Rorug04G0077100

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000591
Physical Location & Seq
Reverse (-)
11877405 .. 11878313
909 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0077100.1

Sequence Viewer

Length: 411 bp
ATGAATGTTCATTATGACCTTCAGTCCAAATGGATGGGTGGTCTTTGTAACTGTGGAGCAGATGCTACTACATGTTGCATAACATGCTTTCTTCCATGCATCACCTTTGGCCAAATTGCAGAAACTGTGGACGAAGGACGAACTTCATGCTTTGCCCAGAGCATAGTGTATGGGTTGTTGATGACAGTTCAGTGCCATTGGCTGTACTCATGCTTGTATAGAGACAAATTGCGCAAGAAATTTGGTTTGGCTGAGGAGCCTTGTTGTGATTGTCTTGTTAACTTCTGCTGCGAGCCATGTGCCCTTTGCCAAGAGCATGCTGAGCTCAAATCAAGAGGCTTCAACCCCTCCAAAGGTTGGATTGGACCGCCAACTTCTACTCCACATATGCCTCCTTCCATGTTCAAATGA
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 PfkB TB2_DP1_HVA22

Protein Analysis

136

Amino Acids

15.18

Weight (kDa)

6.38

Isoelectric Point (pI)

45.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PLAC8 PF04749 11 - 108 1.8e-30 PLAC8 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000591)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G03566
fragaria_vesca FvH4_2g12622 FvH4_2g12642 FvH4_2g13902 FvH4_3g05011 FvH4_3g18961 FvH4_3g31940 FvH4_4g08421 FvH4_4g21351 FvH4_5g28071 FvH4_5g34871 FvH4_6g21812 FvH4_6g30441 FvH4_6g33631
rosa_chinensis RchiOBHm_Chr1g0320221 RchiOBHm_Chr1g0356521 RchiOBHm_Chr4g0389021 RchiOBHm_Chr5g0020651 RchiOBHm_Chr5g0027511
rosa_laevigata RLG00000002966 RLG00000019504
rosa_multiflora Rmu_co7963640.1_g000001 Rmu_co7988458.1_g000001 Rmu_co8109512.1_g000001 Rmu_co8136160.1_g000001 Rmu_co8253655.1_g000001 Rmu_sc0000388.1_g000040 Rmu_sc0000540.1_g000056 Rmu_sc0000574.1_g000013 Rmu_sc0000623.1_g000001 Rmu_sc0000795.1_g000005 Rmu_sc0000795.1_g000006 Rmu_sc0001063.1_g000001 Rmu_sc0002116.1_g000001 Rmu_sc0002192.1_g000012 Rmu_sc0002640.1_g000015 Rmu_sc0003337.1_g000039 Rmu_sc0004298.1_g000003 Rmu_sc0004771.1_g000001 Rmu_sc0006119.1_g000010 Rmu_sc0006633.1_g000007 Rmu_sc0007025.1_g000016 Rmu_sc0007221.1_g000002 Rmu_sc0007222.1_g000002 Rmu_sc0007806.1_g000016 Rmu_sc0008241.1_g000018 Rmu_sc0008348.1_g000001 Rmu_sc0009034.1_g000001 Rmu_sc0009955.1_g000004 Rmu_sc0018325.1_g000009 Rmu_sc0028328.1_g000002 Rmu_sc0030178.1_g000001 Rmu_sc0034381.1_g000001 Rmu_sc0041085.1_g000001 Rmu_sc0041085.1_g000002
rosa_roxburghii Rroxscaffold_3G00233230 Rroxscaffold_7G00193120 Rroxscaffold_7G00194820
rosa_rugosa Rorug01G0017000 Rorug01G0036400 Rorug01G0062600 Rorug01G0118500 Rorug02G0351500 Rorug02G0497600 Rorug03G0233200 Rorug03G0279500 Rorug03G0347600 Rorug04G0077100 Rorug04G0077200 Rorug04G0210900 Rorug05G0206900 Rorug07G0202900 Rorug07G0334000
rosa_samantha Rh2CG195700 Rh4DG035800
rosa_wichuraiana Rw0G005080 Rw0G013600 Rw2G020080 Rw2G024380 Rw5G002230 Rw5G036790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 233
AccB7I CCANNNNNTGG 1 cut(s) 357
AciI CCGC 1 cut(s) 368
AcoI YGGCCR 1 cut(s) 109
AcsI RAATTY 1 cut(s) 239
AcuI CTGAAG 1 cut(s) 5
AfaI GTAC 1 cut(s) 206
AfiI CCNNNNNNNGG 2 cut(s) 353, 357
AflIII ACRYGT 1 cut(s) 71
AgsI TTSAA 2 cut(s) 343, 406
AhdI GACNNNNNGTC 1 cut(s) 22
AjuI GAANNNNNNNTTGG 2 cut(s) 230, 262
AluBI AGCT 1 cut(s) 325
AluI AGCT 1 cut(s) 325
Alw21I GWGCWC 1 cut(s) 327
Alw26I GTCTC 1 cut(s) 216
AlwNI CAGNNNCTG 1 cut(s) 125
AoxI GGCC 1 cut(s) 109
ApeKI GCWGC 1 cut(s) 288
ApoI RAATTY 1 cut(s) 239
AspLEI GCGC 1 cut(s) 234
AspS9I GGNCC 1 cut(s) 365
AsuHPI GGTGA 1 cut(s) 94
AvaII GGWCC 1 cut(s) 365
BaeGI GKGCMC 1 cut(s) 304
BalI TGGCCA 1 cut(s) 111
BanII GRGCYC 1 cut(s) 327
Bbv12I GWGCWC 1 cut(s) 327
BbvCI CCTCAGC 1 cut(s) 252
BbvI GCAGC 1 cut(s) 275
BccI CCATC 1 cut(s) 28
BcgI CGANNNNNNTGC 4 cut(s) 129, 163, 281, 315
BcoDI GTCTC 1 cut(s) 216
BisI GCNGC 1 cut(s) 289
BlpI GCTNAGC 1 cut(s) 321
BlsI GCNGC 1 cut(s) 290
Bme18I GGWCC 1 cut(s) 365
BmeRI GACNNNNNGTC 1 cut(s) 22
BmgT120I GGNCC 1 cut(s) 365
BmiI GGNNCC 1 cut(s) 258
BmsI GCATC 2 cut(s) 52, 108
Bpu10I CCTNAGC 1 cut(s) 252
Bpu1102I GCTNAGC 1 cut(s) 321
BsaXI ACNNNNNCTCC 2 cut(s) 364, 394
Bsc4I CCNNNNNNNGG 2 cut(s) 353, 357
BseGI GGATG 1 cut(s) 39
BseLI CCNNNNNNNGG 2 cut(s) 353, 357
BseMII CTCAG 2 cut(s) 243, 312
BseRI GAGGAG 1 cut(s) 269
BseSI GKGCMC 1 cut(s) 304
BseXI GCAGC 1 cut(s) 275
BshFI GGCC 1 cut(s) 111
BsiHKAI GWGCWC 1 cut(s) 327
BslI CCNNNNNNNGG 2 cut(s) 353, 357
BsmAI GTCTC 1 cut(s) 216
BsnI GGCC 1 cut(s) 111
Bsp1286I GDGCHC 2 cut(s) 304, 327
Bsp1720I GCTNAGC 1 cut(s) 321
BspACI CCGC 1 cut(s) 368
BspANI GGCC 1 cut(s) 111
BspCNI CTCAG 2 cut(s) 244, 313
BspLI GGNNCC 1 cut(s) 258
Bst4CI ACNGT 3 cut(s) 53, 127, 187
BstAPI GCANNNNNTGC 1 cut(s) 84
BstC8I GCNNGC 2 cut(s) 293, 318
BstDEI CTNAG 2 cut(s) 252, 321
BstF5I GGATG 1 cut(s) 39
BstHHI GCGC 1 cut(s) 234
BstMAI GTCTC 1 cut(s) 216
BstMWI GCNNNNNNNGC 2 cut(s) 84, 322
BstNSI RCATGY 3 cut(s) 75, 87, 320
BstSLI GKGCMC 1 cut(s) 304
BstV1I GCAGC 1 cut(s) 275
BstXI CCANNNNNNTGG 1 cut(s) 34
BsuRI GGCC 1 cut(s) 111
BtsCI GGATG 1 cut(s) 39
BtsIMutI CAGTG 1 cut(s) 197
Cac8I GCNNGC 2 cut(s) 293, 318
CaiI CAGNNNCTG 1 cut(s) 125
CfoI GCGC 1 cut(s) 234
Cfr13I GGNCC 1 cut(s) 365
Csp6I GTAC 1 cut(s) 205
CviAII CATG 8 cut(s) 72, 84, 96, 147, 210, 297, 317, 400
CviJI RGCY 7 cut(s) 111, 202, 251, 259, 295, 325, 339
CviKI_1 RGCY 7 cut(s) 111, 202, 251, 259, 295, 325, 339
CviQI GTAC 1 cut(s) 205
DdeI CTNAG 2 cut(s) 252, 321
DriI GACNNNNNGTC 1 cut(s) 22
EaeI YGGCCR 1 cut(s) 109
Eam1105I GACNNNNNGTC 1 cut(s) 22
Ecl136II GAGCTC 1 cut(s) 325
Eco24I GRGCYC 1 cut(s) 327
Eco47I GGWCC 1 cut(s) 365
Eco53kI GAGCTC 1 cut(s) 325
Eco57I CTGAAG 1 cut(s) 5
EcoICRI GAGCTC 1 cut(s) 325
EcoT22I ATGCAT 1 cut(s) 101
EcoT38I GRGCYC 1 cut(s) 327
FaeI CATG 8 cut(s) 75, 87, 99, 150, 213, 300, 320, 403
FatI CATG 8 cut(s) 71, 83, 95, 146, 209, 296, 316, 399
FauNDI CATATG 1 cut(s) 387
Fnu4HI GCNGC 1 cut(s) 289
FokI GGATG 1 cut(s) 46
FriOI GRGCYC 1 cut(s) 327
Fsp4HI GCNGC 1 cut(s) 289
FspI TGCGCA 1 cut(s) 233
GlaI GCGC 1 cut(s) 233
GluI GCNGC 1 cut(s) 289
HaeIII GGCC 1 cut(s) 111
HhaI GCGC 1 cut(s) 234
Hin1II CATG 8 cut(s) 75, 87, 99, 150, 213, 300, 320, 403
Hin6I GCGC 1 cut(s) 232
HinP1I GCGC 1 cut(s) 232
HincII GTYRAC 1 cut(s) 280
HindII GTYRAC 1 cut(s) 280
HpaI GTTAAC 1 cut(s) 280
HphI GGTGA 1 cut(s) 94
Hpy166II GTNNAC 2 cut(s) 130, 280
Hpy188III TCNNGA 1 cut(s) 333
Hpy8I GTNNAC 2 cut(s) 130, 280
HpyAV CCTTC 3 cut(s) 29, 128, 405
HpyCH4III ACNGT 3 cut(s) 53, 127, 187
HpyCH4V TGCA 3 cut(s) 78, 99, 119
HpyF10VI GCNNNNNNNGC 2 cut(s) 84, 322
HpyF3I CTNAG 2 cut(s) 252, 321
Hsp92II CATG 8 cut(s) 75, 87, 99, 150, 213, 300, 320, 403
HspAI GCGC 1 cut(s) 232
KspAI GTTAAC 1 cut(s) 280
LmnI GCTCC 2 cut(s) 56, 256
LpnPI CCDG 1 cut(s) 170
Lsp1109I GCAGC 1 cut(s) 275
LweI GCATC 2 cut(s) 52, 108
MaeIII GTNAC 1 cut(s) 47
MboII GAAGA 1 cut(s) 83
MhlI GDGCHC 2 cut(s) 304, 327
MlsI TGGCCA 1 cut(s) 111
MluCI AATT 3 cut(s) 114, 227, 239
MluNI TGGCCA 1 cut(s) 111
MmeI TCCRAC 1 cut(s) 338
MnlI CCTC 4 cut(s) 247, 329, 358, 402
Mox20I TGGCCA 1 cut(s) 111
Mph1103I ATGCAT 1 cut(s) 101
MscI TGGCCA 1 cut(s) 111
MseI TTAA 1 cut(s) 279
Msp20I TGGCCA 1 cut(s) 111
MwoI GCNNNNNNNGC 2 cut(s) 84, 322
NdeI CATATG 1 cut(s) 387
NlaIII CATG 8 cut(s) 75, 87, 99, 150, 213, 300, 320, 403
NlaIV GGNNCC 1 cut(s) 258
NsbI TGCGCA 1 cut(s) 233
NsiI ATGCAT 1 cut(s) 101
NspI RCATGY 3 cut(s) 75, 87, 320
PaeI GCATGC 1 cut(s) 320
PciI ACATGT 1 cut(s) 71
PflMI CCANNNNNTGG 1 cut(s) 357
PkrI GCNGC 1 cut(s) 290
PscI ACATGT 1 cut(s) 71
Psp124BI GAGCTC 1 cut(s) 327
PspN4I GGNNCC 1 cut(s) 258
PspPI GGNCC 1 cut(s) 365
PstNI CAGNNNCTG 1 cut(s) 125
RsaI GTAC 1 cut(s) 206
RsaNI GTAC 1 cut(s) 205
SacI GAGCTC 1 cut(s) 327
SaqAI TTAA 1 cut(s) 279
SatI GCNGC 1 cut(s) 289
Sau96I GGNCC 1 cut(s) 365
SduI GDGCHC 2 cut(s) 304, 327
SetI ASST 4 cut(s) 21, 107, 327, 358
SfaNI GCATC 2 cut(s) 52, 108
SinI GGWCC 1 cut(s) 365
SphI GCATGC 1 cut(s) 320
Sse9I AATT 3 cut(s) 114, 227, 239
SsiI CCGC 1 cut(s) 368
SstI GAGCTC 1 cut(s) 327
TaaI ACNGT 3 cut(s) 53, 127, 187
TasI AATT 3 cut(s) 114, 227, 239
TatI WGTACW 1 cut(s) 204
Tru1I TTAA 1 cut(s) 279
Tru9I TTAA 1 cut(s) 279
TscAI CASTG 1 cut(s) 197
TseI GCWGC 1 cut(s) 288
TspDTI ATGAA 2 cut(s) 17, 135
TspRI CASTG 1 cut(s) 197
Van91I CCANNNNNTGG 1 cut(s) 357
VpaK11BI GGWCC 1 cut(s) 365
XapI RAATTY 1 cut(s) 239
XceI RCATGY 3 cut(s) 75, 87, 320
Zsp2I ATGCAT 1 cut(s) 101
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.