Rh5DG041500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0003805
Physical Location & Seq
Reverse (-)
3083812 .. 3084510
699 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG041500.1

Sequence Viewer

Length: 699 bp
ATGGTTGAGAAGATTTTCGGGGAGGTACCGGAGAAGTTGTCGATTGAGCCGGATTTGGTGTCGTACAATACTGTGATCAAGGCATTTTGCAAGATGGGTTCGTTTGACTCTGCGGTTTCGGTGATTGATGTGATGGAGAAGAAGGGTGTGAAGCCGGATGTAATCACGTTCAATACGATTTTGGATTGCTTGTATGGGAATAAGCGGTTTTTGGATGCTGAGAAGATATGGGGTCAAATGGTGGAGAAGAATGTCGTTCCTGATATTAGGAGCTACAATGCCAAATTGCTGGGGTTGGCTTTGGAGAAGAGGAGTGAAGAAGGGGCTCAGTTAGTTGAAGAGTTGAGGAATATTGGAGTGAAACCTGATGTGTTCACCTTCAATGCCTTGATTAAGGGCTTTGTGAATGAGGGGAACTTGGATGAAGCTAAGCGGTGGTATGGTGAAATAGAGAAGAGTAGTTGTGCTCCGGATAAATGGACTTTCGAGACGCTTGTTCCCTTTGTTTGTGAGAAGGGTGATGTTGAGTTTGCTTTTGAGCTGTGCAAGGACATTTTCCAAAGGCGCCGCCTTGTGAGTGCGGCACTGTTGCAGCCTGTGGTCAAGGCCTCTATGATTGAGGAGGCAAAGGAACTTGTCAAACTTGGGAACACTAATAACTACAGACGTTTTAATCTGAAGCTGACTTCAGACAAATAG

Protein Analysis

232

Amino Acids

26.33

Weight (kDa)

5.56

Isoelectric Point (pI)

46.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 12 - 63 2.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 15 - 46 9.7e-10 PPR repeat
TPR_24 PF23276 16 - 73 1.4e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 17 - 64 3.3e-16 PPR repeat family
PPR PF01535 20 - 50 7.3e-08 PPR repeat
PPR_2 PF13041 52 - 98 4.5e-10 PPR repeat family
PPR_2 PF13041 87 - 136 9.6e-08 PPR repeat family
PPR_3 PF13812 111 - 165 9.6e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 119 - 145 4.4e-08 PPR repeat
PPR_2 PF13041 122 - 166 1.1e-11 PPR repeat family
PPR PF01535 125 - 155 6.4e-06 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)
Acc65I GGTACC 1 cut(s) 25
AccB1I GGYRCC 2 cut(s) 25, 564
AccIII TCCGGA 1 cut(s) 469
AciI CCGC 5 cut(s) 113, 205, 433, 568, 581
AcuI CTGAAG 2 cut(s) 672, 698
AcyI GRCGYC 1 cut(s) 565
AfaI GTAC 2 cut(s) 27, 65
AgsI TTSAA 3 cut(s) 172, 338, 382
AluBI AGCT 4 cut(s) 273, 428, 541, 682
AluI AGCT 4 cut(s) 273, 428, 541, 682
Alw21I GWGCWC 1 cut(s) 469
Alw26I GTCTC 1 cut(s) 482
Aor13HI TCCGGA 1 cut(s) 469
AoxI GGCC 1 cut(s) 606
ApeKI GCWGC 1 cut(s) 592
Asp700I GAANNNNTTC 1 cut(s) 14
Asp718I GGTACC 1 cut(s) 25
AspLEI GCGC 1 cut(s) 567
AsuHPI GGTGA 4 cut(s) 133, 367, 455, 530
BanI GGYRCC 2 cut(s) 25, 564
BanII GRGCYC 1 cut(s) 328
Bbv12I GWGCWC 1 cut(s) 469
BbvI GCAGC 1 cut(s) 604
BccI CCATC 2 cut(s) 88, 127
BclI TGATCA 1 cut(s) 75
BcoDI GTCTC 1 cut(s) 482
BfmI CTRYAG 1 cut(s) 661
BfoI RGCGCY 1 cut(s) 568
BisI GCNGC 3 cut(s) 568, 582, 593
BlpI GCTNAGC 1 cut(s) 429
BlsI GCNGC 3 cut(s) 569, 583, 594
BmiI GGNNCC 2 cut(s) 27, 566
BmsI GCATC 1 cut(s) 205
Bpu1102I GCTNAGC 1 cut(s) 429
BsaHI GRCGYC 1 cut(s) 565
BsaWI WCCGGW 2 cut(s) 28, 469
BsaXI ACNNNNNCTCC 2 cut(s) 23, 53
BseAI TCCGGA 1 cut(s) 469
BseGI GGATG 3 cut(s) 163, 220, 427
BseMII CTCAG 2 cut(s) 210, 341
BseRI GAGGAG 2 cut(s) 325, 635
BseXI GCAGC 1 cut(s) 604
BseYI CCCAGC 1 cut(s) 289
BshFI GGCC 1 cut(s) 608
BshNI GGYRCC 2 cut(s) 25, 564
BsiHKAI GWGCWC 1 cut(s) 469
BsiSI CCGG 4 cut(s) 29, 50, 155, 470
BsmAI GTCTC 1 cut(s) 482
BsmBI CGTCTC 1 cut(s) 482
BsnI GGCC 1 cut(s) 608
Bsp1286I GDGCHC 2 cut(s) 328, 469
Bsp13I TCCGGA 1 cut(s) 469
Bsp143I GATC 1 cut(s) 75
Bsp1720I GCTNAGC 1 cut(s) 429
BspACI CCGC 5 cut(s) 113, 205, 433, 568, 581
BspANI GGCC 1 cut(s) 608
BspCNI CTCAG 2 cut(s) 211, 340
BspEI TCCGGA 1 cut(s) 469
BspLI GGNNCC 2 cut(s) 27, 566
BspT107I GGYRCC 2 cut(s) 25, 564
BssMI GATC 1 cut(s) 75
BssNI GRCGYC 1 cut(s) 565
Bst4CI ACNGT 2 cut(s) 73, 588
Bst6I CTCTTC 3 cut(s) 302, 333, 449
BstACI GRCGYC 1 cut(s) 565
BstDEI CTNAG 3 cut(s) 219, 327, 429
BstF5I GGATG 3 cut(s) 163, 220, 427
BstH2I RGCGCY 1 cut(s) 568
BstHHI GCGC 1 cut(s) 567
BstKTI GATC 1 cut(s) 78
BstMAI GTCTC 1 cut(s) 482
BstMBI GATC 1 cut(s) 75
BstSFI CTRYAG 1 cut(s) 661
BstV1I GCAGC 1 cut(s) 604
BstXI CCANNNNNNTGG 1 cut(s) 289
BsuRI GGCC 1 cut(s) 608
BtsCI GGATG 3 cut(s) 163, 220, 427
BtsIMutI CAGTG 1 cut(s) 584
CfoI GCGC 1 cut(s) 567
CseI GACGC 1 cut(s) 499
Csp6I GTAC 2 cut(s) 26, 64
CviQI GTAC 2 cut(s) 26, 64
DdeI CTNAG 3 cut(s) 219, 327, 429
DinI GGCGCC 1 cut(s) 566
DpnI GATC 1 cut(s) 77
DpnII GATC 1 cut(s) 75
Eam1104I CTCTTC 3 cut(s) 302, 333, 449
EarI CTCTTC 3 cut(s) 302, 333, 449
Eco147I AGGCCT 1 cut(s) 608
Eco24I GRGCYC 1 cut(s) 328
Eco57I CTGAAG 2 cut(s) 672, 698
EcoT38I GRGCYC 1 cut(s) 328
EgeI GGCGCC 1 cut(s) 566
EheI GGCGCC 1 cut(s) 566
Esp3I CGTCTC 1 cut(s) 482
FaiI YATR 4 cut(s) 195, 229, 441, 614
FbaI TGATCA 1 cut(s) 75
Fnu4HI GCNGC 3 cut(s) 568, 582, 593
FokI GGATG 3 cut(s) 170, 227, 434
FriOI GRGCYC 1 cut(s) 328
Fsp4HI GCNGC 3 cut(s) 568, 582, 593
GlaI GCGC 1 cut(s) 566
GluI GCNGC 3 cut(s) 568, 582, 593
GsaI CCCAGC 1 cut(s) 293
HaeII RGCGCY 1 cut(s) 568
HaeIII GGCC 1 cut(s) 608
HapII CCGG 4 cut(s) 29, 50, 155, 470
HgaI GACGC 1 cut(s) 499
HhaI GCGC 1 cut(s) 567
Hin1I GRCGYC 1 cut(s) 565
Hin6I GCGC 1 cut(s) 565
HinP1I GCGC 1 cut(s) 565
HinfI GANTC 1 cut(s) 107
HpaII CCGG 4 cut(s) 29, 50, 155, 470
HphI GGTGA 4 cut(s) 133, 367, 455, 530
Hpy166II GTNNAC 1 cut(s) 375
Hpy188I TCNGA 2 cut(s) 678, 691
Hpy188III TCNNGA 3 cut(s) 260, 470, 487
Hpy8I GTNNAC 1 cut(s) 375
HpyAV CCTTC 4 cut(s) 136, 314, 388, 508
HpyCH4III ACNGT 2 cut(s) 73, 588
HpyCH4IV ACGT 2 cut(s) 167, 667
HpyCH4V TGCA 3 cut(s) 90, 546, 592
HpyF3I CTNAG 3 cut(s) 219, 327, 429
HpySE526I ACGT 2 cut(s) 167, 667
Hsp92I GRCGYC 1 cut(s) 565
HspAI GCGC 1 cut(s) 565
KasI GGCGCC 1 cut(s) 564
Kpn2I TCCGGA 1 cut(s) 469
KpnI GGTACC 1 cut(s) 29
Ksp22I TGATCA 1 cut(s) 75
Kzo9I GATC 1 cut(s) 75
LmnI GCTCC 2 cut(s) 270, 472
LpnPI CCDG 8 cut(s) 42, 63, 168, 273, 275, 378, 483, 609
Lsp1109I GCAGC 1 cut(s) 604
LweI GCATC 1 cut(s) 205
MaeII ACGT 2 cut(s) 167, 667
MalI GATC 1 cut(s) 77
MboI GATC 1 cut(s) 75
MboII GAAGA 8 cut(s) 22, 151, 235, 259, 319, 329, 350, 466
MhlI GDGCHC 2 cut(s) 328, 469
MluCI AATT 1 cut(s) 284
Mly113I GGCGCC 1 cut(s) 565
MlyI GAGTC 1 cut(s) 101
MnlI CCTC 7 cut(s) 16, 303, 339, 403, 613, 616, 619
MroI TCCGGA 1 cut(s) 469
MroXI GAANNNNTTC 1 cut(s) 14
MseI TTAA 2 cut(s) 393, 672
MspI CCGG 4 cut(s) 29, 50, 155, 470
NarI GGCGCC 1 cut(s) 565
NdeII GATC 1 cut(s) 75
NlaIV GGNNCC 2 cut(s) 27, 566
PceI AGGCCT 1 cut(s) 608
PcsI WCGNNNNNNNCGW 1 cut(s) 173
PdmI GAANNNNTTC 1 cut(s) 14
PkrI GCNGC 3 cut(s) 569, 583, 594
PleI GAGTC 1 cut(s) 101
PluTI GGCGCC 1 cut(s) 568
PpsI GAGTC 1 cut(s) 101
PspFI CCCAGC 1 cut(s) 289
PspN4I GGNNCC 2 cut(s) 27, 566
RsaI GTAC 2 cut(s) 27, 65
RsaNI GTAC 2 cut(s) 26, 64
SaqAI TTAA 2 cut(s) 393, 672
SatI GCNGC 3 cut(s) 568, 582, 593
Sau3AI GATC 1 cut(s) 75
SchI GAGTC 1 cut(s) 101
SduI GDGCHC 2 cut(s) 328, 469
SetI ASST 9 cut(s) 27, 170, 275, 367, 380, 430, 543, 670, 684
SfaNI GCATC 1 cut(s) 205
SfcI CTRYAG 1 cut(s) 661
SfoI GGCGCC 1 cut(s) 566
Sse9I AATT 1 cut(s) 284
SseBI AGGCCT 1 cut(s) 608
SsiI CCGC 5 cut(s) 113, 205, 433, 568, 581
SspDI GGCGCC 1 cut(s) 564
SspI AATATT 1 cut(s) 352
StuI AGGCCT 1 cut(s) 608
TaaI ACNGT 2 cut(s) 73, 588
TaiI ACGT 2 cut(s) 170, 670
TaqI TCGA 2 cut(s) 41, 486
TasI AATT 1 cut(s) 284
TauI GCSGC 2 cut(s) 570, 584
Tru1I TTAA 2 cut(s) 393, 672
Tru9I TTAA 2 cut(s) 393, 672
TscAI CASTG 1 cut(s) 591
TseI GCWGC 1 cut(s) 592
TspDTI ATGAA 1 cut(s) 438
TspRI CASTG 1 cut(s) 591
XmnI GAANNNNTTC 1 cut(s) 14
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.