Rh3AG162800

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0014540
Physical Location & Seq
Forward (+)
14999658 .. 15016073
16416 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG162800.1

Sequence Viewer

Length: 885 bp
ATGGCGGTTCCGGGCAGGGGTTTAGTGGAGGCTGACGACAACGATGACGAAAACGCTCTCTTTGAAGAAGAGGGTTTGGAGGACCTCGACTCTCACGCGCCTCCTCACCTACGCGCCATCGCTGACGCCACTCAGCTCGGCGACCTCGACGCCCTCCGACTCGCTCTCGATAACTTAGAAGGCAGTATTGATGAACCAGTGGAAGATGGGGACACAGCTCTGCATCTGGCTTGTCTCTATGGTAAACTTTCTTGTGTCCAGTTGCTTTTGGAGAGGGGGGCAAACTTGGAGGCTAAGGATGAAGATGGAGCTATTCCTCTGCATGATGCTTGTGCTGGGGGATACACTGAGATAGTTCAACTTCTAGTTAACAGTGCTAATGACACCGAGCGTGTAAAGAGAATGCTAGAAGCAGTTGACGCTGAAGGTGATACTCCTCTGCATCATGCAGCCAGAGGTGAGCATGCTGATATTATAAGATTGTTGCTGGCTTCTGGAGCTTCTCCTACAAGGGCAAACCTGTATGGAAAGATCCCAAGTGAGTTACCAGAACCTAACACAGAAGCCAAGGGGATTTTGGAGGCTGCTGCTGATGCTATGGCATGCCATTCCACACCAAAAGACTTCAACTTGCTCATAAAGCAACACGCCAAGCTCAAAAACGACCATGCAATCCTCTCAACCTATACCCACATGGAGTCTCTAGGATTGGCGCCGGATAACTCCTCTCTCCCTCTCGTTCTCAAAGCCTGTGCGCGGCTGAGCGCCGTCGAGAGAGGGAAGGGGATACATTCGAGTATTTGGAACTCGGGTTTGGATAAAGATGTGAGGATTGGGACTGCCCTTGTTGATTTCTACCGCAAAAATGGGCTCATTGAGATTTAA
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

294

Amino Acids

31.52

Weight (kDa)

4.7

Isoelectric Point (pI)

32.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ank_2 PF12796 43 - 126 8.5e-15 Ankyrin repeats (3 copies)
Ank_4 PF13637 46 - 90 2.3e-06 Ankyrin repeats (many copies)
Ank_5 PF13857 68 - 107 1.3e-07 Ankyrin repeats (many copies)
Ank PF00023 69 - 100 2.4e-09 Ankyrin repeat
Ank_KRIT1 PF24521 71 - 185 1.7e-06 KRIT1 ankyrin-repeats domain
Ank_4 PF13637 77 - 123 1.5e-07 Ankyrin repeats (many copies)
Ank_2 PF12796 105 - 171 3.1e-11 Ankyrin repeats (3 copies)
Ank PF00023 143 - 173 2.6e-07 Ankyrin repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0014540)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G09890 AT3G09890
fragaria_vesca FvH4_6g16830
malus_domestica MD12G1106800.v1.1
prunus_persica Prupe.7G125700_v2.0.a1
pyrus_communis pycom12g10730
rosa_chinensis RchiOBHm_Chr3g0470841
rosa_laevigata RLG00000024241
rosa_multiflora Rmu_co8290787.1_g000001 Rmu_sc0002790.1_g000024
rosa_roxburghii Rroxscaffold_6G00410490
rosa_rugosa Rorug03G0113100
rosa_samantha Rh3AG162800 Rh3BG187900 Rh3CG177900 Rh3DG187900
rosa_wichuraiana Rw3G015330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 476
AccB1I GGYRCC 1 cut(s) 712
AccII CGCG 3 cut(s) 98, 114, 757
AciI CCGC 3 cut(s) 5, 757, 859
AclWI GGATC 1 cut(s) 526
AcuI CTGAAG 1 cut(s) 444
AcyI GRCGYC 3 cut(s) 126, 150, 713
AfiI CCNNNNNNNGG 2 cut(s) 17, 756
AgsI TTSAA 3 cut(s) 65, 359, 628
AjuI GAANNNNNNNTTGG 2 cut(s) 797, 829
AluBI AGCT 5 cut(s) 136, 218, 311, 500, 655
AluI AGCT 5 cut(s) 136, 218, 311, 500, 655
Alw26I GTCTC 2 cut(s) 239, 705
AlwI GGATC 1 cut(s) 526
Ama87I CYCGRG 1 cut(s) 808
ApeKI GCWGC 3 cut(s) 449, 584, 587
AspLEI GCGC 5 cut(s) 100, 116, 715, 757, 767
AspS9I GGNCC 1 cut(s) 82
AsuC2I CCSGG 1 cut(s) 12
AsuHPI GGTGA 3 cut(s) 98, 440, 470
AvaI CYCGRG 1 cut(s) 808
AvaII GGWCC 1 cut(s) 82
BanI GGYRCC 1 cut(s) 712
BanII GRGCYC 1 cut(s) 873
BbvI GCAGC 3 cut(s) 461, 571, 574
BccI CCATC 3 cut(s) 125, 200, 299
BceAI ACGGC 1 cut(s) 752
BciVI GTATCC 2 cut(s) 335, 780
BcnI CCSGG 1 cut(s) 12
BcoDI GTCTC 2 cut(s) 239, 705
BfaI CTAG 3 cut(s) 365, 407, 704
BfoI RGCGCY 2 cut(s) 716, 768
BfuI GTATCC 2 cut(s) 335, 780
BisI GCNGC 4 cut(s) 450, 585, 588, 758
BlpI GCTNAGC 1 cut(s) 761
BlsI GCNGC 4 cut(s) 451, 586, 589, 759
Bme1390I CCNGG 1 cut(s) 12
Bme18I GGWCC 1 cut(s) 82
BmeT110I CYCGRG 1 cut(s) 808
BmgT120I GGNCC 1 cut(s) 82
BmiI GGNNCC 2 cut(s) 9, 714
BmrFI CCNGG 1 cut(s) 12
BmsI GCATC 4 cut(s) 232, 316, 451, 583
BpmI CTGGAG 1 cut(s) 516
Bpu10I CCTNAGC 1 cut(s) 294
Bpu1102I GCTNAGC 1 cut(s) 761
BpuMI CCSGG 1 cut(s) 12
BsaHI GRCGYC 3 cut(s) 126, 150, 713
BsaJI CCNNGG 1 cut(s) 567
Bsc4I CCNNNNNNNGG 2 cut(s) 17, 756
Bse1I ACTGG 2 cut(s) 197, 259
BseDI CCNNGG 1 cut(s) 567
BseGI GGATG 1 cut(s) 304
BseLI CCNNNNNNNGG 2 cut(s) 17, 756
BseMII CTCAG 3 cut(s) 146, 339, 752
BseNI ACTGG 2 cut(s) 197, 259
BseRI GAGGAG 3 cut(s) 93, 426, 715
BseXI GCAGC 3 cut(s) 461, 571, 574
BseYI CCCAGC 1 cut(s) 335
Bsh1236I CGCG 3 cut(s) 98, 114, 757
BshNI GGYRCC 1 cut(s) 712
BsiHKCI CYCGRG 1 cut(s) 808
BsiSI CCGG 2 cut(s) 11, 716
BslFI GGGAC 2 cut(s) 224, 850
BslI CCNNNNNNNGG 2 cut(s) 17, 756
BsmAI GTCTC 2 cut(s) 239, 705
BsmFI GGGAC 2 cut(s) 224, 850
BsmI GAATGC 1 cut(s) 408
BsoBI CYCGRG 1 cut(s) 808
Bsp1286I GDGCHC 1 cut(s) 873
Bsp143I GATC 1 cut(s) 531
Bsp1720I GCTNAGC 1 cut(s) 761
BspACI CCGC 3 cut(s) 5, 757, 859
BspCNI CTCAG 3 cut(s) 145, 340, 753
BspFNI CGCG 3 cut(s) 98, 114, 757
BspLI GGNNCC 2 cut(s) 9, 714
BspPI GGATC 1 cut(s) 526
BspT107I GGYRCC 1 cut(s) 712
BsrI ACTGG 2 cut(s) 197, 259
BssECI CCNNGG 1 cut(s) 567
BssMI GATC 1 cut(s) 531
BssNI GRCGYC 3 cut(s) 126, 150, 713
BssT1I CCWWGG 1 cut(s) 567
Bst4CI ACNGT 1 cut(s) 374
Bst6I CTCTTC 1 cut(s) 63
BstACI GRCGYC 3 cut(s) 126, 150, 713
BstC8I GCNNGC 3 cut(s) 465, 489, 604
BstDEI CTNAG 5 cut(s) 132, 175, 294, 348, 761
BstF5I GGATG 1 cut(s) 304
BstFNI CGCG 3 cut(s) 98, 114, 757
BstH2I RGCGCY 2 cut(s) 716, 768
BstHHI GCGC 5 cut(s) 100, 116, 715, 757, 767
BstKTI GATC 1 cut(s) 534
BstMAI GTCTC 2 cut(s) 239, 705
BstMBI GATC 1 cut(s) 531
BstMWI GCNNNNNNNGC 4 cut(s) 419, 497, 593, 640
BstNSI RCATGY 2 cut(s) 467, 606
BstSCI CCNGG 1 cut(s) 10
BstUI CGCG 3 cut(s) 98, 114, 757
BstV1I GCAGC 3 cut(s) 461, 571, 574
BstX2I RGATCY 1 cut(s) 531
BstYI RGATCY 1 cut(s) 531
BsuI GTATCC 2 cut(s) 335, 780
BtgZI GCGATG 1 cut(s) 103
BtsCI GGATG 1 cut(s) 304
BtsIMutI CAGTG 3 cut(s) 204, 345, 379
Cac8I GCNNGC 3 cut(s) 465, 489, 604
CfoI GCGC 5 cut(s) 100, 116, 715, 757, 767
Cfr13I GGNCC 1 cut(s) 82
CseI GACGC 3 cut(s) 134, 158, 428
CviAII CATG 6 cut(s) 323, 446, 464, 603, 668, 694
DdeI CTNAG 5 cut(s) 132, 175, 294, 348, 761
DinI GGCGCC 1 cut(s) 714
DpnI GATC 1 cut(s) 533
DpnII GATC 1 cut(s) 531
Eam1104I CTCTTC 1 cut(s) 63
EarI CTCTTC 1 cut(s) 63
Eco130I CCWWGG 1 cut(s) 567
Eco24I GRGCYC 1 cut(s) 873
Eco47I GGWCC 1 cut(s) 82
Eco57I CTGAAG 1 cut(s) 444
Eco88I CYCGRG 1 cut(s) 808
EcoO109I RGGNCCY 1 cut(s) 82
EcoT14I CCWWGG 1 cut(s) 567
EcoT38I GRGCYC 1 cut(s) 873
EgeI GGCGCC 1 cut(s) 714
EheI GGCGCC 1 cut(s) 714
ErhI CCWWGG 1 cut(s) 567
FaeI CATG 6 cut(s) 326, 449, 467, 606, 671, 697
FaqI GGGAC 2 cut(s) 224, 850
FatI CATG 6 cut(s) 322, 445, 463, 602, 667, 693
Fnu4HI GCNGC 4 cut(s) 450, 585, 588, 758
FokI GGATG 1 cut(s) 311
FriOI GRGCYC 1 cut(s) 873
Fsp4HI GCNGC 4 cut(s) 450, 585, 588, 758
FspBI CTAG 3 cut(s) 365, 407, 704
GlaI GCGC 5 cut(s) 99, 115, 714, 756, 766
GluI GCNGC 4 cut(s) 450, 585, 588, 758
GsaI CCCAGC 1 cut(s) 339
GsuI CTGGAG 1 cut(s) 516
HaeII RGCGCY 2 cut(s) 716, 768
HapII CCGG 2 cut(s) 11, 716
HgaI GACGC 3 cut(s) 134, 158, 428
HhaI GCGC 5 cut(s) 100, 116, 715, 757, 767
Hin1I GRCGYC 3 cut(s) 126, 150, 713
Hin1II CATG 6 cut(s) 326, 449, 467, 606, 671, 697
Hin6I GCGC 5 cut(s) 98, 114, 713, 755, 765
HinP1I GCGC 5 cut(s) 98, 114, 713, 755, 765
HincII GTYRAC 2 cut(s) 370, 418
HindII GTYRAC 2 cut(s) 370, 418
HinfI GANTC 3 cut(s) 89, 159, 698
HpaI GTTAAC 1 cut(s) 370
HpaII CCGG 2 cut(s) 11, 716
HphI GGTGA 3 cut(s) 98, 440, 470
Hpy166II GTNNAC 3 cut(s) 245, 370, 418
Hpy188I TCNGA 1 cut(s) 158
Hpy188III TCNNGA 3 cut(s) 167, 495, 772
Hpy8I GTNNAC 3 cut(s) 245, 370, 418
Hpy99I CGWCG 2 cut(s) 152, 773
HpyAV CCTTC 3 cut(s) 173, 419, 775
HpyCH4III ACNGT 1 cut(s) 374
HpyCH4V TGCA 5 cut(s) 223, 322, 442, 449, 671
HpyF10VI GCNNNNNNNGC 4 cut(s) 419, 497, 593, 640
HpyF3I CTNAG 5 cut(s) 132, 175, 294, 348, 761
Hsp92I GRCGYC 3 cut(s) 126, 150, 713
Hsp92II CATG 6 cut(s) 326, 449, 467, 606, 671, 697
HspAI GCGC 5 cut(s) 98, 114, 713, 755, 765
KasI GGCGCC 1 cut(s) 712
KspAI GTTAAC 1 cut(s) 370
Kzo9I GATC 1 cut(s) 531
LmnI GCTCC 2 cut(s) 308, 497
Lsp1109I GCAGC 3 cut(s) 461, 571, 574
LweI GCATC 4 cut(s) 232, 316, 451, 583
MaeI CTAG 3 cut(s) 365, 407, 704
MaeIII GTNAC 1 cut(s) 543
MalI GATC 1 cut(s) 533
MboI GATC 1 cut(s) 531
MboII GAAGA 4 cut(s) 77, 80, 215, 314
MflI RGATCY 1 cut(s) 531
MhlI GDGCHC 1 cut(s) 873
Mly113I GGCGCC 1 cut(s) 713
MlyI GAGTC 3 cut(s) 83, 153, 707
MmeI TCCRAC 1 cut(s) 181
MseI TTAA 2 cut(s) 369, 883
MspI CCGG 2 cut(s) 11, 716
MspR9I CCNGG 1 cut(s) 12
Mva1269I GAATGC 1 cut(s) 408
MvnI CGCG 3 cut(s) 98, 114, 757
MwoI GCNNNNNNNGC 4 cut(s) 419, 497, 593, 640
NarI GGCGCC 1 cut(s) 713
NciI CCSGG 1 cut(s) 12
NdeII GATC 1 cut(s) 531
NlaIII CATG 6 cut(s) 326, 449, 467, 606, 671, 697
NlaIV GGNNCC 2 cut(s) 9, 714
NmeAIII GCCGAG 1 cut(s) 117
NspI RCATGY 2 cut(s) 467, 606
PaeI GCATGC 2 cut(s) 467, 606
PcsI WCGNNNNNNNCGW 1 cut(s) 144
PctI GAATGC 1 cut(s) 408
PkrI GCNGC 4 cut(s) 451, 586, 589, 759
PleI GAGTC 3 cut(s) 83, 153, 706
PluTI GGCGCC 1 cut(s) 716
PpsI GAGTC 3 cut(s) 83, 153, 706
PpuMI RGGWCCY 1 cut(s) 82
PsiI TTATAA 1 cut(s) 476
Psp5II RGGWCCY 1 cut(s) 82
PspFI CCCAGC 1 cut(s) 335
PspN4I GGNNCC 2 cut(s) 9, 714
PspPI GGNCC 1 cut(s) 82
PspPPI RGGWCCY 1 cut(s) 82
PsuI RGATCY 1 cut(s) 531
SaqAI TTAA 2 cut(s) 369, 883
SatI GCNGC 4 cut(s) 450, 585, 588, 758
Sau3AI GATC 1 cut(s) 531
Sau96I GGNCC 1 cut(s) 82
SchI GAGTC 3 cut(s) 83, 153, 707
ScrFI CCNGG 1 cut(s) 12
SduI GDGCHC 1 cut(s) 873
SfaNI GCATC 4 cut(s) 232, 316, 451, 583
SfoI GGCGCC 1 cut(s) 714
SinI GGWCC 1 cut(s) 82
SphI GCATGC 2 cut(s) 467, 606
SsiI CCGC 3 cut(s) 5, 757, 859
SspDI GGCGCC 1 cut(s) 712
SspMI CTAG 3 cut(s) 365, 407, 704
StyD4I CCNGG 1 cut(s) 10
StyI CCWWGG 1 cut(s) 567
TaaI ACNGT 1 cut(s) 374
TaqI TCGA 5 cut(s) 87, 147, 168, 771, 794
TauI GCSGC 1 cut(s) 760
Tru1I TTAA 2 cut(s) 369, 883
Tru9I TTAA 2 cut(s) 369, 883
TscAI CASTG 3 cut(s) 204, 352, 379
TseI GCWGC 3 cut(s) 449, 584, 587
TspDTI ATGAA 2 cut(s) 207, 315
TspRI CASTG 3 cut(s) 204, 352, 379
VpaK11BI GGWCC 1 cut(s) 82
XceI RCATGY 2 cut(s) 467, 606
XcmI CCANNNNNNNNNTGG 1 cut(s) 574
XspI CTAG 3 cut(s) 365, 407, 704
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.