Rh1AG402600

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0011997
Physical Location & Seq
Forward (+)
62942532 .. 62943491
960 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG402600.1

Sequence Viewer

Length: 960 bp
ATGTCGAGTCTTAGAACCACACTCTTACACCTCCTCGAAGAATGCAAGAACATGAGAGAGCTGAAACAAATCCACACCCACATCATAAAGTCCCCATTTTTACTCAAACAAGACCAAACCTTTCTCATCACTCGTCTCCTATTCTTCTGCGCTCTATCCGATTCGGGTTCTCAGACCTACGCCACCGCAGTTTTCCGGGTCATAAAGAACCCGACTCTCTACGTCTACAACATCATGATCAGAGCATACGCGTGTAGAAAGACCAGTGCTTTGGATAAACCTGCTTCGTTTCGGTCGTTGGTGTTGTATAAGCAAATGGTTGGTAATGGGATTGGGCCCAATTGCCTCACTTTTCCGTTTCTTGTGAACGAATGCGCGGCGATGAGTGACGGCGGCGCTGGCCGGAGCGTTCATGGCCAAGTGGTTAAGTACGGGTGTGAAGATGATGTGTTTGTTCGAAACTCGTTGATGAATGTGTACTCTGTTTGTGGGTCTTTGAGTTGCGCACGCCATGTGTTCGATGAAATGCCTGAGAGAGATGTGGTTTCGTGGAACTTGATGATTAAGGGGTGTTTGAGAAGTGGGGAACTTGATGAGGCGATGGGTGTGTTTGGGAAGATGAAGCAGAGGAGTATTTTTAGTTGGAATTCCATTATAACCGGGTGTGTTCAGGGCGGTCGGCCGAAGGAGGCATTGGAACTTTTTCATGAAATGCAGGTTGCGGGCGGTGTTAGACCGGATAAGATTACGATTGCTAGTGTCCTTGCGGCTTGTGCTCATCTTGGCGCGGTTGATCACGGGACATGGGTGCATGGGTACCTGAGGAGAAGTGGGCTGGAGAGTGATGTGGTAATTGGAACAGCTCTGGTTGACATGTTTGGAAAATGTGGATGTGTGGAAAAAGCCTACGAGGTCTTTAAGGAAATGCCGAAGAGCCAAAGTATCTTTCTTTGGCGCTGA
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

319

Amino Acids

35.51

Weight (kDa)

8.74

Isoelectric Point (pI)

46.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 179 - 212 2.7e-08 PPR repeat family
PPR PF01535 182 - 211 1.1e-08 PPR repeat
PPR_2 PF13041 211 - 260 7.6e-10 PPR repeat family
PPR PF01535 213 - 242 1.7e-08 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: OG0011997)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G14170 AT4G14170
fragaria_vesca FvH4_7g28451
malus_domestica MD01G1188300.v1.1
prunus_persica Prupe.2G284600_v2.0.a1
pyrus_communis pycom01g20010
rosa_chinensis RchiOBHm_Chr1g0375631 RchiOBHm_Chr1g0375671
rosa_laevigata RLG00000026661
rosa_multiflora Rmu_co8281021.1_g000001 Rmu_co8425983.1_g000001 Rmu_sc0001644.1_g000022
rosa_roxburghii Rroxscaffold_4G00282680
rosa_rugosa Rorug01G0391700
rosa_samantha Rh1AG402600 Rh1BG366800 Rh1CG379500
rosa_wichuraiana Rw1G035750 Rw1G035770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 656
Acc16I TGCGCA 1 cut(s) 505
Acc36I ACCTGC 2 cut(s) 289, 706
Acc65I GGTACC 1 cut(s) 816
AccB1I GGYRCC 1 cut(s) 816
AccI GTMKAC 1 cut(s) 225
AccII CGCG 3 cut(s) 251, 377, 788
AciI CCGC 8 cut(s) 186, 377, 393, 675, 722, 726, 767, 788
AcoI YGGCCR 3 cut(s) 400, 415, 680
AcsI RAATTY 1 cut(s) 646
AfaI GTAC 3 cut(s) 431, 479, 818
AflIII ACRYGT 2 cut(s) 249, 873
AjuI GAANNNNNNNTTGG 3 cut(s) 677, 709, 930
AluBI AGCT 2 cut(s) 61, 863
AluI AGCT 2 cut(s) 61, 863
Alw21I GWGCWC 1 cut(s) 778
Alw26I GTCTC 1 cut(s) 140
AoxI GGCC 4 cut(s) 335, 400, 415, 680
ApaI GGGCCC 1 cut(s) 339
ApoI RAATTY 1 cut(s) 646
ArsI GACNNNNNNTTYG 2 cut(s) 253, 285
Asp700I GAANNNNTTC 1 cut(s) 702
Asp718I GGTACC 1 cut(s) 816
AspLEI GCGC 6 cut(s) 152, 377, 398, 506, 788, 957
AspS9I GGNCC 2 cut(s) 335, 336
AsuC2I CCSGG 2 cut(s) 197, 661
AsuII TTCGAA 1 cut(s) 457
AxyI CCTNAGG 1 cut(s) 821
BaeGI GKGCMC 1 cut(s) 339
BalI TGGCCA 1 cut(s) 417
BanI GGYRCC 1 cut(s) 816
BanII GRGCYC 1 cut(s) 339
Bbv12I GWGCWC 1 cut(s) 778
BccI CCATC 1 cut(s) 595
BceAI ACGGC 1 cut(s) 406
BclI TGATCA 2 cut(s) 237, 793
BcnI CCSGG 2 cut(s) 197, 661
BcoDI GTCTC 1 cut(s) 140
BfaI CTAG 1 cut(s) 756
BfoI RGCGCY 2 cut(s) 399, 958
BfuAI ACCTGC 2 cut(s) 289, 706
BisI GCNGC 3 cut(s) 378, 394, 768
BlsI GCNGC 3 cut(s) 379, 395, 769
Bme1390I CCNGG 2 cut(s) 197, 661
BmgT120I GGNCC 2 cut(s) 335, 336
BmiI GGNNCC 2 cut(s) 337, 818
BmrFI CCNGG 2 cut(s) 197, 661
BpmI CTGGAG 1 cut(s) 857
Bpu14I TTCGAA 1 cut(s) 457
BpuMI CCSGG 2 cut(s) 197, 661
BsaWI WCCGGW 1 cut(s) 736
Bse1I ACTGG 1 cut(s) 264
Bse21I CCTNAGG 1 cut(s) 821
BseGI GGATG 1 cut(s) 896
BseMII CTCAG 3 cut(s) 185, 522, 812
BseNI ACTGG 1 cut(s) 264
BseRI GAGGAG 3 cut(s) 23, 643, 838
BseSI GKGCMC 1 cut(s) 339
BseX3I CGGCCG 1 cut(s) 680
Bsh1236I CGCG 3 cut(s) 251, 377, 788
Bsh1285I CGRYCG 3 cut(s) 296, 679, 683
BshFI GGCC 4 cut(s) 337, 402, 417, 682
BshNI GGYRCC 1 cut(s) 816
BsiEI CGRYCG 3 cut(s) 296, 679, 683
BsiHKAI GWGCWC 1 cut(s) 778
BsiSI CCGG 4 cut(s) 196, 403, 660, 737
BslFI GGGAC 2 cut(s) 76, 814
BsmAI GTCTC 1 cut(s) 140
BsmBI CGTCTC 1 cut(s) 140
BsmFI GGGAC 2 cut(s) 76, 814
BsmI GAATGC 2 cut(s) 47, 377
BsnI GGCC 4 cut(s) 337, 402, 417, 682
Bsp119I TTCGAA 1 cut(s) 457
Bsp120I GGGCCC 1 cut(s) 335
Bsp1286I GDGCHC 2 cut(s) 339, 778
Bsp143I GATC 2 cut(s) 237, 793
BspACI CCGC 8 cut(s) 186, 377, 393, 675, 722, 726, 767, 788
BspANI GGCC 4 cut(s) 337, 402, 417, 682
BspCNI CTCAG 3 cut(s) 184, 523, 813
BspFNI CGCG 3 cut(s) 251, 377, 788
BspHI TCATGA 2 cut(s) 234, 706
BspLI GGNNCC 2 cut(s) 337, 818
BspMI ACCTGC 2 cut(s) 289, 706
BspQI GCTCTTC 1 cut(s) 926
BspT104I TTCGAA 1 cut(s) 457
BspT107I GGYRCC 1 cut(s) 816
BsrI ACTGG 1 cut(s) 264
BssMI GATC 2 cut(s) 237, 793
Bst6I CTCTTC 1 cut(s) 926
BstBI TTCGAA 1 cut(s) 457
BstC8I GCNNGC 3 cut(s) 400, 508, 724
BstDEI CTNAG 4 cut(s) 11, 171, 531, 821
BstF5I GGATG 1 cut(s) 896
BstFNI CGCG 3 cut(s) 251, 377, 788
BstH2I RGCGCY 2 cut(s) 399, 958
BstHHI GCGC 6 cut(s) 152, 377, 398, 506, 788, 957
BstKTI GATC 2 cut(s) 240, 796
BstMAI GTCTC 1 cut(s) 140
BstMBI GATC 2 cut(s) 237, 793
BstMCI CGRYCG 3 cut(s) 296, 679, 683
BstMWI GCNNNNNNNGC 3 cut(s) 399, 414, 773
BstNSI RCATGY 1 cut(s) 877
BstSCI CCNGG 2 cut(s) 195, 659
BstSLI GKGCMC 1 cut(s) 339
BstUI CGCG 3 cut(s) 251, 377, 788
BstXI CCANNNNNNTGG 1 cut(s) 271
BstZI CGGCCG 1 cut(s) 680
Bsu36I CCTNAGG 1 cut(s) 821
BsuRI GGCC 4 cut(s) 337, 402, 417, 682
BtgZI GCGATG 2 cut(s) 395, 614
BtsCI GGATG 1 cut(s) 896
BtsIMutI CAGTG 1 cut(s) 271
BveI ACCTGC 2 cut(s) 289, 706
Cac8I GCNNGC 3 cut(s) 400, 508, 724
CciI TCATGA 2 cut(s) 234, 706
CfoI GCGC 6 cut(s) 152, 377, 398, 506, 788, 957
Cfr13I GGNCC 2 cut(s) 335, 336
Csp6I GTAC 3 cut(s) 430, 478, 817
CviAII CATG 8 cut(s) 52, 235, 413, 512, 707, 804, 812, 874
CviQI GTAC 3 cut(s) 430, 478, 817
DdeI CTNAG 4 cut(s) 11, 171, 531, 821
DpnI GATC 2 cut(s) 239, 795
DpnII GATC 2 cut(s) 237, 793
EaeI YGGCCR 3 cut(s) 400, 415, 680
EagI CGGCCG 1 cut(s) 680
Eam1104I CTCTTC 1 cut(s) 926
EarI CTCTTC 1 cut(s) 926
EclXI CGGCCG 1 cut(s) 680
Eco24I GRGCYC 1 cut(s) 339
Eco52I CGGCCG 1 cut(s) 680
Eco81I CCTNAGG 1 cut(s) 821
EcoRI GAATTC 1 cut(s) 646
EcoT38I GRGCYC 1 cut(s) 339
Esp3I CGTCTC 1 cut(s) 140
FaeI CATG 8 cut(s) 55, 238, 416, 515, 710, 807, 815, 877
FaqI GGGAC 2 cut(s) 76, 814
FatI CATG 8 cut(s) 51, 234, 412, 511, 706, 803, 811, 873
FauI CCCGC 1 cut(s) 715
FbaI TGATCA 2 cut(s) 237, 793
FblI GTMKAC 1 cut(s) 225
Fnu4HI GCNGC 3 cut(s) 378, 394, 768
FokI GGATG 1 cut(s) 903
FriOI GRGCYC 1 cut(s) 339
Fsp4HI GCNGC 3 cut(s) 378, 394, 768
FspBI CTAG 1 cut(s) 756
FspI TGCGCA 1 cut(s) 505
GlaI GCGC 6 cut(s) 151, 376, 397, 505, 787, 956
GluI GCNGC 3 cut(s) 378, 394, 768
GsuI CTGGAG 1 cut(s) 857
HaeII RGCGCY 2 cut(s) 399, 958
HaeIII GGCC 4 cut(s) 337, 402, 417, 682
HapII CCGG 4 cut(s) 196, 403, 660, 737
HhaI GCGC 6 cut(s) 152, 377, 398, 506, 788, 957
Hin1II CATG 8 cut(s) 55, 238, 416, 515, 710, 807, 815, 877
Hin6I GCGC 6 cut(s) 150, 375, 396, 504, 786, 955
HinP1I GCGC 6 cut(s) 150, 375, 396, 504, 786, 955
HincII GTYRAC 1 cut(s) 871
HindII GTYRAC 1 cut(s) 871
HinfI GANTC 3 cut(s) 7, 161, 214
HpaII CCGG 4 cut(s) 196, 403, 660, 737
Hpy166II GTNNAC 4 cut(s) 226, 367, 478, 871
Hpy188I TCNGA 3 cut(s) 160, 174, 242
Hpy188III TCNNGA 2 cut(s) 235, 707
Hpy8I GTNNAC 4 cut(s) 226, 367, 478, 871
HpyAV CCTTC 1 cut(s) 679
HpyCH4IV ACGT 1 cut(s) 222
HpyCH4V TGCA 3 cut(s) 45, 715, 811
HpyF10VI GCNNNNNNNGC 3 cut(s) 399, 414, 773
HpyF3I CTNAG 4 cut(s) 11, 171, 531, 821
HpySE526I ACGT 1 cut(s) 222
Hsp92II CATG 8 cut(s) 55, 238, 416, 515, 710, 807, 815, 877
HspAI GCGC 6 cut(s) 150, 375, 396, 504, 786, 955
KpnI GGTACC 1 cut(s) 820
Ksp22I TGATCA 2 cut(s) 237, 793
Kzo9I GATC 2 cut(s) 237, 793
LguI GCTCTTC 1 cut(s) 926
LmnI GCTCC 1 cut(s) 405
MaeI CTAG 1 cut(s) 756
MaeII ACGT 1 cut(s) 222
MaeIII GTNAC 1 cut(s) 386
MalI GATC 2 cut(s) 239, 795
MboI GATC 2 cut(s) 237, 793
MboII GAAGA 5 cut(s) 50, 136, 452, 628, 943
MfeI CAATTG 1 cut(s) 340
MhlI GDGCHC 2 cut(s) 339, 778
MlsI TGGCCA 1 cut(s) 417
MluCI AATT 3 cut(s) 340, 646, 852
MluI ACGCGT 1 cut(s) 249
MluNI TGGCCA 1 cut(s) 417
MlyI GAGTC 2 cut(s) 16, 208
MmeI TCCRAC 1 cut(s) 623
MnlI CCTC 8 cut(s) 41, 44, 356, 589, 621, 682, 816, 904
Mox20I TGGCCA 1 cut(s) 417
MroXI GAANNNNTTC 1 cut(s) 702
MscI TGGCCA 1 cut(s) 417
MseI TTAA 3 cut(s) 426, 564, 918
MslI CAYNNNNRTG 1 cut(s) 250
Msp20I TGGCCA 1 cut(s) 417
MspI CCGG 4 cut(s) 196, 403, 660, 737
MspR9I CCNGG 2 cut(s) 197, 661
MunI CAATTG 1 cut(s) 340
Mva1269I GAATGC 2 cut(s) 47, 377
MvnI CGCG 3 cut(s) 251, 377, 788
MwoI GCNNNNNNNGC 3 cut(s) 399, 414, 773
NciI CCSGG 2 cut(s) 197, 661
NdeII GATC 2 cut(s) 237, 793
NlaIII CATG 8 cut(s) 55, 238, 416, 515, 710, 807, 815, 877
NlaIV GGNNCC 2 cut(s) 337, 818
NmuCI GTSAC 1 cut(s) 386
NsbI TGCGCA 1 cut(s) 505
NspI RCATGY 1 cut(s) 877
NspV TTCGAA 1 cut(s) 457
PagI TCATGA 2 cut(s) 234, 706
PciI ACATGT 1 cut(s) 873
PciSI GCTCTTC 1 cut(s) 926
PcsI WCGNNNNNNNCGW 1 cut(s) 293
PctI GAATGC 2 cut(s) 47, 377
PdmI GAANNNNTTC 1 cut(s) 702
PfeI GAWTC 1 cut(s) 161
PkrI GCNGC 3 cut(s) 379, 395, 769
PleI GAGTC 2 cut(s) 15, 208
PpsI GAGTC 2 cut(s) 15, 208
PscI ACATGT 1 cut(s) 873
PsiI TTATAA 1 cut(s) 656
PspN4I GGNNCC 2 cut(s) 337, 818
PspOMI GGGCCC 1 cut(s) 335
PspPI GGNCC 2 cut(s) 335, 336
RsaI GTAC 3 cut(s) 431, 479, 818
RsaNI GTAC 3 cut(s) 430, 478, 817
RseI CAYNNNNRTG 1 cut(s) 250
SapI GCTCTTC 1 cut(s) 926
SaqAI TTAA 3 cut(s) 426, 564, 918
SatI GCNGC 3 cut(s) 378, 394, 768
Sau3AI GATC 2 cut(s) 237, 793
Sau96I GGNCC 2 cut(s) 335, 336
SchI GAGTC 2 cut(s) 16, 208
ScrFI CCNGG 2 cut(s) 197, 661
SduI GDGCHC 2 cut(s) 339, 778
SfuI TTCGAA 1 cut(s) 457
SmiMI CAYNNNNRTG 1 cut(s) 250
Sse9I AATT 3 cut(s) 340, 646, 852
SsiI CCGC 8 cut(s) 186, 377, 393, 675, 722, 726, 767, 788
SspMI CTAG 1 cut(s) 756
StyD4I CCNGG 2 cut(s) 195, 659
TaiI ACGT 1 cut(s) 225
TaqI TCGA 4 cut(s) 5, 36, 457, 519
TaqII GACCGA 1 cut(s) 282
TasI AATT 3 cut(s) 340, 646, 852
TatI WGTACW 1 cut(s) 477
TauI GCSGC 3 cut(s) 380, 396, 770
TfiI GAWTC 1 cut(s) 161
Tru1I TTAA 3 cut(s) 426, 564, 918
Tru9I TTAA 3 cut(s) 426, 564, 918
TscAI CASTG 1 cut(s) 271
TseFI GTSAC 1 cut(s) 386
Tsp45I GTSAC 1 cut(s) 386
TspDTI ATGAA 6 cut(s) 401, 485, 537, 635, 695, 723
TspGWI ACGGA 1 cut(s) 345
TspRI CASTG 1 cut(s) 271
XapI RAATTY 1 cut(s) 646
XceI RCATGY 1 cut(s) 877
XmiI GTMKAC 1 cut(s) 225
XmnI GAANNNNTTC 1 cut(s) 702
XspI CTAG 1 cut(s) 756
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.