Rh4CG360000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0021287
Physical Location & Seq
Reverse (-)
61728567 .. 61730183
1617 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG360000.1

Sequence Viewer

Length: 831 bp
ATGGGTTATGCCCACCAGGTGTTCGATCAAATTCCTGAACCAAATTTTGCTCTATGGAATGCATTGTTGAGAGGGTATGCAAAGAATGAGAGTCATAGGGAGGTTGTAGCTTTGTTTGGAAGGATGAAGAGCATGGACATAATGCCAAATTGCTATACATTCCCCGTTGTGATTAAATGTTGTGGGAGATTGAGTAGGTTGGTAGAAGGTGAAGAGGTGCATTGTGTTGTGATAAAATGTGGGTTTAGAGCAAACCCCTTTGTGGGAACGACGCTGATCGAAATGTATGCGGCTGGGGGAGTAATTGGAGCTGCTTATAAGGTGTTTGGTGAGATGTTTGAGAGAAATGTGGTTGCTTGGACTTCCATGATTAATGGCTACATTTTGGGTGGTGATATGGTTTCTGCACAGTGCCTTTTTGACTTGGCGCCAGAACGAGATGTTGTGTTGTGGAACACTATGGTTTCTGGTTATATTGAGCAGGGGGATATGGTAACGGCTAGAAAACTTTTTGATAAGATGCCGAGAAGAGATGTTATTTGCTGGAATACGGTATTGAATGGCTATGCAAGTAATCAAGACATTGAGGCTTGTGAGGATTTGTTTGAGAAGATGCCTGAGAGGAACGTTTTCTCGTGGAATGGATTGATTGGCGGGTATGCACGCAATGGACGTTTCATTGAAGTTCTGGAATCTTTCAAGCGGATGCTTACTGAGGGTAATAGGCATCCTGAGACCGAGGAAATATATGAAGCCTTGAAGGGATTGACCAGTGCGCTAAGATCATCTGGATATGTACCAGACATTCTGGAGCTTGGGCATGGAGACTAG
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

276

Amino Acids

31.09

Weight (kDa)

5.27

Isoelectric Point (pI)

49.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 13 - 62 8.6e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 14 - 62 6.2e-10 PPR repeat family
PPR_2 PF13041 146 - 178 2.5e-07 PPR repeat family
PPR PF01535 149 - 178 3.2e-06 PPR repeat
PPR_2 PF13041 177 - 210 4.8e-07 PPR repeat family
PPR PF01535 181 - 210 3.4e-06 PPR repeat
PPR PF01535 211 - 240 1.1e-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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Orthologous Genes (Group: OG0021287)

Species Orthologous Gene IDs
pyrus_communis pycom15g35110
rosa_multiflora Rmu_co8271389.1_g000001
rosa_samantha Rh4AG337300 Rh4CG360000 Rh4DG339800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 318
AccB1I GGYRCC 1 cut(s) 427
AciI CCGC 3 cut(s) 290, 654, 703
AclI AACGTT 1 cut(s) 627
AcsI RAATTY 2 cut(s) 30, 43
AcyI GRCGYC 1 cut(s) 428
AdeI CACNNNGTG 1 cut(s) 19
AfaI GTAC 1 cut(s) 798
AfiI CCNNNNNNNGG 2 cut(s) 262, 263
AgsI TTSAA 4 cut(s) 559, 683, 700, 760
AjnI CCWGG 1 cut(s) 15
AluBI AGCT 3 cut(s) 110, 311, 814
AluI AGCT 3 cut(s) 110, 311, 814
Alw26I GTCTC 2 cut(s) 728, 819
ApeKI GCWGC 1 cut(s) 311
ApoI RAATTY 2 cut(s) 30, 43
AseI ATTAAT 1 cut(s) 372
Asp700I GAANNNNTTC 1 cut(s) 629
AspLEI GCGC 2 cut(s) 430, 778
AsuHPI GGTGA 3 cut(s) 221, 341, 404
BanI GGYRCC 1 cut(s) 427
BauI CACGAG 1 cut(s) 634
BbvI GCAGC 1 cut(s) 298
BceAI ACGGC 1 cut(s) 513
BcgI CGANNNNNNTGC 2 cut(s) 269, 303
BciT130I CCWGG 1 cut(s) 17
BcoDI GTCTC 2 cut(s) 728, 819
BfaI CTAG 2 cut(s) 501, 829
BfoI RGCGCY 1 cut(s) 431
BisI GCNGC 2 cut(s) 291, 312
BlsI GCNGC 2 cut(s) 292, 313
Bme1390I CCNGG 1 cut(s) 17
BmiI GGNNCC 1 cut(s) 429
BmrFI CCNGG 1 cut(s) 17
BmsI GCATC 4 cut(s) 510, 603, 696, 736
BpmI CTGGAG 1 cut(s) 830
BsaHI GRCGYC 1 cut(s) 428
BsaI GGTCTC 1 cut(s) 728
BsaJI CCNNGG 1 cut(s) 738
BsaXI ACNNNNNCTCC 2 cut(s) 178, 208
Bsc4I CCNNNNNNNGG 2 cut(s) 262, 263
Bse1I ACTGG 1 cut(s) 771
Bse3DI GCAATG 1 cut(s) 673
BseBI CCWGG 1 cut(s) 17
BseDI CCNNGG 1 cut(s) 738
BseGI GGATG 3 cut(s) 129, 711, 727
BseLI CCNNNNNNNGG 2 cut(s) 262, 263
BseMI GCAATG 1 cut(s) 673
BseMII CTCAG 3 cut(s) 609, 705, 723
BseNI ACTGG 1 cut(s) 771
BseXI GCAGC 1 cut(s) 298
BseYI CCCAGC 1 cut(s) 293
BsgI GTGCAG 1 cut(s) 390
BshNI GGYRCC 1 cut(s) 427
BslI CCNNNNNNNGG 2 cut(s) 262, 263
BsmAI GTCTC 2 cut(s) 728, 819
BsmI GAATGC 1 cut(s) 64
Bso31I GGTCTC 1 cut(s) 728
Bsp143I GATC 3 cut(s) 25, 276, 782
BspACI CCGC 3 cut(s) 290, 654, 703
BspCNI CTCAG 3 cut(s) 610, 706, 724
BspLI GGNNCC 1 cut(s) 429
BspQI GCTCTTC 1 cut(s) 122
BspT107I GGYRCC 1 cut(s) 427
BspTNI GGTCTC 1 cut(s) 728
BsrDI GCAATG 1 cut(s) 673
BsrI ACTGG 1 cut(s) 771
BssECI CCNNGG 1 cut(s) 738
BssMI GATC 3 cut(s) 25, 276, 782
BssNI GRCGYC 1 cut(s) 428
BssSI CACGAG 1 cut(s) 634
Bst2BI CACGAG 1 cut(s) 634
Bst2UI CCWGG 1 cut(s) 17
Bst4CI ACNGT 2 cut(s) 411, 553
Bst6I CTCTTC 3 cut(s) 122, 207, 523
BstACI GRCGYC 1 cut(s) 428
BstC8I GCNNGC 1 cut(s) 664
BstDEI CTNAG 4 cut(s) 618, 714, 732, 779
BstF5I GGATG 3 cut(s) 129, 711, 727
BstH2I RGCGCY 1 cut(s) 431
BstHHI GCGC 2 cut(s) 430, 778
BstKTI GATC 3 cut(s) 28, 279, 785
BstMAI GTCTC 2 cut(s) 728, 819
BstMBI GATC 3 cut(s) 25, 276, 782
BstNI CCWGG 1 cut(s) 17
BstSCI CCNGG 1 cut(s) 15
BstV1I GCAGC 1 cut(s) 298
BtsCI GGATG 3 cut(s) 129, 711, 727
BtsIMutI CAGTG 2 cut(s) 416, 778
Cac8I GCNNGC 1 cut(s) 664
CfoI GCGC 2 cut(s) 430, 778
CseI GACGC 1 cut(s) 280
CsiI ACCWGGT 1 cut(s) 15
Csp6I GTAC 1 cut(s) 797
CviAII CATG 3 cut(s) 133, 367, 821
CviJI RGCY 9 cut(s) 110, 293, 311, 378, 500, 564, 590, 755, 814
CviKI_1 RGCY 9 cut(s) 110, 293, 311, 378, 500, 564, 590, 755, 814
CviQI GTAC 1 cut(s) 797
DdeI CTNAG 4 cut(s) 618, 714, 732, 779
DinI GGCGCC 1 cut(s) 429
DpnI GATC 3 cut(s) 27, 278, 784
DpnII GATC 3 cut(s) 25, 276, 782
DraIII CACNNNGTG 1 cut(s) 19
Eam1104I CTCTTC 3 cut(s) 122, 207, 523
EarI CTCTTC 3 cut(s) 122, 207, 523
Eco31I GGTCTC 1 cut(s) 728
EcoRII CCWGG 1 cut(s) 15
EcoT22I ATGCAT 1 cut(s) 64
EgeI GGCGCC 1 cut(s) 429
EheI GGCGCC 1 cut(s) 429
FaeI CATG 3 cut(s) 136, 370, 824
FatI CATG 3 cut(s) 132, 366, 820
FauI CCCGC 1 cut(s) 647
Fnu4HI GCNGC 2 cut(s) 291, 312
FokI GGATG 3 cut(s) 136, 714, 718
Fsp4HI GCNGC 2 cut(s) 291, 312
FspBI CTAG 2 cut(s) 501, 829
GlaI GCGC 2 cut(s) 429, 777
GluI GCNGC 2 cut(s) 291, 312
GsaI CCCAGC 1 cut(s) 297
GsuI CTGGAG 1 cut(s) 830
HaeII RGCGCY 1 cut(s) 431
HgaI GACGC 1 cut(s) 280
HhaI GCGC 2 cut(s) 430, 778
Hin1I GRCGYC 1 cut(s) 428
Hin1II CATG 3 cut(s) 136, 370, 824
Hin6I GCGC 2 cut(s) 428, 776
HinP1I GCGC 2 cut(s) 428, 776
HinfI GANTC 2 cut(s) 91, 692
HphI GGTGA 3 cut(s) 221, 341, 404
Hpy188III TCNNGA 6 cut(s) 35, 578, 689, 731, 789, 809
Hpy99I CGWCG 1 cut(s) 274
HpyAV CCTTC 3 cut(s) 114, 200, 754
HpyCH4III ACNGT 2 cut(s) 411, 553
HpyCH4IV ACGT 2 cut(s) 627, 673
HpyCH4V TGCA 6 cut(s) 62, 80, 220, 407, 569, 662
HpyF3I CTNAG 4 cut(s) 618, 714, 732, 779
HpySE526I ACGT 2 cut(s) 627, 673
Hsp92I GRCGYC 1 cut(s) 428
Hsp92II CATG 3 cut(s) 136, 370, 824
HspAI GCGC 2 cut(s) 428, 776
KasI GGCGCC 1 cut(s) 427
Kzo9I GATC 3 cut(s) 25, 276, 782
LguI GCTCTTC 1 cut(s) 122
LmnI GCTCC 2 cut(s) 308, 811
Lsp1109I GCAGC 1 cut(s) 298
LweI GCATC 4 cut(s) 510, 603, 696, 736
MabI ACCWGGT 1 cut(s) 15
MaeI CTAG 2 cut(s) 501, 829
MaeII ACGT 2 cut(s) 627, 673
MaeIII GTNAC 1 cut(s) 493
MalI GATC 3 cut(s) 27, 278, 784
MboI GATC 3 cut(s) 25, 276, 782
MboII GAAGA 4 cut(s) 139, 224, 540, 622
MluCI AATT 4 cut(s) 30, 43, 148, 303
Mly113I GGCGCC 1 cut(s) 428
MlyI GAGTC 1 cut(s) 100
MnlI CCTC 8 cut(s) 65, 94, 208, 580, 589, 615, 709, 733
Mph1103I ATGCAT 1 cut(s) 64
MroXI GAANNNNTTC 1 cut(s) 629
MseI TTAA 2 cut(s) 174, 372
MspR9I CCNGG 1 cut(s) 17
Mva1269I GAATGC 1 cut(s) 64
MvaI CCWGG 1 cut(s) 17
NarI GGCGCC 1 cut(s) 428
NdeII GATC 3 cut(s) 25, 276, 782
NlaIII CATG 3 cut(s) 136, 370, 824
NlaIV GGNNCC 1 cut(s) 429
NmeAIII GCCGAG 1 cut(s) 549
NsiI ATGCAT 1 cut(s) 64
PciSI GCTCTTC 1 cut(s) 122
PcsI WCGNNNNNNNCGW 1 cut(s) 670
PctI GAATGC 1 cut(s) 64
PdmI GAANNNNTTC 1 cut(s) 629
PfeI GAWTC 1 cut(s) 692
PkrI GCNGC 2 cut(s) 292, 313
PleI GAGTC 1 cut(s) 99
PluTI GGCGCC 1 cut(s) 431
PpsI GAGTC 1 cut(s) 99
PshBI ATTAAT 1 cut(s) 372
PsiI TTATAA 1 cut(s) 318
Psp1406I AACGTT 1 cut(s) 627
Psp6I CCWGG 1 cut(s) 15
PspFI CCCAGC 1 cut(s) 293
PspGI CCWGG 1 cut(s) 15
PspN4I GGNNCC 1 cut(s) 429
RsaI GTAC 1 cut(s) 798
RsaNI GTAC 1 cut(s) 797
SapI GCTCTTC 1 cut(s) 122
SaqAI TTAA 2 cut(s) 174, 372
SatI GCNGC 2 cut(s) 291, 312
Sau3AI GATC 3 cut(s) 25, 276, 782
SchI GAGTC 1 cut(s) 100
ScrFI CCNGG 1 cut(s) 17
SexAI ACCWGGT 1 cut(s) 15
SfaNI GCATC 4 cut(s) 510, 603, 696, 736
SfoI GGCGCC 1 cut(s) 429
Sse9I AATT 4 cut(s) 30, 43, 148, 303
SsiI CCGC 3 cut(s) 290, 654, 703
SspDI GGCGCC 1 cut(s) 427
SspMI CTAG 2 cut(s) 501, 829
StyD4I CCNGG 1 cut(s) 15
TaaI ACNGT 2 cut(s) 411, 553
TaiI ACGT 2 cut(s) 630, 676
TaqI TCGA 2 cut(s) 24, 279
TaqII GACCGA 1 cut(s) 752
TasI AATT 4 cut(s) 30, 43, 148, 303
TauI GCSGC 1 cut(s) 293
TfiI GAWTC 1 cut(s) 692
Tru1I TTAA 2 cut(s) 174, 372
Tru9I TTAA 2 cut(s) 174, 372
TscAI CASTG 2 cut(s) 416, 778
TseI GCWGC 1 cut(s) 311
TspDTI ATGAA 3 cut(s) 140, 667, 765
TspRI CASTG 2 cut(s) 416, 778
VspI ATTAAT 1 cut(s) 372
XapI RAATTY 2 cut(s) 30, 43
XmnI GAANNNNTTC 1 cut(s) 629
XspI CTAG 2 cut(s) 501, 829
Zsp2I ATGCAT 1 cut(s) 64
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.