Rh1AG419300

Pentatricopeptide repeat domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0014806
Physical Location & Seq
Reverse (-)
65004957 .. 65005802
846 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG419300.1

Sequence Viewer

Length: 846 bp
ATGATCACCGGCTACGCTGAAGTAAGGGGTGCAGGCAATGCGAGAGATTTGTTTGAGCGGATGCCCGAGAAGGATGTTGTATCATGGACAATAATGATCAGAGTGTATGCCGCTGCAGGAGACCTTATGACAGCGAGAAAGTTTTTCGAGACAATGCCTTGCAAGAATGTGGTTTCATGGAACTCTATGATTTCAAGTTACTCCCAGCATGGACAACTTGAACAAGCATTGGATCTCTTTGTCCAAATGCAATCGGGTGGTGAAGTTGCGGACAAATACACGTTTGTTGCTGTTCTATCGGCTTGTTCTCAGTTGGGTGCTTTAGAATTTGGAAAGTGGGTACACTACTTGATAGAAGACTGGTCTCAGTTTGGAGCCATTTTGGGGACTGCCCTTATCGATATGTATGCAAAGTGCGGCGATATAAATAGAGCTTTCACACTTTTTATCAAGATGGGAAAGAGGGATGTATTTTGTTGGAATGTTATGATTAGATCTGTAGCTATCCACGGAAGAACAGAAGACGCCATCAAGATGTACTCATTGATGCAAAAAAAAGGGTTGAAGCCGAATGACTTCACCTTAACTGCTGCTCTATTCGCTTGTAGCCATGGAGGCTTAGTAAAGGAAGGTGAAGGAATCTTCCATTCCATGGAGAGGGATTTTGGGGTTGAACCAAAACTCCAGCATTATGGCTGCATAATTGACCTACTGAGCCGAAACGGTCAGTTGGAGGAAGCAGTACGTCTATTTAAGGCAATGCCGTATAAGCCTGACATAGCAATATGGGGAGCTTTGCTTGGCAGTTGCAGAGATATAAGTCACCTTAAATTGGCAGAGGAGTGA
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
PPR PPR_2

Protein Analysis

281

Amino Acids

31.5

Weight (kDa)

6.4

Isoelectric Point (pI)

36.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 55 - 103 2e-12 PPR repeat family
PPR PF01535 58 - 87 4.5e-09 PPR repeat
PPR_2 PF13041 155 - 202 3.9e-11 PPR repeat family
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: OG0014806)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g29410
malus_domestica MD01G1200000.v1.1 MD07G1267900.v1.1
prunus_persica Prupe.2G293600_v2.0.a1
pyrus_communis pycom01g21010 pycom07g24550
rosa_chinensis RchiOBHm_Chr1g0377181 RchiOBHm_Chr1g0377191
rosa_laevigata RLG00000026538
rosa_multiflora Rmu_ssc0000155.1_g000013 Rmu_ssc0000155.1_g000014
rosa_roxburghii Rroxscaffold_4G00281400
rosa_rugosa Rorug01G0401900
rosa_samantha Rh1AG419300 Rh1BG378400 Rh1CG392400
rosa_wichuraiana Rw1G036780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 652
AccBSI CCGCTC 1 cut(s) 58
AciI CCGC 4 cut(s) 58, 111, 269, 417
AclWI GGATC 1 cut(s) 240
AcsI RAATTY 1 cut(s) 326
AcuI CTGAAG 1 cut(s) 39
AcyI GRCGYC 1 cut(s) 525
AfaI GTAC 3 cut(s) 342, 539, 744
AfiI CCNNNNNNNGG 4 cut(s) 384, 652, 657, 832
AflIII ACRYGT 1 cut(s) 279
AgsI TTSAA 4 cut(s) 195, 221, 565, 674
AloI GAACNNNNNNTCC 2 cut(s) 666, 698
AluBI AGCT 3 cut(s) 434, 503, 794
AluI AGCT 3 cut(s) 434, 503, 794
Alw26I GTCTC 3 cut(s) 114, 143, 369
AlwI GGATC 1 cut(s) 240
Ama87I CYCGRG 1 cut(s) 65
ApeKI GCWGC 3 cut(s) 113, 590, 696
ApoI RAATTY 1 cut(s) 326
Asp700I GAANNNNTTC 1 cut(s) 575
AsuHPI GGTGA 4 cut(s) 272, 571, 644, 815
AvaI CYCGRG 1 cut(s) 65
BbsI GAAGAC 2 cut(s) 363, 528
BbvI GCAGC 3 cut(s) 100, 577, 683
BccI CCATC 2 cut(s) 448, 536
BceAI ACGGC 1 cut(s) 748
BcgI CGANNNNNNTGC 2 cut(s) 389, 423
BclI TGATCA 2 cut(s) 3, 96
BcoDI GTCTC 3 cut(s) 114, 143, 369
BfmI CTRYAG 2 cut(s) 114, 498
BglI GCCNNNNNGGC 1 cut(s) 615
BglII AGATCT 1 cut(s) 494
BisI GCNGC 5 cut(s) 111, 114, 418, 591, 697
BlsI GCNGC 5 cut(s) 112, 115, 419, 592, 698
BmeT110I CYCGRG 1 cut(s) 65
BmiI GGNNCC 1 cut(s) 376
BmsI GCATC 2 cut(s) 51, 537
BpiI GAAGAC 2 cut(s) 363, 528
BpmI CTGGAG 1 cut(s) 668
Bsa29I ATCGAT 1 cut(s) 399
BsaHI GRCGYC 1 cut(s) 525
BsaI GGTCTC 2 cut(s) 114, 369
BsaJI CCNNGG 3 cut(s) 508, 610, 651
BsaXI ACNNNNNCTCC 4 cut(s) 606, 636, 666, 696
Bsc4I CCNNNNNNNGG 4 cut(s) 384, 652, 657, 832
Bse118I RCCGGY 1 cut(s) 8
Bse1I ACTGG 1 cut(s) 365
Bse3DI GCAATG 2 cut(s) 43, 765
BseCI ATCGAT 1 cut(s) 399
BseDI CCNNGG 3 cut(s) 508, 610, 651
BseGI GGATG 3 cut(s) 66, 79, 472
BseLI CCNNNNNNNGG 4 cut(s) 384, 652, 657, 832
BseMI GCAATG 2 cut(s) 43, 765
BseMII CTCAG 3 cut(s) 323, 380, 704
BseNI ACTGG 1 cut(s) 365
BseXI GCAGC 3 cut(s) 100, 577, 683
BseYI CCCAGC 1 cut(s) 204
BsgI GTGCAG 1 cut(s) 51
BshVI ATCGAT 1 cut(s) 399
BsiHKCI CYCGRG 1 cut(s) 65
BsiSI CCGG 1 cut(s) 9
BslFI GGGAC 1 cut(s) 400
BslI CCNNNNNNNGG 4 cut(s) 384, 652, 657, 832
BsmAI GTCTC 3 cut(s) 114, 143, 369
BsmFI GGGAC 1 cut(s) 400
Bso31I GGTCTC 2 cut(s) 114, 369
BsoBI CYCGRG 1 cut(s) 65
Bsp143I GATC 4 cut(s) 3, 96, 232, 494
Bsp19I CCATGG 2 cut(s) 610, 651
BspACI CCGC 4 cut(s) 58, 111, 269, 417
BspCNI CTCAG 3 cut(s) 322, 379, 705
BspDI ATCGAT 1 cut(s) 399
BspLI GGNNCC 1 cut(s) 376
BspMAI CTGCAG 1 cut(s) 118
BspPI GGATC 1 cut(s) 240
BspTNI GGTCTC 2 cut(s) 114, 369
BsrBI CCGCTC 1 cut(s) 58
BsrDI GCAATG 2 cut(s) 43, 765
BsrFI RCCGGY 1 cut(s) 8
BsrI ACTGG 1 cut(s) 365
BssAI RCCGGY 1 cut(s) 8
BssECI CCNNGG 3 cut(s) 508, 610, 651
BssMI GATC 4 cut(s) 3, 96, 232, 494
BssNI GRCGYC 1 cut(s) 525
BssT1I CCWWGG 2 cut(s) 610, 651
Bst4CI ACNGT 1 cut(s) 725
BstACI GRCGYC 1 cut(s) 525
BstAPI GCANNNNNTGC 1 cut(s) 38
BstC8I GCNNGC 1 cut(s) 34
BstDEI CTNAG 4 cut(s) 309, 366, 619, 713
BstDSI CCRYGG 3 cut(s) 508, 610, 651
BstF5I GGATG 3 cut(s) 66, 79, 472
BstKTI GATC 4 cut(s) 6, 99, 235, 497
BstMAI GTCTC 3 cut(s) 114, 143, 369
BstMBI GATC 4 cut(s) 3, 96, 232, 494
BstMWI GCNNNNNNNGC 4 cut(s) 38, 599, 615, 769
BstSFI CTRYAG 2 cut(s) 114, 498
BstV1I GCAGC 3 cut(s) 100, 577, 683
BstV2I GAAGAC 2 cut(s) 363, 528
BstX2I RGATCY 2 cut(s) 232, 494
BstXI CCANNNNNNTGG 1 cut(s) 692
BstYI RGATCY 2 cut(s) 232, 494
Bsu15I ATCGAT 1 cut(s) 399
BsuTUI ATCGAT 1 cut(s) 399
BtgI CCRYGG 3 cut(s) 508, 610, 651
BtsCI GGATG 3 cut(s) 66, 79, 472
Cac8I GCNNGC 1 cut(s) 34
Cfr10I RCCGGY 1 cut(s) 8
ClaI ATCGAT 1 cut(s) 399
CseI GACGC 1 cut(s) 533
Csp6I GTAC 3 cut(s) 341, 538, 743
CviAII CATG 5 cut(s) 84, 177, 209, 611, 652
CviQI GTAC 3 cut(s) 341, 538, 743
DdeI CTNAG 4 cut(s) 309, 366, 619, 713
DpnI GATC 4 cut(s) 5, 98, 234, 496
DpnII GATC 4 cut(s) 3, 96, 232, 494
Eco130I CCWWGG 2 cut(s) 610, 651
Eco31I GGTCTC 2 cut(s) 114, 369
Eco57I CTGAAG 1 cut(s) 39
Eco88I CYCGRG 1 cut(s) 65
EcoT14I CCWWGG 2 cut(s) 610, 651
ErhI CCWWGG 2 cut(s) 610, 651
FaeI CATG 5 cut(s) 87, 180, 212, 614, 655
FaqI GGGAC 1 cut(s) 400
FatI CATG 5 cut(s) 83, 176, 208, 610, 651
FbaI TGATCA 2 cut(s) 3, 96
Fnu4HI GCNGC 5 cut(s) 111, 114, 418, 591, 697
FokI GGATG 3 cut(s) 73, 86, 479
Fsp4HI GCNGC 5 cut(s) 111, 114, 418, 591, 697
GluI GCNGC 5 cut(s) 111, 114, 418, 591, 697
GsaI CCCAGC 1 cut(s) 208
GsuI CTGGAG 1 cut(s) 668
HapII CCGG 1 cut(s) 9
HgaI GACGC 1 cut(s) 533
Hin1I GRCGYC 1 cut(s) 525
Hin1II CATG 5 cut(s) 87, 180, 212, 614, 655
HinfI GANTC 1 cut(s) 639
HpaII CCGG 1 cut(s) 9
HphI GGTGA 4 cut(s) 272, 571, 644, 815
Hpy166II GTNNAC 1 cut(s) 343
Hpy188I TCNGA 1 cut(s) 101
Hpy188III TCNNGA 3 cut(s) 148, 451, 532
Hpy8I GTNNAC 1 cut(s) 343
HpyAV CCTTC 3 cut(s) 64, 623, 629
HpyCH4III ACNGT 1 cut(s) 725
HpyCH4IV ACGT 2 cut(s) 281, 745
HpyCH4V TGCA 8 cut(s) 32, 116, 162, 250, 410, 550, 699, 810
HpyF10VI GCNNNNNNNGC 4 cut(s) 38, 599, 615, 769
HpyF3I CTNAG 4 cut(s) 309, 366, 619, 713
HpySE526I ACGT 2 cut(s) 281, 745
Hsp92I GRCGYC 1 cut(s) 525
Hsp92II CATG 5 cut(s) 87, 180, 212, 614, 655
Ksp22I TGATCA 2 cut(s) 3, 96
Kzo9I GATC 4 cut(s) 3, 96, 232, 494
LmnI GCTCC 2 cut(s) 374, 791
LpnPI CCDG 7 cut(s) 18, 22, 102, 218, 346, 698, 786
Lsp1109I GCAGC 3 cut(s) 100, 577, 683
LweI GCATC 2 cut(s) 51, 537
MaeII ACGT 2 cut(s) 281, 745
MaeIII GTNAC 2 cut(s) 197, 821
MalI GATC 4 cut(s) 5, 98, 234, 496
MbiI CCGCTC 1 cut(s) 58
MboI GATC 4 cut(s) 3, 96, 232, 494
MboII GAAGA 4 cut(s) 368, 525, 533, 634
MflI RGATCY 2 cut(s) 232, 494
MluCI AATT 3 cut(s) 326, 702, 830
MmeI TCCRAC 2 cut(s) 458, 711
MnlI CCTC 5 cut(s) 456, 608, 651, 727, 832
MroXI GAANNNNTTC 1 cut(s) 575
MseI TTAA 3 cut(s) 584, 753, 828
MslI CAYNNNNRTG 1 cut(s) 533
MspA1I CMGCKG 1 cut(s) 113
MspI CCGG 1 cut(s) 9
MwoI GCNNNNNNNGC 4 cut(s) 38, 599, 615, 769
NcoI CCATGG 2 cut(s) 610, 651
NdeII GATC 4 cut(s) 3, 96, 232, 494
NlaIII CATG 5 cut(s) 87, 180, 212, 614, 655
NlaIV GGNNCC 1 cut(s) 376
NmuCI GTSAC 1 cut(s) 821
PdmI GAANNNNTTC 1 cut(s) 575
PfeI GAWTC 1 cut(s) 639
PflMI CCANNNNNTGG 1 cut(s) 652
PkrI GCNGC 5 cut(s) 112, 115, 419, 592, 698
PspFI CCCAGC 1 cut(s) 204
PspN4I GGNNCC 1 cut(s) 376
PstI CTGCAG 1 cut(s) 118
PsuI RGATCY 2 cut(s) 232, 494
RsaI GTAC 3 cut(s) 342, 539, 744
RsaNI GTAC 3 cut(s) 341, 538, 743
RseI CAYNNNNRTG 1 cut(s) 533
SaqAI TTAA 3 cut(s) 584, 753, 828
SatI GCNGC 5 cut(s) 111, 114, 418, 591, 697
Sau3AI GATC 4 cut(s) 3, 96, 232, 494
SfaNI GCATC 2 cut(s) 51, 537
SfcI CTRYAG 2 cut(s) 114, 498
SmiMI CAYNNNNRTG 1 cut(s) 533
Sse9I AATT 3 cut(s) 326, 702, 830
SsiI CCGC 4 cut(s) 58, 111, 269, 417
StyI CCWWGG 2 cut(s) 610, 651
TaaI ACNGT 1 cut(s) 725
TaiI ACGT 2 cut(s) 284, 748
TaqI TCGA 2 cut(s) 147, 399
TasI AATT 3 cut(s) 326, 702, 830
TatI WGTACW 1 cut(s) 537
TauI GCSGC 2 cut(s) 113, 420
TfiI GAWTC 1 cut(s) 639
Tru1I TTAA 3 cut(s) 584, 753, 828
Tru9I TTAA 3 cut(s) 584, 753, 828
TseFI GTSAC 1 cut(s) 821
TseI GCWGC 3 cut(s) 113, 590, 696
Tsp45I GTSAC 1 cut(s) 821
TspDTI ATGAA 1 cut(s) 165
TspGWI ACGGA 1 cut(s) 525
Van91I CCANNNNNTGG 1 cut(s) 652
XapI RAATTY 1 cut(s) 326
XmnI GAANNNNTTC 1 cut(s) 575
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.