Rorug06G0107900

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000519
Physical Location & Seq
Reverse (-)
14649884 .. 14653375
3492 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0107900.1

Sequence Viewer

Length: 357 bp
ATGAATGCCCCAGACCGATATGAGCGATTTGTTGTCCCTGAAGGGACAAAAAAGGTGTCTTATGAGAGGGATACAAAGATCATAAATGCTGCATCGTTTACAATTGAGAGAGAGGATCACACTATTGGCAACATCCTTCGCATGCAGCTGCACCGGGATGAAAGTGTTTTATTTGCTGGCTACAAGCTTCCTCACCCACTTCAGTACAAGATCATTGTCAGGATTCACACAACCAGCCAGTCATCACCAATGCAGGCATATAACCAGGCTATTAATGATCTTGACAAGGAACTTGACCTTTTGAAGAGTAATTTTGAGGCTGAGGTAGCAAAGCATTCAATGCAAGTGGACTACTAG
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 PPR_3

Protein Analysis

118

Amino Acids

13.71

Weight (kDa)

6.19

Isoelectric Point (pI)

24.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_L_2 PF13656 31 - 103 1.8e-27 RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L PF01193 33 - 97 1.9e-07 RNA polymerase Rpb3/Rpb11 dimerisation domain
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: OG0000519)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g27751 FvH4_2g10620 FvH4_4g13701 FvH4_4g17370 FvH4_6g49051
pyrus_communis pycom11g18020
rosa_chinensis RchiOBHm_Chr1g0331041 RchiOBHm_Chr2g0088901 RchiOBHm_Chr2g0100641 RchiOBHm_Chr6g0281891
rosa_laevigata RLG00000011791 RLG00000028155 RLG00000035981
rosa_multiflora Rmu_co8368635.1_g000001 Rmu_co8370105.1_g000001 Rmu_sc0000850.1_g000010 Rmu_sc0001374.1_g000060 Rmu_sc0001654.1_g000024 Rmu_sc0001840.1_g000023 Rmu_sc0001900.1_g000032 Rmu_sc0002687.1_g000008 Rmu_sc0003133.1_g000026 Rmu_sc0003252.1_g000002 Rmu_sc0004206.1_g000011 Rmu_sc0004666.1_g000002 Rmu_sc0006255.1_g000004 Rmu_sc0006812.1_g000001 Rmu_sc0007025.1_g000012 Rmu_sc0007767.1_g000020 Rmu_sc0007833.1_g000004 Rmu_sc0007848.1_g000020 Rmu_sc0007883.1_g000010 Rmu_sc0008270.1_g000003 Rmu_sc0012097.1_g000011 Rmu_sc0014445.1_g000002 Rmu_sc0023292.1_g000001
rosa_roxburghii Rroxscaffold_1G00021670 Rroxscaffold_1G00027660 Rroxscaffold_1G00056090 Rroxscaffold_2G00111250 Rroxscaffold_2G00111320 Rroxscaffold_3G00248390 Rroxscaffold_6G00394880 Rroxscaffold_7G00192450
rosa_rugosa Rorug01G0071500 Rorug01G0183900 Rorug01G0242400 Rorug02G0045300 Rorug02G0051000 Rorug02G0061700 Rorug02G0091500 Rorug02G0091600 Rorug02G0091700 Rorug02G0091800 Rorug02G0284700 Rorug02G0335100 Rorug02G0336900 Rorug02G0405500.1 Rorug02G0498300 Rorug03G0173700 Rorug03G0228900 Rorug03G0256300 Rorug04G0014300 Rorug04G0130400 Rorug04G0138100 Rorug04G0138100 Rorug04G0150400.1 Rorug05G0000600 Rorug05G0160400 Rorug05G0165600 Rorug05G0378500 Rorug06G0072000 Rorug06G0107900 Rorug06G0268700 Rorug07G0015500 Rorug07G0266300 Rorug07G0274500
rosa_samantha Rh2AG439400 Rh2AG561100 Rh2DG459400 Rh3AG236100 Rh4BG212500 Rh6AG046300 Rh6BG073000 Rh7DG249100
rosa_wichuraiana Rw2G010910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 123
AcuI CTGAAG 2 cut(s) 60, 185
AfaI GTAC 1 cut(s) 206
AgsI TTSAA 2 cut(s) 304, 339
AjnI CCWGG 1 cut(s) 264
AluBI AGCT 2 cut(s) 148, 187
AluI AGCT 2 cut(s) 148, 187
AlwI GGATC 1 cut(s) 123
ApeKI GCWGC 3 cut(s) 89, 145, 148
ArsI GACNNNNNNTTYG 2 cut(s) 41, 73
AseI ATTAAT 1 cut(s) 273
AsuC2I CCSGG 1 cut(s) 155
AsuHPI GGTGA 2 cut(s) 185, 237
BbvCI CCTCAGC 1 cut(s) 321
BbvI GCAGC 3 cut(s) 76, 135, 157
BciT130I CCWGG 1 cut(s) 266
BciVI GTATCC 1 cut(s) 64
BcnI CCSGG 1 cut(s) 155
BfaI CTAG 1 cut(s) 355
BfuI GTATCC 1 cut(s) 64
BisI GCNGC 3 cut(s) 90, 146, 149
BlsI GCNGC 3 cut(s) 91, 147, 150
Bme1390I CCNGG 2 cut(s) 155, 266
BmrFI CCNGG 2 cut(s) 155, 266
BmsI GCATC 1 cut(s) 101
Bpu10I CCTNAGC 1 cut(s) 321
BpuMI CCSGG 1 cut(s) 155
Bse1I ACTGG 1 cut(s) 238
BseBI CCWGG 1 cut(s) 266
BseGI GGATG 2 cut(s) 132, 163
BseMII CTCAG 1 cut(s) 312
BseNI ACTGG 1 cut(s) 238
BseXI GCAGC 3 cut(s) 76, 135, 157
BsgI GTGCAG 1 cut(s) 134
BsiSI CCGG 1 cut(s) 154
BslFI GGGAC 2 cut(s) 20, 58
BsmFI GGGAC 2 cut(s) 20, 58
BsmI GAATGC 2 cut(s) 10, 334
Bsp143I GATC 4 cut(s) 78, 115, 210, 277
BspCNI CTCAG 1 cut(s) 313
BspPI GGATC 1 cut(s) 123
BsrI ACTGG 1 cut(s) 238
BssMI GATC 4 cut(s) 78, 115, 210, 277
Bst2UI CCWGG 1 cut(s) 266
Bst6I CTCTTC 1 cut(s) 299
BstAPI GCANNNNNTGC 1 cut(s) 340
BstC8I GCNNGC 3 cut(s) 143, 178, 255
BstDEI CTNAG 1 cut(s) 321
BstF5I GGATG 2 cut(s) 132, 163
BstKTI GATC 4 cut(s) 81, 118, 213, 280
BstMBI GATC 4 cut(s) 78, 115, 210, 277
BstMWI GCNNNNNNNGC 2 cut(s) 326, 340
BstNI CCWGG 1 cut(s) 266
BstNSI RCATGY 1 cut(s) 145
BstSCI CCNGG 2 cut(s) 153, 264
BstV1I GCAGC 3 cut(s) 76, 135, 157
BsuI GTATCC 1 cut(s) 64
BtsCI GGATG 2 cut(s) 132, 163
Cac8I GCNNGC 3 cut(s) 143, 178, 255
Csp6I GTAC 1 cut(s) 205
CspCI CAANNNNNGTGG 1 cut(s) 327
CviAII CATG 1 cut(s) 142
CviJI RGCY 6 cut(s) 148, 180, 187, 237, 269, 320
CviKI_1 RGCY 6 cut(s) 148, 180, 187, 237, 269, 320
CviQI GTAC 1 cut(s) 205
DdeI CTNAG 1 cut(s) 321
DpnI GATC 4 cut(s) 80, 117, 212, 279
DpnII GATC 4 cut(s) 78, 115, 210, 277
Eam1104I CTCTTC 1 cut(s) 299
EarI CTCTTC 1 cut(s) 299
Eco57I CTGAAG 2 cut(s) 60, 185
EcoRII CCWGG 1 cut(s) 264
FaeI CATG 1 cut(s) 145
FaiI YATR 6 cut(s) 21, 63, 83, 143, 259, 261
FaqI GGGAC 2 cut(s) 20, 58
FatI CATG 1 cut(s) 141
Fnu4HI GCNGC 3 cut(s) 90, 146, 149
FokI GGATG 2 cut(s) 119, 170
Fsp4HI GCNGC 3 cut(s) 90, 146, 149
FspBI CTAG 1 cut(s) 355
GluI GCNGC 3 cut(s) 90, 146, 149
HapII CCGG 1 cut(s) 154
Hin1II CATG 1 cut(s) 145
HindIII AAGCTT 1 cut(s) 185
HinfI GANTC 1 cut(s) 223
HpaII CCGG 1 cut(s) 154
HphI GGTGA 2 cut(s) 185, 237
Hpy166II GTNNAC 2 cut(s) 99, 349
Hpy188III TCNNGA 2 cut(s) 220, 281
Hpy8I GTNNAC 2 cut(s) 99, 349
HpyAV CCTTC 2 cut(s) 35, 146
HpyCH4V TGCA 5 cut(s) 92, 145, 151, 253, 343
HpyF10VI GCNNNNNNNGC 2 cut(s) 326, 340
HpyF3I CTNAG 1 cut(s) 321
Hsp92II CATG 1 cut(s) 145
Kzo9I GATC 4 cut(s) 78, 115, 210, 277
Lsp1109I GCAGC 3 cut(s) 76, 135, 157
LweI GCATC 1 cut(s) 101
MaeI CTAG 1 cut(s) 355
MalI GATC 4 cut(s) 80, 117, 212, 279
MboI GATC 4 cut(s) 78, 115, 210, 277
MboII GAAGA 1 cut(s) 316
MfeI CAATTG 1 cut(s) 102
MluCI AATT 2 cut(s) 102, 310
MnlI CCTC 5 cut(s) 60, 106, 201, 310, 316
MseI TTAA 1 cut(s) 273
MslI CAYNNNNRTG 1 cut(s) 156
MspA1I CMGCKG 1 cut(s) 148
MspI CCGG 1 cut(s) 154
MspR9I CCNGG 2 cut(s) 155, 266
MunI CAATTG 1 cut(s) 102
Mva1269I GAATGC 2 cut(s) 10, 334
MvaI CCWGG 1 cut(s) 266
MwoI GCNNNNNNNGC 2 cut(s) 326, 340
NciI CCSGG 1 cut(s) 155
NdeII GATC 4 cut(s) 78, 115, 210, 277
NlaIII CATG 1 cut(s) 145
NspI RCATGY 1 cut(s) 145
PaeI GCATGC 1 cut(s) 145
PctI GAATGC 2 cut(s) 10, 334
PfeI GAWTC 1 cut(s) 223
PkrI GCNGC 3 cut(s) 91, 147, 150
PshBI ATTAAT 1 cut(s) 273
Psp6I CCWGG 1 cut(s) 264
PspGI CCWGG 1 cut(s) 264
PvuII CAGCTG 1 cut(s) 148
RsaI GTAC 1 cut(s) 206
RsaNI GTAC 1 cut(s) 205
RseI CAYNNNNRTG 1 cut(s) 156
SaqAI TTAA 1 cut(s) 273
SatI GCNGC 3 cut(s) 90, 146, 149
Sau3AI GATC 4 cut(s) 78, 115, 210, 277
ScrFI CCNGG 2 cut(s) 155, 266
SetI ASST 5 cut(s) 57, 150, 189, 300, 327
SfaNI GCATC 1 cut(s) 101
SmiMI CAYNNNNRTG 1 cut(s) 156
SphI GCATGC 1 cut(s) 145
Sse9I AATT 2 cut(s) 102, 310
SspMI CTAG 1 cut(s) 355
StyD4I CCNGG 2 cut(s) 153, 264
TaqII GACCGA 1 cut(s) 30
TasI AATT 2 cut(s) 102, 310
TatI WGTACW 1 cut(s) 204
TfiI GAWTC 1 cut(s) 223
Tru1I TTAA 1 cut(s) 273
Tru9I TTAA 1 cut(s) 273
TseI GCWGC 3 cut(s) 89, 145, 148
TspDTI ATGAA 2 cut(s) 17, 174
VspI ATTAAT 1 cut(s) 273
XceI RCATGY 1 cut(s) 145
XspI CTAG 1 cut(s) 355
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.