RchiOBHm_Chr3g0473371

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0001542
Physical Location & Seq
Reverse (-)
19218040 .. 19224624
6585 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ43905

Sequence Viewer

Length: 636 bp
ATGGTCACTAGGTTTTCTCAAAACTTGAGGTTCTCGGAGAGCTTCAAGGCCTTTTCCCAGATGAGAAGCGCTGGGGAGAACCCCACCCAGTTTGCATTTGCAAGTGTCATCAGAGATTGTGTGGTTCTTGGGTCGGTTGAGATTGGGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGTTTGGCTTGTGAGATGTTTGTGGGTAGCAACTTAGCGGATATGTATTCGAAATGTGGGTTCATGGTTGATGCTTGTAAGGTTTTTGAGGAAATGTCGAGTAAGGATGCTGTGTCGTGGACTTTGATGATTGATGGGTATGGAAAGAGTGGGGATTTTGAGGCAGCTTTACTGAGTTATCAGAGGATGATCATTCACAATATCAATGATGGGACTGGTGTAGATAAATATGTTGTTTCTAGTGCATTGAGTGCTTGTTCTGCACTGAAGGCTTGTCAGTTTGGAAAGTGTGTTCATTCGACAGTTGTGAAGTTGGGATTGCAAGTAGAGGTTGCTGTGGGAAATGCTCTGGTTGATATGTACTCGAAATCAGGTGATATGGAGAGTGCTTTAAACGTGTTTCGGGTTGACCCTGAGTGCAGAAATATTGTGTCGTATTCCTCTCTGATCAATTGTTAA
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
DYW_deaminase PPR PPR_2

Protein Analysis

211

Amino Acids

22.96

Weight (kDa)

5.92

Isoelectric Point (pI)

31.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 97 - 125 8e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 215
AcuI CTGAAG 1 cut(s) 464
AfaI GTAC 1 cut(s) 539
AfeI AGCGCT 1 cut(s) 70
AflIII ACRYGT 1 cut(s) 573
AgsI TTSAA 2 cut(s) 46, 172
AjuI GAANNNNNNNTTGG 2 cut(s) 164, 196
AloI GAACNNNNNNTCC 2 cut(s) 453, 485
AluBI AGCT 3 cut(s) 42, 154, 344
AluI AGCT 3 cut(s) 42, 154, 344
Aor51HI AGCGCT 1 cut(s) 70
AoxI GGCC 1 cut(s) 48
ApeKI GCWGC 3 cut(s) 151, 154, 341
AspLEI GCGC 1 cut(s) 71
AsuHPI GGTGA 1 cut(s) 563
AsuII TTCGAA 1 cut(s) 227
BbvI GCAGC 3 cut(s) 141, 163, 353
BccI CCATC 2 cut(s) 305, 380
BclI TGATCA 2 cut(s) 366, 624
BfaI CTAG 2 cut(s) 9, 417
BfoI RGCGCY 1 cut(s) 72
BisI GCNGC 3 cut(s) 152, 155, 342
BlsI GCNGC 3 cut(s) 153, 156, 343
BmrI ACTGGG 1 cut(s) 82
BmsI GCATC 2 cut(s) 238, 274
BmuI ACTGGG 1 cut(s) 82
Bpu14I TTCGAA 1 cut(s) 227
BpuEI CTTGAG 1 cut(s) 46
Bse1I ACTGG 2 cut(s) 88, 397
BseGI GGATG 2 cut(s) 289, 369
BseMII CTCAG 2 cut(s) 341, 582
BseNI ACTGG 2 cut(s) 88, 397
BseXI GCAGC 3 cut(s) 141, 163, 353
BseYI CCCAGC 1 cut(s) 71
BsgI GTGCAG 2 cut(s) 423, 616
BshFI GGCC 1 cut(s) 50
BslFI GGGAC 1 cut(s) 403
BsmFI GGGAC 1 cut(s) 403
BsmI GAATGC 1 cut(s) 157
BsnI GGCC 1 cut(s) 50
Bsp119I TTCGAA 1 cut(s) 227
Bsp143I GATC 2 cut(s) 366, 624
BspACI CCGC 1 cut(s) 215
BspANI GGCC 1 cut(s) 50
BspCNI CTCAG 2 cut(s) 342, 583
BspT104I TTCGAA 1 cut(s) 227
BsrI ACTGG 2 cut(s) 88, 397
BssMI GATC 2 cut(s) 366, 624
Bst4CI ACNGT 1 cut(s) 481
BstAPI GCANNNNNTGC 1 cut(s) 428
BstBI TTCGAA 1 cut(s) 227
BstDEI CTNAG 3 cut(s) 211, 350, 591
BstF5I GGATG 2 cut(s) 289, 369
BstH2I RGCGCY 1 cut(s) 72
BstHHI GCGC 1 cut(s) 71
BstKTI GATC 2 cut(s) 369, 627
BstMBI GATC 2 cut(s) 366, 624
BstMWI GCNNNNNNNGC 3 cut(s) 428, 437, 446
BstV1I GCAGC 3 cut(s) 141, 163, 353
BsuRI GGCC 1 cut(s) 50
BtsCI GGATG 2 cut(s) 289, 369
BtsIMutI CAGTG 1 cut(s) 440
CfoI GCGC 1 cut(s) 71
Csp6I GTAC 1 cut(s) 538
CspCI CAANNNNNGTGG 2 cut(s) 73, 108
CviAII CATG 1 cut(s) 241
CviJI RGCY 6 cut(s) 42, 50, 154, 185, 344, 449
CviKI_1 RGCY 6 cut(s) 42, 50, 154, 185, 344, 449
CviQI GTAC 1 cut(s) 538
DdeI CTNAG 3 cut(s) 211, 350, 591
DpnI GATC 2 cut(s) 368, 626
DpnII GATC 2 cut(s) 366, 624
DraI TTTAAA 1 cut(s) 570
Eco147I AGGCCT 1 cut(s) 50
Eco47III AGCGCT 1 cut(s) 70
Eco57I CTGAAG 1 cut(s) 464
FaeI CATG 1 cut(s) 244
FaiI YATR 6 cut(s) 221, 242, 318, 408, 536, 557
FaqI GGGAC 1 cut(s) 403
FatI CATG 1 cut(s) 240
FbaI TGATCA 2 cut(s) 366, 624
Fnu4HI GCNGC 3 cut(s) 152, 155, 342
FokI GGATG 2 cut(s) 296, 376
Fsp4HI GCNGC 3 cut(s) 152, 155, 342
FspBI CTAG 2 cut(s) 9, 417
GlaI GCGC 1 cut(s) 70
GluI GCNGC 3 cut(s) 152, 155, 342
GsaI CCCAGC 1 cut(s) 75
HaeII RGCGCY 1 cut(s) 72
HaeIII GGCC 1 cut(s) 50
HhaI GCGC 1 cut(s) 71
Hin1II CATG 1 cut(s) 244
Hin6I GCGC 1 cut(s) 69
HinP1I GCGC 1 cut(s) 69
HincII GTYRAC 1 cut(s) 586
HindII GTYRAC 1 cut(s) 586
HphI GGTGA 1 cut(s) 563
Hpy166II GTNNAC 2 cut(s) 297, 586
Hpy188I TCNGA 4 cut(s) 37, 113, 360, 624
Hpy8I GTNNAC 2 cut(s) 297, 586
HpyAV CCTTC 1 cut(s) 439
HpyCH4III ACNGT 1 cut(s) 481
HpyCH4IV ACGT 1 cut(s) 573
HpyCH4V TGCA 7 cut(s) 95, 101, 157, 422, 440, 499, 597
HpyF10VI GCNNNNNNNGC 3 cut(s) 428, 437, 446
HpyF3I CTNAG 3 cut(s) 211, 350, 591
HpySE526I ACGT 1 cut(s) 573
Hsp92II CATG 1 cut(s) 244
HspAI GCGC 1 cut(s) 69
Ksp22I TGATCA 2 cut(s) 366, 624
Kzo9I GATC 2 cut(s) 366, 624
LpnPI CCDG 7 cut(s) 57, 71, 101, 378, 512, 534, 603
Lsp1109I GCAGC 3 cut(s) 141, 163, 353
LweI GCATC 2 cut(s) 238, 274
MaeI CTAG 2 cut(s) 9, 417
MaeII ACGT 1 cut(s) 573
MaeIII GTNAC 1 cut(s) 4
MalI GATC 2 cut(s) 368, 626
MboI GATC 2 cut(s) 366, 624
MfeI CAATTG 1 cut(s) 628
MluCI AATT 2 cut(s) 173, 628
MnlI CCTC 7 cut(s) 21, 141, 259, 331, 354, 499, 628
MseI TTAA 2 cut(s) 569, 634
MspA1I CMGCKG 1 cut(s) 154
MunI CAATTG 1 cut(s) 628
Mva1269I GAATGC 1 cut(s) 157
MwoI GCNNNNNNNGC 3 cut(s) 428, 437, 446
NdeII GATC 2 cut(s) 366, 624
NlaIII CATG 1 cut(s) 244
NmuCI GTSAC 1 cut(s) 4
NspV TTCGAA 1 cut(s) 227
PceI AGGCCT 1 cut(s) 50
PctI GAATGC 1 cut(s) 157
PkrI GCNGC 3 cut(s) 153, 156, 343
PspFI CCCAGC 1 cut(s) 71
PvuII CAGCTG 1 cut(s) 154
RsaI GTAC 1 cut(s) 539
RsaNI GTAC 1 cut(s) 538
SaqAI TTAA 2 cut(s) 569, 634
SatI GCNGC 3 cut(s) 152, 155, 342
Sau3AI GATC 2 cut(s) 366, 624
SetI ASST 9 cut(s) 14, 32, 44, 156, 261, 346, 510, 553, 576
SfaNI GCATC 2 cut(s) 238, 274
SfuI TTCGAA 1 cut(s) 227
SmlI CTYRAG 1 cut(s) 25
SmoI CTYRAG 1 cut(s) 25
Sse9I AATT 2 cut(s) 173, 628
SseBI AGGCCT 1 cut(s) 50
SsiI CCGC 1 cut(s) 215
SspI AATATT 1 cut(s) 604
SspMI CTAG 2 cut(s) 9, 417
StuI AGGCCT 1 cut(s) 50
TaaI ACNGT 1 cut(s) 481
TaiI ACGT 1 cut(s) 576
TaqI TCGA 4 cut(s) 227, 275, 476, 542
TasI AATT 2 cut(s) 173, 628
TatI WGTACW 1 cut(s) 537
Tru1I TTAA 2 cut(s) 569, 634
Tru9I TTAA 2 cut(s) 569, 634
TscAI CASTG 1 cut(s) 447
TseFI GTSAC 1 cut(s) 4
TseI GCWGC 3 cut(s) 151, 154, 341
Tsp45I GTSAC 1 cut(s) 4
TspDTI ATGAA 2 cut(s) 229, 461
TspRI CASTG 1 cut(s) 447
XspI CTAG 2 cut(s) 9, 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.