Rh1DG329100

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0011932
Physical Location & Seq
Forward (+)
55413927 .. 55419033
5107 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG329100.1

Sequence Viewer

Length: 858 bp
ATGGTGCAGGGTGGTGATGATGATGGTGGTGTTTTGTGGGGGACAATGATGGCGGGGTACGCGAGTAATGGATGTTTTGTTGAGGTTTTGGAGTTGTTTGATTGCTTGAAAGGGGAGGGGAGTAGAATGAATAAGGTTTGTATCATGAGTGCACTTTTGGCTGCTACTGAGATGAGAGATTTGGAGAAAGGGAGGGAGATCCATCTTTGTGCTTTAGAAGTAGAAGTCGATTCTGATGTTTCGGTTGCTACTTCTATAATGACCATGTATGCAAAATGTGGAGAAATAGAGAAGGCAATGCAATTGTTTGAGAGACTTGGGGAAAGAGATTTAGTTGCTTGGTCTGCACTTATATCTGCTTGCGTTCAGTCTGGTTATCCTGAAGTGGCATTGTCTCTCTTTCGAGATAGGCAGAATGAAAATCTCAAACCATGTGGCATAACATTGGTCAGCATCCTTGCTGCATGTGGGGAGCTTTCATATCTGAAATTTGGTAAGAGCATACATTGCTATGTTGTTAAGGCCGATATTGATTCTGATATTTCTACTGGGACTGCCCTAGTCTCCATGTATGCTAAATGTGGATTCTTTACTCCTGCCTCGATTATATTCAACAGAATGCCATCTAAAGATGTTGTGACGTGGAATGCACTTATAAATGCATATACCCAAATAGGTGATGTCTACCATGCTATTGATATGTTGGATGAGTTATGGTTGTCTGGAATAAAACCTGATGCAGGAACAATGGTGGAAGAGAAGGCGAAGCTGCATGTGGACATGAAGGTTATTAGGGTGAAGAGAATAAGCGTACCAGTACCTCCTACACCTAAAGCGGGTCAAGGCCGGCATGGTTGA

Protein Analysis

285

Amino Acids

31.09

Weight (kDa)

5.22

Isoelectric Point (pI)

30.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 210 - 249 1e-07 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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Orthologous Genes (Group: OG0011932)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G39620 AT2G40720
fragaria_vesca FvH4_7g21891
malus_domestica MD07G1193300.v1.1
prunus_persica Prupe.2G231000_v2.0.a1
pyrus_communis pycom07g18250
rosa_chinensis RchiOBHm_Chr1g0366141
rosa_laevigata RLG00000027363
rosa_multiflora Rmu_co8484073.1_g000001 Rmu_sc0003987.1_g000001
rosa_roxburghii Rroxscaffold_4G00290450 Rroxscaffold_4G00290460
rosa_rugosa Rorug01G0327800 Rorug01G0327900
rosa_samantha Rh1AG335900 Rh1BG297300 Rh1CG313300 Rh1DG329100
rosa_wichuraiana Rw1G029800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 656
AccI GTMKAC 1 cut(s) 684
AccII CGCG 1 cut(s) 62
AciI CCGC 2 cut(s) 53, 836
AclWI GGATC 1 cut(s) 193
AcsI RAATTY 1 cut(s) 488
AcuI CTGAAG 1 cut(s) 402
AfaI GTAC 3 cut(s) 59, 813, 819
AfiI CCNNNNNNNGG 2 cut(s) 740, 836
AgsI TTSAA 2 cut(s) 109, 613
AjiI CACGTC 1 cut(s) 642
AluBI AGCT 2 cut(s) 475, 769
AluI AGCT 2 cut(s) 475, 769
Alw21I GWGCWC 1 cut(s) 154
Alw26I GTCTC 3 cut(s) 307, 399, 568
Alw44I GTGCAC 1 cut(s) 150
AlwI GGATC 1 cut(s) 193
AoxI GGCC 2 cut(s) 522, 844
ApaLI GTGCAC 1 cut(s) 150
ApeKI GCWGC 3 cut(s) 161, 461, 769
ApoI RAATTY 1 cut(s) 488
AsuHPI GGTGA 3 cut(s) 26, 689, 808
BaeGI GKGCMC 1 cut(s) 154
BaeI ACNNNNGTAYC 2 cut(s) 49, 82
Bbv12I GWGCWC 1 cut(s) 154
BbvI GCAGC 3 cut(s) 148, 448, 756
BccI CCATC 4 cut(s) 17, 43, 210, 631
BcoDI GTCTC 3 cut(s) 307, 399, 568
BfaI CTAG 1 cut(s) 560
BisI GCNGC 3 cut(s) 162, 462, 770
BlsI GCNGC 3 cut(s) 163, 463, 771
BmgBI CACGTC 1 cut(s) 642
BmrI ACTGGG 1 cut(s) 558
BmsI GCATC 2 cut(s) 462, 727
BmuI ACTGGG 1 cut(s) 558
Bsc4I CCNNNNNNNGG 2 cut(s) 740, 836
Bse118I RCCGGY 1 cut(s) 846
Bse1I ACTGG 2 cut(s) 553, 815
Bse3DI GCAATG 2 cut(s) 303, 505
BseGI GGATG 3 cut(s) 77, 453, 712
BseLI CCNNNNNNNGG 2 cut(s) 740, 836
BseMI GCAATG 2 cut(s) 303, 505
BseMII CTCAG 1 cut(s) 159
BseNI ACTGG 2 cut(s) 553, 815
BseSI GKGCMC 1 cut(s) 154
BseXI GCAGC 3 cut(s) 148, 448, 756
BsgI GTGCAG 2 cut(s) 26, 330
Bsh1236I CGCG 1 cut(s) 62
BshFI GGCC 2 cut(s) 524, 846
BsiHKAI GWGCWC 1 cut(s) 154
BsiSI CCGG 1 cut(s) 847
BslFI GGGAC 2 cut(s) 55, 565
BslI CCNNNNNNNGG 2 cut(s) 740, 836
BsmAI GTCTC 3 cut(s) 307, 399, 568
BsmFI GGGAC 2 cut(s) 55, 565
BsmI GAATGC 2 cut(s) 624, 652
BsnI GGCC 2 cut(s) 524, 846
Bsp1286I GDGCHC 1 cut(s) 154
Bsp143I GATC 1 cut(s) 198
BspACI CCGC 2 cut(s) 53, 836
BspANI GGCC 2 cut(s) 524, 846
BspCNI CTCAG 1 cut(s) 160
BspFNI CGCG 1 cut(s) 62
BspHI TCATGA 1 cut(s) 144
BspPI GGATC 1 cut(s) 193
BsrDI GCAATG 2 cut(s) 303, 505
BsrFI RCCGGY 1 cut(s) 846
BsrI ACTGG 2 cut(s) 553, 815
BssAI RCCGGY 1 cut(s) 846
BssMI GATC 1 cut(s) 198
Bst6I CTCTTC 2 cut(s) 750, 794
BstAPI GCANNNNNTGC 1 cut(s) 507
BstC8I GCNNGC 2 cut(s) 361, 848
BstDEI CTNAG 1 cut(s) 168
BstENI CCTNNNNNAGG 1 cut(s) 738
BstF5I GGATG 3 cut(s) 77, 453, 712
BstFNI CGCG 1 cut(s) 62
BstKTI GATC 1 cut(s) 201
BstMAI GTCTC 3 cut(s) 307, 399, 568
BstMBI GATC 1 cut(s) 198
BstMWI GCNNNNNNNGC 4 cut(s) 59, 158, 344, 507
BstNSI RCATGY 2 cut(s) 468, 776
BstSLI GKGCMC 1 cut(s) 154
BstUI CGCG 1 cut(s) 62
BstV1I GCAGC 3 cut(s) 148, 448, 756
BstX2I RGATCY 1 cut(s) 198
BstYI RGATCY 1 cut(s) 198
BsuRI GGCC 2 cut(s) 524, 846
BtrI CACGTC 1 cut(s) 642
BtsCI GGATG 3 cut(s) 77, 453, 712
Cac8I GCNNGC 2 cut(s) 361, 848
CciI TCATGA 1 cut(s) 144
Cfr10I RCCGGY 1 cut(s) 846
Csp6I GTAC 3 cut(s) 58, 812, 818
CspCI CAANNNNNGTGG 2 cut(s) 415, 450
CviAII CATG 9 cut(s) 145, 265, 432, 465, 568, 689, 773, 781, 851
CviJI RGCY 5 cut(s) 161, 475, 524, 769, 846
CviKI_1 RGCY 5 cut(s) 161, 475, 524, 769, 846
CviQI GTAC 3 cut(s) 58, 812, 818
DdeI CTNAG 1 cut(s) 168
DpnI GATC 1 cut(s) 200
DpnII GATC 1 cut(s) 198
Eam1104I CTCTTC 2 cut(s) 750, 794
EarI CTCTTC 2 cut(s) 750, 794
Eco57I CTGAAG 1 cut(s) 402
EcoNI CCTNNNNNAGG 1 cut(s) 738
EcoT22I ATGCAT 1 cut(s) 664
FaeI CATG 9 cut(s) 148, 268, 435, 468, 571, 692, 776, 784, 854
FaqI GGGAC 2 cut(s) 55, 565
FatI CATG 9 cut(s) 144, 264, 431, 464, 567, 688, 772, 780, 850
FauI CCCGC 2 cut(s) 46, 829
FblI GTMKAC 1 cut(s) 684
Fnu4HI GCNGC 3 cut(s) 162, 462, 770
FokI GGATG 3 cut(s) 84, 440, 719
Fsp4HI GCNGC 3 cut(s) 162, 462, 770
FspBI CTAG 1 cut(s) 560
GluI GCNGC 3 cut(s) 162, 462, 770
HaeIII GGCC 2 cut(s) 524, 846
HapII CCGG 1 cut(s) 847
Hin1II CATG 9 cut(s) 148, 268, 435, 468, 571, 692, 776, 784, 854
HinfI GANTC 3 cut(s) 230, 533, 585
HpaII CCGG 1 cut(s) 847
HphI GGTGA 3 cut(s) 26, 689, 808
Hpy166II GTNNAC 3 cut(s) 152, 685, 778
Hpy188I TCNGA 3 cut(s) 235, 486, 538
Hpy188III TCNNGA 4 cut(s) 145, 380, 404, 723
Hpy8I GTNNAC 3 cut(s) 152, 685, 778
HpyAV CCTTC 3 cut(s) 286, 754, 778
HpyCH4IV ACGT 1 cut(s) 641
HpyF10VI GCNNNNNNNGC 4 cut(s) 59, 158, 344, 507
HpyF3I CTNAG 1 cut(s) 168
HpySE526I ACGT 1 cut(s) 641
Hsp92II CATG 9 cut(s) 148, 268, 435, 468, 571, 692, 776, 784, 854
KroI GCCGGC 1 cut(s) 846
KroNI GCCGGC 1 cut(s) 848
Kzo9I GATC 1 cut(s) 198
LmnI GCTCC 1 cut(s) 472
LpnPI CCDG 8 cut(s) 357, 393, 534, 609, 708, 726, 747, 828
Lsp1109I GCAGC 3 cut(s) 148, 448, 756
LweI GCATC 2 cut(s) 462, 727
MaeI CTAG 1 cut(s) 560
MaeII ACGT 1 cut(s) 641
MaeIII GTNAC 1 cut(s) 637
MalI GATC 1 cut(s) 200
MboI GATC 1 cut(s) 198
MboII GAAGA 2 cut(s) 767, 811
MfeI CAATTG 1 cut(s) 302
MflI RGATCY 1 cut(s) 198
MhlI GDGCHC 1 cut(s) 154
MluCI AATT 2 cut(s) 302, 488
MmeI TCCRAC 1 cut(s) 684
MnlI CCTC 5 cut(s) 76, 109, 186, 610, 831
Mph1103I ATGCAT 1 cut(s) 664
MroNI GCCGGC 1 cut(s) 846
MseI TTAA 1 cut(s) 519
MslI CAYNNNNRTG 2 cut(s) 207, 510
MspI CCGG 1 cut(s) 847
MunI CAATTG 1 cut(s) 302
Mva1269I GAATGC 2 cut(s) 624, 652
MvnI CGCG 1 cut(s) 62
MwoI GCNNNNNNNGC 4 cut(s) 59, 158, 344, 507
NaeI GCCGGC 1 cut(s) 848
NdeII GATC 1 cut(s) 198
NgoMIV GCCGGC 1 cut(s) 846
NlaIII CATG 9 cut(s) 148, 268, 435, 468, 571, 692, 776, 784, 854
NmuCI GTSAC 1 cut(s) 637
NsiI ATGCAT 1 cut(s) 664
NspI RCATGY 2 cut(s) 468, 776
PagI TCATGA 1 cut(s) 144
PctI GAATGC 2 cut(s) 624, 652
PdiI GCCGGC 1 cut(s) 848
PfeI GAWTC 3 cut(s) 230, 533, 585
PkrI GCNGC 3 cut(s) 163, 463, 771
PsiI TTATAA 1 cut(s) 656
PsuI RGATCY 1 cut(s) 198
RsaI GTAC 3 cut(s) 59, 813, 819
RsaNI GTAC 3 cut(s) 58, 812, 818
RseI CAYNNNNRTG 2 cut(s) 207, 510
SaqAI TTAA 1 cut(s) 519
SatI GCNGC 3 cut(s) 162, 462, 770
Sau3AI GATC 1 cut(s) 198
SduI GDGCHC 1 cut(s) 154
SfaNI GCATC 2 cut(s) 462, 727
SmiMI CAYNNNNRTG 2 cut(s) 207, 510
Sse9I AATT 2 cut(s) 302, 488
SsiI CCGC 2 cut(s) 53, 836
SspMI CTAG 1 cut(s) 560
TaiI ACGT 1 cut(s) 644
TaqI TCGA 3 cut(s) 228, 403, 602
TasI AATT 2 cut(s) 302, 488
TfiI GAWTC 3 cut(s) 230, 533, 585
Tru1I TTAA 1 cut(s) 519
Tru9I TTAA 1 cut(s) 519
TseFI GTSAC 1 cut(s) 637
TseI GCWGC 3 cut(s) 161, 461, 769
Tsp45I GTSAC 1 cut(s) 637
TspDTI ATGAA 4 cut(s) 143, 432, 468, 797
VneI GTGCAC 1 cut(s) 150
XagI CCTNNNNNAGG 1 cut(s) 738
XapI RAATTY 1 cut(s) 488
XceI RCATGY 2 cut(s) 468, 776
XmiI GTMKAC 1 cut(s) 684
XspI CTAG 1 cut(s) 560
Zsp2I ATGCAT 1 cut(s) 664
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.