTAG 2 cut(s) 176, 363
BfuI GTATCC 2 cut(s) 581, 779
BmcAI AGTACT 1 cut(s) 1289
Bme1390I CCNGG 1 cut(s) 773
Bme18I GGWCC 1 cut(s) 185
BmgT120I GGNCC 1 cut(s) 185
BmiI GGNNCC 4 cut(s) 186, 187, 831, 1305
BmrFI CCNGG 1 cut(s) 773
BmsI GCATC 4 cut(s) 162, 988, 1247, 1325
BplI GAGNNNNNCTC 1 cut(s) 1346
BpmI CTGGAG 1 cut(s) 711
Bpu10I CCTNAGC 1 cut(s) 834
BsaBI GATNNNNATC 1 cut(s) 450
BsaJI CCNNGG 4 cut(s) 547, 697, 772, 1107
BsaXI ACNNNNNCTCC 2 cut(s) 768, 798
Bsc4I CCNNNNNNNGG 1 cut(s) 716
Bse3DI GCAATG 1 cut(s) 525
Bse8I GATNNNNATC 1 cut(s) 450
BseBI CCWGG 1 cut(s) 773
BseDI CCNNGG 4 cut(s) 547, 697, 772, 1107
BseGI GGATG 5 cut(s) 451, 498, 543, 619, 693
BseJI GATNNNNATC 1 cut(s) 450
BseLI CCNNNNNNNGG 1 cut(s) 716
BseMI GCAATG 1 cut(s) 525
BseMII CTCAG 3 cut(s) 429, 825, 1101
BseRI GAGGAG 2 cut(s) 695, 1360
BshFI GGCC 2 cut(s) 298, 762
BshNI GGYRCC 1 cut(s) 829
BslFI GGGAC 1 cut(s) 171
BslI CCNNNNNNNGG 1 cut(s) 716
BsmFI GGGAC 1 cut(s) 171
BsmI GAATGC 1 cut(s) 364
BsnI GGCC 2 cut(s) 298, 762
Bsp1407I TGTACA 1 cut(s) 325
Bsp143I GATC 4 cut(s) 883, 910, 963, 1144
Bsp19I CCATGG 1 cut(s) 697
BspACI CCGC 1 cut(s) 189
BspANI GGCC 2 cut(s) 298, 762
BspCNI CTCAG 3 cut(s) 428, 826, 1100
BspHI TCATGA 1 cut(s) 793
BspLI GGNNCC 4 cut(s) 186, 187, 831, 1305
BspPI GGATC 4 cut(s) 891, 918, 958, 1139
BspT107I GGYRCC 1 cut(s) 829
BsrBI CCGCTC 1 cut(s) 191
BsrDI GCAATG 1 cut(s) 525
BsrGI TGTACA 1 cut(s) 325
BssECI CCNNGG 4 cut(s) 547, 697, 772, 1107
BssMI GATC 4 cut(s) 883, 910, 963, 1144
BssSI CACGAG 1 cut(s) 1340
BssT1I CCWWGG 1 cut(s) 697
Bst2BI CACGAG 1 cut(s) 1340
Bst2UI CCWGG 1 cut(s) 773
Bst4CI ACNGT 3 cut(s) 126, 200, 287
Bst6I CTCTTC 1 cut(s) 372
BstAUI TGTACA 1 cut(s) 325
BstC8I GCNNGC 1 cut(s) 136
BstDEI CTNAG 7 cut(s) 415, 482, 806, 834, 887, 1087, 1374
BstDSI CCRYGG 3 cut(s) 547, 697, 1107
BstF5I GGATG 5 cut(s) 451, 498, 543, 619, 693
BstKTI GATC 4 cut(s) 886, 913, 966, 1147
BstMBI GATC 4 cut(s) 883, 910, 963, 1144
BstNI CCWGG 1 cut(s) 773
BstNSI RCATGY 1 cut(s) 332
BstSCI CCNGG 1 cut(s) 771
BstX2I RGATCY 1 cut(s) 883
BstYI RGATCY 1 cut(s) 883
BsuI GTATCC 2 cut(s) 581, 779
BsuRI GGCC 2 cut(s) 298, 762
BtgI CCRYGG 3 cut(s) 547, 697, 1107
BtsCI GGATG 5 cut(s) 451, 498, 543, 619, 693
BtsIMutI CAGTG 2 cut(s) 292, 1164
Cac8I GCNNGC 1 cut(s) 136
CaiI CAGNNNCTG 1 cut(s) 902
CciI TCATGA 1 cut(s) 793
Cfr13I GGNCC 1 cut(s) 185
Csp6I GTAC 2 cut(s) 326, 1288
CviAII CATG 3 cut(s) 329, 698, 794
CviQI GTAC 2 cut(s) 326, 1288
DdeI CTNAG 7 cut(s) 415, 482, 806, 834, 887, 1087, 1374
DpnI GATC 4 cut(s) 885, 912, 965, 1146
DpnII GATC 4 cut(s) 883, 910, 963, 1144
Eam1104I CTCTTC 1 cut(s) 372
EarI CTCTTC 1 cut(s) 372
Eco130I CCWWGG 1 cut(s) 697
Eco147I AGGCCT 1 cut(s) 762
Eco47I GGWCC 1 cut(s) 185
EcoO109I RGGNCCY 1 cut(s) 185
EcoRII CCWGG 1 cut(s) 771
EcoT14I CCWWGG 1 cut(s) 697
EcoT22I ATGCAT 2 cut(s) 334, 961
ErhI CCWWGG 1 cut(s) 697
FaeI CATG 3 cut(s) 332, 701, 797
FaqI GGGAC 1 cut(s) 171
FatI CATG 3 cut(s) 328, 697, 793
FauI CCCGC 1 cut(s) 196
FokI GGATG 5 cut(s) 458, 485, 530, 606, 680
FspBI CTAG 2 cut(s) 176, 363
GsuI CTGGAG 1 cut(s) 711
HaeIII GGCC 2 cut(s) 298, 762
Hin1II CATG 3 cut(s) 332, 701, 797
HincII GTYRAC 1 cut(s) 496
HindII GTYRAC 1 cut(s) 496
HindIII AAGCTT 1 cut(s) 368
HinfI GANTC 2 cut(s) 413, 562
HphI GGTGA 1 cut(s) 418
Hpy166II GTNNAC 2 cut(s) 496, 617
Hpy188I TCNGA 4 cut(s) 60, 915, 1178, 1272
Hpy8I GTNNAC 2 cut(s) 496, 617
HpyAV CCTTC 2 cut(s) 142, 245
HpyCH4III ACNGT 3 cut(s) 126, 200, 287
HpyCH4IV ACGT 1 cut(s) 942
HpyCH4V TGCA 7 cut(s) 332, 339, 663, 896, 959, 1188, 1293
HpyF3I CTNAG 7 cut(s) 415, 482, 806, 834, 887, 1087, 1374
HpySE526I ACGT 1 cut(s) 942
Hsp92II CATG 3 cut(s) 332, 701, 797
KflI GGGWCCC 1 cut(s) 185
Kzo9I GATC 4 cut(s) 883, 910, 963, 1144
LmnI GCTCC 4 cut(s) 196, 1076, 1111, 1303
LweI GCATC 4 cut(s) 162, 988, 1247, 1325
MaeI CTAG 2 cut(s) 176, 363
MaeII ACGT 1 cut(s) 942
MaeIII GTNAC 5 cut(s) 202, 281, 689, 1051, 1082
MalI GATC 4 cut(s) 885, 912, 965, 1146
MbiI CCGCTC 1 cut(s) 191
MboI GATC 4 cut(s) 883, 910, 963, 1144
MboII GAAGA 5 cut(s) 85, 389, 794, 885, 1240
MflI RGATCY 1 cut(s) 883
MluCI AATT 7 cut(s) 106, 154, 720, 750, 797, 850, 1100
MlyI GAGTC 2 cut(s) 407, 571
Mph1103I ATGCAT 2 cut(s) 334, 961
MroXI GAANNNNTTC 3 cut(s) 801, 1023, 1218
MseI TTAA 5 cut(s) 222, 431, 456, 906, 1367
MslI CAYNNNNRTG 1 cut(s) 624
MspR9I CCNGG 1 cut(s) 773
Mva1269I GAATGC 1 cut(s) 364
MvaI CCWGG 1 cut(s) 773
NcoI CCATGG 1 cut(s) 697
NdeII GATC 4 cut(s) 883, 910, 963, 1144
NlaIII CATG 3 cut(s) 332, 701, 797
NlaIV GGNNCC 4 cut(s) 186, 187, 831, 1305
NmuCI GTSAC 2 cut(s) 202, 1051
NsiI ATGCAT 2 cut(s) 334, 961
NspI RCATGY 1 cut(s) 332
PagI TCATGA 1 cut(s) 793
PceI AGGCCT 1 cut(s) 762
PctI GAATGC 1 cut(s) 364
PdmI GAANNNNTTC 3 cut(s) 801, 1023, 1218
PleI GAGTC 2 cut(s) 407, 570
PpsI GAGTC 2 cut(s) 407, 570
PpuMI RGGWCCY 1 cut(s) 185
PsiI TTATAA 3 cut(s) 534, 650, 1059
Psp5II RGGWCCY 1 cut(s) 185
Psp6I CCWGG 1 cut(s) 771
PspGI CCWGG 1 cut(s) 771
PspN4I GGNNCC 4 cut(s) 186, 187, 831, 1305
PspPI GGNCC 1 cut(s) 185
PspPPI RGGWCCY 1 cut(s) 185
PstNI CAGNNNCTG 1 cut(s) 902
PsuI RGATCY 1 cut(s) 883
RsaI GTAC 2 cut(s) 327, 1289
RsaNI GTAC 2 cut(s) 326, 1288
RseI CAYNNNNRTG 1 cut(s) 624
SaqAI TTAA 5 cut(s) 222, 431, 456, 906, 1367
Sau3AI GATC 4 cut(s) 883, 910, 963, 1144
Sau96I GGNCC 1 cut(s) 185
ScaI AGTACT 1 cut(s) 1289
SchI GAGTC 2 cut(s) 407, 571
ScrFI CCNGG 1 cut(s) 773
SfaNI GCATC 4 cut(s) 162, 988, 1247, 1325
SinI GGWCC 1 cut(s) 185
SmiMI CAYNNNNRTG 1 cut(s) 624
Sse9I AATT 7 cut(s) 106, 154, 720, 750, 797, 850, 1100
SseBI AGGCCT 1 cut(s) 762
SsiI CCGC 1 cut(s) 189
SspI AATATT 1 cut(s) 319
SspMI CTAG 2 cut(s) 176, 363
StuI AGGCCT 1 cut(s) 762
StyD4I CCNGG 1 cut(s) 771
StyI CCWWGG 1 cut(s) 697
TaaI ACNGT 3 cut(s) 126, 200, 287
TaiI ACGT 1 cut(s) 945
TaqI TCGA 1 cut(s) 98
TasI AATT 7 cut(s) 106, 154, 720, 750, 797, 850, 1100
TatI WGTACW 2 cut(s) 325, 1287
Tru1I TTAA 5 cut(s) 222, 431, 456, 906, 1367
Tru9I TTAA 5 cut(s) 222, 431, 456, 906, 1367
TscAI CASTG 2 cut(s) 292, 1171
TseFI GTSAC 2 cut(s) 202, 1051
Tsp45I GTSAC 2 cut(s) 202, 1051
TspDTI ATGAA 4 cut(s) 86, 587, 729, 810
TspGWI ACGGA 2 cut(s) 536, 1124
TspRI CASTG 2 cut(s) 292, 1171
VpaK11BI GGWCC 1 cut(s) 185
XapI RAATTY 3 cut(s) 154, 797, 1100
XceI RCATGY 1 cut(s) 332
XmnI GAANNNNTTC 3 cut(s) 801, 1023, 1218
XspI CTAG 2 cut(s) 176, 363
ZrmI AGTACT 1 cut(s) 1289
Zsp2I ATGCAT 2 cut(s) 334, 961
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.