Rroxscaffold_3G00225390

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000101
Physical Location & Seq
Reverse (-)
8659229 .. 8662739
3511 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00225390.1

Sequence Viewer

Length: 471 bp
ATGCTTGTAAAGATAATCTTGTTAATGCCAGGAAGTTATATGAATCTGCACCGAAAACTAGTGAACAAGATAGGAGCTTATGGCGACATAACCATCTCATATGAATCTGCACCGCCTACGAGCATAGCCAAATCAATGGCTGACACCCAAGTGAAGTTGACTAGTAAAGAAGAACTCAAGGAACATGGAATGAAGATTTTTAGAGATATGACCAAAGACTGTGAGGACAAGAAGTTGAGAAAACGATTTGACATGGTTGGAGACTACGACGCCCTCAATGCAAGTGCTATTCATCTTTTCAATTCTATGGCAGATTCCGGCTTCCTTGATGAAGCGAGAGAGCTTTTCAAGCCACTCGCCGATCAAGCCACGCTACCGGAAGTGTCGGTCTTCACCATGGCCATTGTGGTCTACGCCCGTGCCGGCAAGACTATGGATGCTCTCAAGGTCTACCAAAGACATGATATATAG
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

156

Amino Acids

17.58

Weight (kDa)

7.81

Isoelectric Point (pI)

24.16

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000101)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G28420
fragaria_vesca FvH4_3g36751 FvH4_4g16590 FvH4_4g16590 FvH4_4g16590 FvH4_5g05670 FvH4_5g05700 FvH4_5g31002 FvH4_5g31070 FvH4_5g31080 FvH4_5g31080 FvH4_5g31080 FvH4_5g31150 FvH4_5g32070 FvH4_5g32080 FvH4_5g34900 FvH4_5g34930 FvH4_5g34930 FvH4_5g34950 FvH4_5g35000 FvH4_5g35000 FvH4_5g35000 FvH4_5g35050 FvH4_5g35050 FvH4_5g35050 FvH4_5g35050 FvH4_5g35060 FvH4_5g35070 FvH4_5g35071 FvH4_5g35080 FvH4_5g35253 FvH4_5g35254 FvH4_5g35300 FvH4_5g35300 FvH4_5g35320 FvH4_5g35320 FvH4_5g35320 FvH4_5g35322 FvH4_5g35330 FvH4_6g08812 FvH4_7g08990 FvH4_7g08991
rosa_chinensis RchiOBHm_Chr0c11g0499321 RchiOBHm_Chr0c11g0499331 RchiOBHm_Chr0c11g0499401 RchiOBHm_Chr0c11g0499411 RchiOBHm_Chr0c11g0499461 RchiOBHm_Chr0c11g0499471 RchiOBHm_Chr0c11g0499481 RchiOBHm_Chr0c11g0499501 RchiOBHm_Chr0c11g0499511 RchiOBHm_Chr0c11g0499551 RchiOBHm_Chr1g0342791 RchiOBHm_Chr1g0342991 RchiOBHm_Chr4g0419921 RchiOBHm_Chr4g0420021 RchiOBHm_Chr7g0193131 RchiOBHm_Chr7g0218371 RchiOBHm_Chr7g0218381 RchiOBHm_Chr7g0235811 RchiOBHm_Chr7g0235841 RchiOBHm_Chr7g0235851 RchiOBHm_Chr7g0235871 RchiOBHm_Chr7g0235881 RchiOBHm_Chr7g0235901 RchiOBHm_Chr7g0235921 RchiOBHm_Chr7g0235931 RchiOBHm_Chr7g0235941 RchiOBHm_Chr7g0235971 RchiOBHm_Chr7g0235981 RchiOBHm_Chr7g0235991 RchiOBHm_Chr7g0236021 RchiOBHm_Chr7g0236031 RchiOBHm_Chr7g0236041 RchiOBHm_Chr7g0236051 RchiOBHm_Chr7g0236071 RchiOBHm_Chr7g0236101 RchiOBHm_Chr7g0236111 RchiOBHm_Chr7g0236191 RchiOBHm_Chr7g0236201 RchiOBHm_Chr7g0236231 RchiOBHm_Chr7g0236241 RchiOBHm_Chr7g0236331 RchiOBHm_Chr7g0236591 RchiOBHm_Chr7g0236621 RchiOBHm_Chr7g0236631
rosa_laevigata RLG00000000990 RLG00000000992 RLG00000001071 RLG00000001073 RLG00000001074 RLG00000001075 RLG00000001083 RLG00000001096 RLG00000001097 RLG00000001099 RLG00000001106 RLG00000001108 RLG00000001110 RLG00000001112 RLG00000001119 RLG00000001120 RLG00000001123 RLG00000001128 RLG00000001129 RLG00000001130 RLG00000001131 RLG00000001132 RLG00000001133 RLG00000001136 RLG00000001255 RLG00000001929 RLG00000001930 RLG00000001932 RLG00000001934 RLG00000001935 RLG00000001940 RLG00000001942 RLG00000002624 RLG00000004293 RLG00000004294 RLG00000007792 RLG00000030009 RLG00000030011 RLG00000030012 RLG00000030014
rosa_multiflora Rmu_co8114088.1_g000001 Rmu_co8163812.1_g000001 Rmu_co8175782.1_g000001 Rmu_co8217500.1_g000001 Rmu_co8230787.1_g000001 Rmu_co8372547.1_g000001 Rmu_co8409897.1_g000001 Rmu_sc0000755.1_g000001 Rmu_sc0000755.1_g000003 Rmu_sc0002449.1_g000024 Rmu_sc0002536.1_g000007 Rmu_sc0002536.1_g000008 Rmu_sc0002536.1_g000013 Rmu_sc0002536.1_g000014 Rmu_sc0002921.1_g000004 Rmu_sc0002921.1_g000005 Rmu_sc0002921.1_g000007 Rmu_sc0003339.1_g000004 Rmu_sc0003461.1_g000006 Rmu_sc0005998.1_g000001 Rmu_sc0008183.1_g000003 Rmu_sc0008183.1_g000007 Rmu_sc0008183.1_g000009 Rmu_sc0008183.1_g000010 Rmu_sc0008183.1_g000011 Rmu_sc0008183.1_g000020 Rmu_sc0008183.1_g000022 Rmu_sc0008183.1_g000026 Rmu_sc0008940.1_g000007 Rmu_sc0008941.1_g000001 Rmu_sc0008941.1_g000002 Rmu_sc0008941.1_g000004 Rmu_sc0008941.1_g000005 Rmu_sc0008941.1_g000006 Rmu_sc0011173.1_g000001 Rmu_sc0011173.1_g000002 Rmu_sc0011173.1_g000008 Rmu_sc0011173.1_g000009 Rmu_sc0011173.1_g000013 Rmu_sc0011290.1_g000002 Rmu_sc0012908.1_g000002 Rmu_sc0013209.1_g000003 Rmu_sc0025395.1_g000001 Rmu_sc0025941.1_g000001 Rmu_sc0029089.1_g000001 Rmu_sc0036318.1_g000001 Rmu_sc0040213.1_g000001 Rmu_ssc0000092.1_g000038
rosa_roxburghii Rroxscaffold_3G00225010 Rroxscaffold_3G00225220 Rroxscaffold_3G00225300 Rroxscaffold_3G00225310 Rroxscaffold_3G00225390 Rroxscaffold_3G00225400 Rroxscaffold_3G00225470 Rroxscaffold_3G00225500 Rroxscaffold_3G00225570 Rroxscaffold_3G00225580 Rroxscaffold_3G00225600 Rroxscaffold_3G00225610 Rroxscaffold_3G00262350 Rroxscaffold_4G00313250
rosa_rugosa Rorug01G0145100.1 Rorug01G0145200.1 Rorug01G0145300.1 Rorug01G0145500.1 Rorug04G0161500 Rorug04G0161600 Rorug07G0007900 Rorug07G0008000 Rorug07G0008000 Rorug07G0273500 Rorug07G0273900 Rorug07G0274000 Rorug07G0274000 Rorug07G0274200.1 Rorug07G0274300 Rorug07G0274400 Rorug07G0293100 Rorug07G0293200 Rorug07G0293300 Rorug07G0293400 Rorug07G0293700 Rorug07G0293800 Rorug07G0294000 Rorug07G0294200 Rorug07G0294700 Rorug07G0294700 Rorug07G0295000 Rorug07G0295100 Rorug07G0295200 Rorug07G0295400 Rorug07G0295400 Rorug07G0296100 Rorug07G0297900 Rorug07G0297900 Rorug07G0298000 Rorug07G0298100
rosa_samantha Rh1DG165000 Rh1DG165100 Rh1DG165200 Rh1DG165600 Rh1DG165700 Rh1DG165800 Rh4DG221500 Rh7DG134800 Rh7DG134900 Rh7DG436900 Rh7DG437100 Rh7DG437300 Rh7DG437400 Rh7DG437500 Rh7DG437700 Rh7DG437800 Rh7DG438200 Rh7DG439200 Rh7DG439300 Rh7DG440300
rosa_wichuraiana Rw0G019880 Rw0G020650 Rw0G020670 Rw1G013620 Rw1G013630 Rw4G019180 Rw7G011360 Rw7G011370 Rw7G037220 Rw7G037240 Rw7G037260 Rw7G037270 Rw7G037280 Rw7G037300 Rw7G037380 Rw7G037390 Rw7G037560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 411, 450
AciI CCGC 1 cut(s) 113
AcoI YGGCCR 1 cut(s) 399
AcyI GRCGYC 1 cut(s) 270
AgsI TTSAA 2 cut(s) 301, 349
AhlI ACTAGT 2 cut(s) 58, 161
AjnI CCWGG 1 cut(s) 28
AleI CACNNNNGTG 1 cut(s) 149
AluBI AGCT 2 cut(s) 77, 343
AluI AGCT 2 cut(s) 77, 343
Alw26I GTCTC 1 cut(s) 255
AoxI GGCC 1 cut(s) 399
AsuHPI GGTGA 1 cut(s) 385
BalI TGGCCA 1 cut(s) 401
BbsI GAAGAC 1 cut(s) 382
BccI CCATC 1 cut(s) 101
BciT130I CCWGG 1 cut(s) 30
BcoDI GTCTC 1 cut(s) 255
BcuI ACTAGT 2 cut(s) 58, 161
BfaI CTAG 2 cut(s) 59, 162
Bme1390I CCNGG 1 cut(s) 30
BmrFI CCNGG 1 cut(s) 30
BmsI GCATC 1 cut(s) 427
BpiI GAAGAC 1 cut(s) 382
BpuEI CTTGAG 2 cut(s) 161, 428
BsaHI GRCGYC 1 cut(s) 270
BsaJI CCNNGG 1 cut(s) 396
BsaWI WCCGGW 1 cut(s) 376
Bse118I RCCGGY 1 cut(s) 422
BseBI CCWGG 1 cut(s) 30
BseDI CCNNGG 1 cut(s) 396
BseGI GGATG 1 cut(s) 442
BsgI GTGCAG 2 cut(s) 32, 93
BshFI GGCC 1 cut(s) 401
BsiSI CCGG 3 cut(s) 318, 377, 423
BsmAI GTCTC 1 cut(s) 255
BsnI GGCC 1 cut(s) 401
Bsp143I GATC 1 cut(s) 361
Bsp19I CCATGG 1 cut(s) 396
BspACI CCGC 1 cut(s) 113
BspANI GGCC 1 cut(s) 401
BsrFI RCCGGY 1 cut(s) 422
BssAI RCCGGY 1 cut(s) 422
BssECI CCNNGG 1 cut(s) 396
BssMI GATC 1 cut(s) 361
BssNI GRCGYC 1 cut(s) 270
BssT1I CCWWGG 1 cut(s) 396
Bst2UI CCWGG 1 cut(s) 30
Bst4CI ACNGT 1 cut(s) 221
BstACI GRCGYC 1 cut(s) 270
BstC8I GCNNGC 1 cut(s) 424
BstDSI CCRYGG 1 cut(s) 396
BstF5I GGATG 1 cut(s) 442
BstKTI GATC 1 cut(s) 364
BstMAI GTCTC 1 cut(s) 255
BstMBI GATC 1 cut(s) 361
BstMWI GCNNNNNNNGC 3 cut(s) 278, 349, 365
BstNI CCWGG 1 cut(s) 30
BstSCI CCNGG 1 cut(s) 28
BstV2I GAAGAC 1 cut(s) 382
BstXI CCANNNNNNTGG 1 cut(s) 136
BsuRI GGCC 1 cut(s) 401
BtgI CCRYGG 1 cut(s) 396
BtsCI GGATG 1 cut(s) 442
Cac8I GCNNGC 1 cut(s) 424
Cfr10I RCCGGY 1 cut(s) 422
CseI GACGC 1 cut(s) 278
CviAII CATG 4 cut(s) 185, 253, 397, 461
CviJI RGCY 8 cut(s) 77, 128, 140, 321, 343, 352, 368, 401
CviKI_1 RGCY 8 cut(s) 77, 128, 140, 321, 343, 352, 368, 401
DpnI GATC 1 cut(s) 363
DpnII GATC 1 cut(s) 361
EaeI YGGCCR 1 cut(s) 399
Eco130I CCWWGG 1 cut(s) 396
EcoRII CCWGG 1 cut(s) 28
EcoT14I CCWWGG 1 cut(s) 396
ErhI CCWWGG 1 cut(s) 396
FaeI CATG 4 cut(s) 188, 256, 400, 464
FalI AAGNNNNNCTT 1 cut(s) 34
FatI CATG 4 cut(s) 184, 252, 396, 460
FauNDI CATATG 1 cut(s) 100
FblI GTMKAC 2 cut(s) 411, 450
FokI GGATG 1 cut(s) 449
FspBI CTAG 2 cut(s) 59, 162
HaeIII GGCC 1 cut(s) 401
HapII CCGG 3 cut(s) 318, 377, 423
HgaI GACGC 1 cut(s) 278
Hin1I GRCGYC 1 cut(s) 270
Hin1II CATG 4 cut(s) 188, 256, 400, 464
HincII GTYRAC 1 cut(s) 159
HindII GTYRAC 1 cut(s) 159
HinfI GANTC 3 cut(s) 43, 104, 314
HpaII CCGG 3 cut(s) 318, 377, 423
HphI GGTGA 1 cut(s) 385
Hpy166II GTNNAC 4 cut(s) 64, 159, 412, 451
Hpy8I GTNNAC 4 cut(s) 64, 159, 412, 451
Hpy99I CGWCG 1 cut(s) 272
HpyCH4III ACNGT 1 cut(s) 221
HpyCH4V TGCA 3 cut(s) 49, 110, 281
HpyF10VI GCNNNNNNNGC 3 cut(s) 278, 349, 365
Hsp92I GRCGYC 1 cut(s) 270
Hsp92II CATG 4 cut(s) 188, 256, 400, 464
KroI GCCGGC 1 cut(s) 422
KroNI GCCGGC 1 cut(s) 424
Kzo9I GATC 1 cut(s) 361
LmnI GCTCC 1 cut(s) 74
LpnPI CCDG 5 cut(s) 15, 42, 331, 390, 436
LweI GCATC 1 cut(s) 427
MaeI CTAG 2 cut(s) 59, 162
MalI GATC 1 cut(s) 363
MboI GATC 1 cut(s) 361
MboII GAAGA 3 cut(s) 182, 205, 382
MlsI TGGCCA 1 cut(s) 401
MluCI AATT 1 cut(s) 301
MluNI TGGCCA 1 cut(s) 401
MmeI TCCRAC 1 cut(s) 238
MnlI CCTC 2 cut(s) 217, 284
Mox20I TGGCCA 1 cut(s) 401
MroNI GCCGGC 1 cut(s) 422
MscI TGGCCA 1 cut(s) 401
MseI TTAA 1 cut(s) 23
MslI CAYNNNNRTG 1 cut(s) 149
Msp20I TGGCCA 1 cut(s) 401
MspI CCGG 3 cut(s) 318, 377, 423
MspR9I CCNGG 1 cut(s) 30
MvaI CCWGG 1 cut(s) 30
MwoI GCNNNNNNNGC 3 cut(s) 278, 349, 365
NaeI GCCGGC 1 cut(s) 424
NcoI CCATGG 1 cut(s) 396
NdeI CATATG 1 cut(s) 100
NdeII GATC 1 cut(s) 361
NgoMIV GCCGGC 1 cut(s) 422
NlaIII CATG 4 cut(s) 188, 256, 400, 464
OliI CACNNNNGTG 1 cut(s) 149
PdiI GCCGGC 1 cut(s) 424
PfeI GAWTC 3 cut(s) 43, 104, 314
Psp6I CCWGG 1 cut(s) 28
PspGI CCWGG 1 cut(s) 28
RseI CAYNNNNRTG 1 cut(s) 149
SaqAI TTAA 1 cut(s) 23
Sau3AI GATC 1 cut(s) 361
ScrFI CCNGG 1 cut(s) 30
SetI ASST 3 cut(s) 79, 345, 450
SfaNI GCATC 1 cut(s) 427
SmiMI CAYNNNNRTG 1 cut(s) 149
SmlI CTYRAG 2 cut(s) 176, 443
SmoI CTYRAG 2 cut(s) 176, 443
SpeI ACTAGT 2 cut(s) 58, 161
Sse9I AATT 1 cut(s) 301
SsiI CCGC 1 cut(s) 113
SspMI CTAG 2 cut(s) 59, 162
StyD4I CCNGG 1 cut(s) 28
StyI CCWWGG 1 cut(s) 396
TaaI ACNGT 1 cut(s) 221
TaqII GACCGA 1 cut(s) 376
TasI AATT 1 cut(s) 301
TfiI GAWTC 3 cut(s) 43, 104, 314
Tru1I TTAA 1 cut(s) 23
Tru9I TTAA 1 cut(s) 23
TspDTI ATGAA 5 cut(s) 56, 117, 206, 281, 345
XcmI CCANNNNNNNNNTGG 1 cut(s) 403
XmiI GTMKAC 2 cut(s) 411, 450
XspI CTAG 2 cut(s) 59, 162
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.