Rh6DG246300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0012981
Physical Location & Seq
Reverse (-)
43311297 .. 43312388
1092 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG246300.1

Sequence Viewer

Length: 753 bp
ATGAGACCCTCTTCCGCACTTCAAACTGTCACCATCTTCAGCTCTCTACCCAAAACCTTAATAGGCTTTAATGCACAGCCACACTGTCAGTATCTGCAACTTTCAAAACCCAAGAGATGTTTACTGATAATAACAATGAGAGACAGAAGCAAGAACCCGAGGCCTTTGCAGAAGGGAAGGAATCTCAGCATCGAAGCCATTCAGACAATTCAAGCTTTGAAGAGAGCCAAGAAAAACGAGGGTCTTATGGAGCAAGTCTTCAATTCTAAGTTCAGGCGCTTATTGAAGCTCGACATGATGGCCGTGCTCAAAGACCTCCTCCGCCAAAATGAATGCTTCTTGGCCCTCAAGGTCTTTGAAGACATTAGAAAGGAGTACTGGTATAAGCCACAGGTTTTGCTTTATGCTGATATGATCAAGGTAATGGCTAGCAATGAATTGTTTGAACAAGTCGAAAATCTTTGCTTGTGCTTGAAACAGGAAACTAATTTACAGCCCGACATTGAGGGTTTTAACGCTCTCTTGACAGCATTATTAAGTTTTAACCTCCCTACACTTGCTATGGAGTGCTATTACTTGATGAAAGGCGTAGGGTGTGAACCAGATAGGTCATCATTTAGAATACTTATTAAAGGTCTAGAATCTGTGGGAGAGACAGGTCCCTTAGGTATTGTAAGGCAGGATGCTCAAAATTTGTATGGCGAGTCTCTGGAGTTTCTAGAGGAGGATGAAGAAATGGCAGTGAGTCAATGA
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_2 PPR_3

Protein Analysis

250

Amino Acids

28.68

Weight (kDa)

8.1

Isoelectric Point (pI)

45.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 166 - 213 1.5e-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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Publication-ready
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Orthologous Genes (Group: OG0012981)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G09315
fragaria_vesca FvH4_2g17040
malus_domestica MD10G1143100.v1.1
prunus_persica Prupe.8G182100_v2.0.a1 Prupe.8G182100_v2.0.a1
pyrus_communis pycom05g13780 pycom10g12300
rosa_chinensis RchiOBHm_Chr6g0281221
rosa_laevigata RLG00000012983
rosa_multiflora Rmu_sc0000847.1_g000051 Rmu_sc0027531.1_g000002
rosa_roxburghii Rroxscaffold_7G00187210
rosa_rugosa Rorug06G0139800
rosa_samantha Rh6AG251700 Rh6BG255000 Rh6CG254500 Rh6DG246300
rosa_wichuraiana Rw6G021860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 15, 322
AcoI YGGCCR 1 cut(s) 300
AcsI RAATTY 1 cut(s) 691
AcuI CTGAAG 1 cut(s) 22
AfaI GTAC 1 cut(s) 377
AgsI TTSAA 9 cut(s) 23, 105, 212, 220, 262, 286, 359, 446, 475
AluBI AGCT 3 cut(s) 42, 215, 289
AluI AGCT 3 cut(s) 42, 215, 289
Alw21I GWGCWC 1 cut(s) 309
Alw26I GTCTC 3 cut(s) 135, 647, 711
AlwNI CAGNNNCTG 1 cut(s) 94
Ama87I CYCGRG 1 cut(s) 157
AoxI GGCC 3 cut(s) 161, 300, 342
ApoI RAATTY 1 cut(s) 691
Asp700I GAANNNNTTC 1 cut(s) 198
AspLEI GCGC 1 cut(s) 279
AspS9I GGNCC 2 cut(s) 343, 659
AsuHPI GGTGA 1 cut(s) 22
AsuNHI GCTAGC 1 cut(s) 428
AvaI CYCGRG 1 cut(s) 157
AvaII GGWCC 1 cut(s) 659
AxyI CCTNAGG 1 cut(s) 664
BbsI GAAGAC 2 cut(s) 250, 366
Bbv12I GWGCWC 1 cut(s) 309
BccI CCATC 2 cut(s) 41, 292
BceAI ACGGC 1 cut(s) 287
BcgI CGANNNNNNTGC 2 cut(s) 148, 182
BclI TGATCA 1 cut(s) 414
BcoDI GTCTC 3 cut(s) 135, 647, 711
BfaI CTAG 3 cut(s) 429, 638, 719
BfoI RGCGCY 1 cut(s) 280
BmcAI AGTACT 1 cut(s) 377
Bme18I GGWCC 1 cut(s) 659
BmeT110I CYCGRG 1 cut(s) 157
BmgT120I GGNCC 2 cut(s) 343, 659
BmiI GGNNCC 1 cut(s) 661
BmsI GCATC 2 cut(s) 198, 673
BmtI GCTAGC 1 cut(s) 432
BpiI GAAGAC 2 cut(s) 250, 366
BpmI CTGGAG 1 cut(s) 731
BpuEI CTTGAG 1 cut(s) 332
BsaJI CCNNGG 1 cut(s) 158
BsaXI ACNNNNNCTCC 2 cut(s) 365, 395
Bse1I ACTGG 1 cut(s) 383
Bse21I CCTNAGG 1 cut(s) 664
Bse3DI GCAATG 1 cut(s) 439
BseDI CCNNGG 1 cut(s) 158
BseGI GGATG 2 cut(s) 688, 733
BseMI GCAATG 1 cut(s) 439
BseMII CTCAG 1 cut(s) 199
BseNI ACTGG 1 cut(s) 383
BseRI GAGGAG 2 cut(s) 308, 737
BshFI GGCC 3 cut(s) 163, 302, 344
BsiHKAI GWGCWC 1 cut(s) 309
BsiHKCI CYCGRG 1 cut(s) 157
BslFI GGGAC 1 cut(s) 645
BsmAI GTCTC 3 cut(s) 135, 647, 711
BsmFI GGGAC 1 cut(s) 645
BsmI GAATGC 1 cut(s) 338
BsnI GGCC 3 cut(s) 163, 302, 344
BsoBI CYCGRG 1 cut(s) 157
Bsp1286I GDGCHC 1 cut(s) 309
Bsp143I GATC 1 cut(s) 414
BspACI CCGC 2 cut(s) 15, 322
BspANI GGCC 3 cut(s) 163, 302, 344
BspCNI CTCAG 1 cut(s) 198
BspLI GGNNCC 1 cut(s) 661
BspOI GCTAGC 1 cut(s) 432
BsrDI GCAATG 1 cut(s) 439
BsrI ACTGG 1 cut(s) 383
BssECI CCNNGG 1 cut(s) 158
BssMI GATC 1 cut(s) 414
Bst4CI ACNGT 2 cut(s) 28, 86
Bst6I CTCTTC 2 cut(s) 16, 215
BstC8I GCNNGC 1 cut(s) 430
BstDEI CTNAG 3 cut(s) 185, 267, 664
BstF5I GGATG 2 cut(s) 688, 733
BstH2I RGCGCY 1 cut(s) 280
BstHHI GCGC 1 cut(s) 279
BstKTI GATC 1 cut(s) 417
BstMAI GTCTC 3 cut(s) 135, 647, 711
BstMBI GATC 1 cut(s) 414
BstV2I GAAGAC 2 cut(s) 250, 366
Bsu36I CCTNAGG 1 cut(s) 664
BsuRI GGCC 3 cut(s) 163, 302, 344
BtsCI GGATG 2 cut(s) 688, 733
BtsI GCAGTG 1 cut(s) 747
BtsIMutI CAGTG 2 cut(s) 82, 747
Cac8I GCNNGC 1 cut(s) 430
CaiI CAGNNNCTG 1 cut(s) 94
CfoI GCGC 1 cut(s) 279
Cfr13I GGNCC 2 cut(s) 343, 659
Csp6I GTAC 1 cut(s) 376
CspCI CAANNNNNGTGG 2 cut(s) 378, 413
CviAII CATG 1 cut(s) 295
CviQI GTAC 1 cut(s) 376
DdeI CTNAG 3 cut(s) 185, 267, 664
DpnI GATC 1 cut(s) 416
DpnII GATC 1 cut(s) 414
EaeI YGGCCR 1 cut(s) 300
Eam1104I CTCTTC 2 cut(s) 16, 215
EarI CTCTTC 2 cut(s) 16, 215
EciI GGCGGA 1 cut(s) 311
Eco147I AGGCCT 1 cut(s) 163
Eco47I GGWCC 1 cut(s) 659
Eco57I CTGAAG 1 cut(s) 22
Eco81I CCTNAGG 1 cut(s) 664
Eco88I CYCGRG 1 cut(s) 157
EcoO109I RGGNCCY 1 cut(s) 659
FaeI CATG 1 cut(s) 298
FaiI YATR 7 cut(s) 248, 296, 384, 405, 413, 563, 699
FaqI GGGAC 1 cut(s) 645
FatI CATG 1 cut(s) 294
FbaI TGATCA 1 cut(s) 414
FokI GGATG 2 cut(s) 695, 740
FspBI CTAG 3 cut(s) 429, 638, 719
GlaI GCGC 1 cut(s) 278
GsuI CTGGAG 1 cut(s) 731
HaeII RGCGCY 1 cut(s) 280
HaeIII GGCC 3 cut(s) 163, 302, 344
HhaI GCGC 1 cut(s) 279
Hin1II CATG 1 cut(s) 298
Hin6I GCGC 1 cut(s) 277
HinP1I GCGC 1 cut(s) 277
HindIII AAGCTT 1 cut(s) 213
HinfI GANTC 4 cut(s) 181, 641, 704, 745
HphI GGTGA 1 cut(s) 22
Hpy166II GTNNAC 2 cut(s) 122, 599
Hpy188I TCNGA 1 cut(s) 204
Hpy188III TCNNGA 4 cut(s) 523, 638, 710, 719
Hpy8I GTNNAC 2 cut(s) 122, 599
HpyAV CCTTC 2 cut(s) 166, 171
HpyCH4III ACNGT 2 cut(s) 28, 86
HpyCH4V TGCA 3 cut(s) 74, 97, 169
HpyF3I CTNAG 3 cut(s) 185, 267, 664
Hsp92II CATG 1 cut(s) 298
HspAI GCGC 1 cut(s) 277
Ksp22I TGATCA 1 cut(s) 414
Kzo9I GATC 1 cut(s) 414
LmnI GCTCC 1 cut(s) 250
LpnPI CCDG 8 cut(s) 259, 364, 377, 464, 615, 642, 665, 695
LweI GCATC 2 cut(s) 198, 673
MaeI CTAG 3 cut(s) 429, 638, 719
MaeIII GTNAC 1 cut(s) 28
MalI GATC 1 cut(s) 416
MboI GATC 1 cut(s) 414
MboII GAAGA 6 cut(s) 3, 28, 232, 250, 371, 743
MhlI GDGCHC 1 cut(s) 309
MluCI AATT 5 cut(s) 207, 262, 437, 487, 691
MlyI GAGTC 1 cut(s) 713
MroXI GAANNNNTTC 1 cut(s) 198
MseI TTAA 6 cut(s) 59, 69, 513, 536, 543, 630
Mva1269I GAATGC 1 cut(s) 338
NdeII GATC 1 cut(s) 414
NheI GCTAGC 1 cut(s) 428
NlaIII CATG 1 cut(s) 298
NlaIV GGNNCC 1 cut(s) 661
NmuCI GTSAC 1 cut(s) 28
PceI AGGCCT 1 cut(s) 163
PctI GAATGC 1 cut(s) 338
PdmI GAANNNNTTC 1 cut(s) 198
PfeI GAWTC 2 cut(s) 181, 641
PleI GAGTC 1 cut(s) 712
PpsI GAGTC 1 cut(s) 712
PpuMI RGGWCCY 1 cut(s) 659
Psp5II RGGWCCY 1 cut(s) 659
PspN4I GGNNCC 1 cut(s) 661
PspPI GGNCC 2 cut(s) 343, 659
PspPPI RGGWCCY 1 cut(s) 659
PstNI CAGNNNCTG 1 cut(s) 94
RsaI GTAC 1 cut(s) 377
RsaNI GTAC 1 cut(s) 376
SaqAI TTAA 6 cut(s) 59, 69, 513, 536, 543, 630
Sau3AI GATC 1 cut(s) 414
Sau96I GGNCC 2 cut(s) 343, 659
ScaI AGTACT 1 cut(s) 377
SchI GAGTC 1 cut(s) 713
SduI GDGCHC 1 cut(s) 309
SfaNI GCATC 2 cut(s) 198, 673
SinI GGWCC 1 cut(s) 659
SmlI CTYRAG 1 cut(s) 347
SmoI CTYRAG 1 cut(s) 347
Sse9I AATT 5 cut(s) 207, 262, 437, 487, 691
SseBI AGGCCT 1 cut(s) 163
SsiI CCGC 2 cut(s) 15, 322
SspMI CTAG 3 cut(s) 429, 638, 719
StuI AGGCCT 1 cut(s) 163
TaaI ACNGT 2 cut(s) 28, 86
TaqI TCGA 3 cut(s) 192, 291, 453
TasI AATT 5 cut(s) 207, 262, 437, 487, 691
TatI WGTACW 1 cut(s) 375
TfiI GAWTC 2 cut(s) 181, 641
Tru1I TTAA 6 cut(s) 59, 69, 513, 536, 543, 630
Tru9I TTAA 6 cut(s) 59, 69, 513, 536, 543, 630
TscAI CASTG 2 cut(s) 89, 747
TseFI GTSAC 1 cut(s) 28
Tsp45I GTSAC 1 cut(s) 28
TspDTI ATGAA 4 cut(s) 345, 450, 596, 744
TspRI CASTG 2 cut(s) 89, 747
VpaK11BI GGWCC 1 cut(s) 659
XapI RAATTY 1 cut(s) 691
XbaI TCTAGA 2 cut(s) 637, 718
XmnI GAANNNNTTC 1 cut(s) 198
XspI CTAG 3 cut(s) 429, 638, 719
ZrmI AGTACT 1 cut(s) 377
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.