Rroxscaffold_5G00360330

Protein BPS1, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000372
Physical Location & Seq
Forward (+)
40756131 .. 40756508
378 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_5G00360330.1

Sequence Viewer

Length: 378 bp
ATGAGTCGTCCACGGGTCCCGCATCGACCTTTCTTCTATTTTGGAAATCCTTTCCGGATGATTTCGCCGAAGGGTTCTCAAATGACTCCGAACCTTTCTGCACTGCTGAACACTTTTGAGGAAACATTGGCTGGGAGGTTGAGAAAGCTCAACCCAAAAGATAACAATGATGTCCTTAGCTTATCATGGATGAAATTGGCAATGGAGTCGCTTTGTGGAACCAAGGAGCTTTTGGATGAAATGAAGAGCTTTGGTATCAAACCAGATATAGTTGTCTACACTACTTTAATTGATTGCTACTGTAGGACCGGGAGAGTTGACGAAGCAATAGAGTTGCTCAAAGAGATGAAAGAAAGACGGTGCAAAGCGATCTTGTGA

Protein Analysis

125

Amino Acids

14.42

Weight (kDa)

9.16

Isoelectric Point (pI)

36.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 77 - 122 2e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 85 - 117 4.6e-16 PPR repeat
PPR_2 PF13041 88 - 122 1e-12 PPR repeat family
PPR PF01535 91 - 121 3.6e-12 PPR repeat
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: OG0000372)

Species Orthologous Gene IDs
pyrus_communis pycom04g09000
rosa_chinensis RchiOBHm_Chr1g0319921 RchiOBHm_Chr2g0124671 RchiOBHm_Chr3g0488631 RchiOBHm_Chr3g0495191 RchiOBHm_Chr5g0067451 RchiOBHm_Chr6g0269581 RchiOBHm_Chr7g0210411 RchiOBHm_Chr7g0212341 RchiOBHm_Chr7g0214191
rosa_laevigata RLG00000003882 RLG00000008030 RLG00000011591 RLG00000016235 RLG00000018631 RLG00000031951 RLG00000032135 RLG00000032548 RLG00000033239
rosa_multiflora Rmu_sc0000281.1_g000015 Rmu_sc0000516.1_g000020 Rmu_sc0000816.1_g000025 Rmu_sc0001850.1_g000002 Rmu_sc0003260.1_g000025 Rmu_sc0007581.1_g000007 Rmu_sc0009241.1_g000001
rosa_roxburghii Rroxscaffold_3G00218290 Rroxscaffold_3G00240930 Rroxscaffold_4G00300430 Rroxscaffold_5G00334810 Rroxscaffold_5G00360330 Rroxscaffold_7G00180190 Rroxscaffold_7G00192890
rosa_rugosa Rorug01G0357800 Rorug01G0357900 Rorug03G0350400 Rorug05G0174000 Rorug05G0231100 Rorug05G0231100 Rorug05G0231200 Rorug05G0231200 Rorug05G0577100 Rorug07G0029800 Rorug07G0029900 Rorug07G0146200
rosa_samantha Rh1AG039300 Rh1AG155100 Rh1AG173000 Rh1AG200900 Rh1AG276400 Rh1BG055400 Rh1BG111700 Rh1CG081000 Rh1CG161100 Rh1CG161200 Rh1CG247000 Rh1CG264000 Rh1DG031600 Rh1DG163400 Rh2AG236000 Rh2AG236100 Rh2AG277400 Rh2AG277500 Rh2AG309700 Rh2AG339600 Rh2BG221000 Rh2DG243300 Rh2DG243400 Rh2DG267900 Rh2DG434000 Rh3AG280300 Rh3AG288700 Rh3CG224100 Rh4AG043200 Rh4AG260400 Rh4BG266100 Rh4CG071300 Rh4DG155900 Rh5AG213100 Rh5AG238500 Rh5AG238600 Rh5AG296300 Rh5AG463800 Rh5CG236400 Rh5CG269500 Rh5CG269600 Rh5DG131600 Rh6AG074700 Rh6AG077500 Rh6AG093000 Rh6AG286000 Rh6CG246600 Rh7AG171100 Rh7AG303600 Rh7AG389400 Rh7AG390000 Rh7AG446200 Rh7CG251500 Rh7CG408700 Rh7DG385600
rosa_wichuraiana Rw0G014360 Rw0G015950 Rw2G017860 Rw2G027110 Rw4G037790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 276
AccIII TCCGGA 1 cut(s) 54
AciI CCGC 1 cut(s) 20
AluBI AGCT 4 cut(s) 148, 180, 229, 249
AluI AGCT 4 cut(s) 148, 180, 229, 249
Aor13HI TCCGGA 1 cut(s) 54
AspS9I GGNCC 2 cut(s) 16, 306
AsuC2I CCSGG 1 cut(s) 310
AvaII GGWCC 2 cut(s) 16, 306
BcgI CGANNNNNNTGC 2 cut(s) 189, 223
BcnI CCSGG 1 cut(s) 310
BfmI CTRYAG 1 cut(s) 301
Bme1390I CCNGG 1 cut(s) 310
Bme18I GGWCC 2 cut(s) 16, 306
BmgT120I GGNCC 2 cut(s) 16, 306
BmiI GGNNCC 3 cut(s) 17, 18, 220
BmrFI CCNGG 1 cut(s) 310
BmsI GCATC 1 cut(s) 31
Bpu10I CCTNAGC 1 cut(s) 176
BpuMI CCSGG 1 cut(s) 310
BsaJI CCNNGG 2 cut(s) 11, 222
BsaWI WCCGGW 1 cut(s) 54
Bse3DI GCAATG 1 cut(s) 207
BseAI TCCGGA 1 cut(s) 54
BseDI CCNNGG 2 cut(s) 11, 222
BseGI GGATG 3 cut(s) 63, 195, 241
BseMI GCAATG 1 cut(s) 207
BseYI CCCAGC 1 cut(s) 131
BsgI GTGCAG 1 cut(s) 84
BsiSI CCGG 2 cut(s) 55, 309
BslFI GGGAC 1 cut(s) 2
BsmFI GGGAC 1 cut(s) 2
Bsp13I TCCGGA 1 cut(s) 54
Bsp143I GATC 1 cut(s) 369
BspACI CCGC 1 cut(s) 20
BspEI TCCGGA 1 cut(s) 54
BspLI GGNNCC 3 cut(s) 17, 18, 220
BspQI GCTCTTC 1 cut(s) 239
BsrDI GCAATG 1 cut(s) 207
BssECI CCNNGG 2 cut(s) 11, 222
BssMI GATC 1 cut(s) 369
BssT1I CCWWGG 1 cut(s) 222
Bst4CI ACNGT 2 cut(s) 302, 360
Bst6I CTCTTC 1 cut(s) 239
BstDEI CTNAG 1 cut(s) 176
BstDSI CCRYGG 1 cut(s) 11
BstF5I GGATG 3 cut(s) 63, 195, 241
BstKTI GATC 1 cut(s) 372
BstMBI GATC 1 cut(s) 369
BstSCI CCNGG 1 cut(s) 308
BstSFI CTRYAG 1 cut(s) 301
BtgI CCRYGG 1 cut(s) 11
BtsCI GGATG 3 cut(s) 63, 195, 241
BtsI GCAGTG 1 cut(s) 101
BtsIMutI CAGTG 1 cut(s) 101
Cfr13I GGNCC 2 cut(s) 16, 306
CviAII CATG 1 cut(s) 186
CviJI RGCY 5 cut(s) 131, 148, 180, 229, 249
CviKI_1 RGCY 5 cut(s) 131, 148, 180, 229, 249
DdeI CTNAG 1 cut(s) 176
DpnI GATC 1 cut(s) 371
DpnII GATC 1 cut(s) 369
Eam1104I CTCTTC 1 cut(s) 239
EarI CTCTTC 1 cut(s) 239
Eco130I CCWWGG 1 cut(s) 222
Eco47I GGWCC 2 cut(s) 16, 306
EcoO109I RGGNCCY 1 cut(s) 16
EcoT14I CCWWGG 1 cut(s) 222
ErhI CCWWGG 1 cut(s) 222
FaeI CATG 1 cut(s) 189
FaiI YATR 2 cut(s) 187, 269
FaqI GGGAC 1 cut(s) 2
FatI CATG 1 cut(s) 185
FauI CCCGC 1 cut(s) 27
FblI GTMKAC 1 cut(s) 276
FokI GGATG 3 cut(s) 70, 202, 248
GsaI CCCAGC 1 cut(s) 135
HapII CCGG 2 cut(s) 55, 309
Hin1II CATG 1 cut(s) 189
HincII GTYRAC 1 cut(s) 319
HindII GTYRAC 1 cut(s) 319
HinfI GANTC 3 cut(s) 4, 85, 206
HpaII CCGG 2 cut(s) 55, 309
Hpy166II GTNNAC 3 cut(s) 11, 277, 319
Hpy188I TCNGA 1 cut(s) 90
Hpy188III TCNNGA 1 cut(s) 55
Hpy8I GTNNAC 3 cut(s) 11, 277, 319
HpyAV CCTTC 1 cut(s) 64
HpyCH4III ACNGT 2 cut(s) 302, 360
HpyCH4V TGCA 2 cut(s) 101, 363
HpyF3I CTNAG 1 cut(s) 176
Hsp92II CATG 1 cut(s) 189
KflI GGGWCCC 1 cut(s) 16
Kpn2I TCCGGA 1 cut(s) 54
Kzo9I GATC 1 cut(s) 369
LguI GCTCTTC 1 cut(s) 239
LmnI GCTCC 1 cut(s) 226
LpnPI CCDG 4 cut(s) 68, 117, 276, 322
LweI GCATC 1 cut(s) 31
MalI GATC 1 cut(s) 371
MboI GATC 1 cut(s) 369
MboII GAAGA 2 cut(s) 25, 256
MluCI AATT 2 cut(s) 194, 288
MlyI GAGTC 3 cut(s) 13, 79, 215
MnlI CCTC 2 cut(s) 112, 129
MroI TCCGGA 1 cut(s) 54
MseI TTAA 1 cut(s) 287
MspI CCGG 2 cut(s) 55, 309
MspR9I CCNGG 1 cut(s) 310
NciI CCSGG 1 cut(s) 310
NdeII GATC 1 cut(s) 369
NlaIII CATG 1 cut(s) 189
NlaIV GGNNCC 3 cut(s) 17, 18, 220
PciSI GCTCTTC 1 cut(s) 239
PleI GAGTC 3 cut(s) 12, 79, 214
PpsI GAGTC 3 cut(s) 12, 79, 214
PpuMI RGGWCCY 1 cut(s) 16
Psp5II RGGWCCY 1 cut(s) 16
PspFI CCCAGC 1 cut(s) 131
PspN4I GGNNCC 3 cut(s) 17, 18, 220
PspPI GGNCC 2 cut(s) 16, 306
PspPPI RGGWCCY 1 cut(s) 16
SapI GCTCTTC 1 cut(s) 239
SaqAI TTAA 1 cut(s) 287
Sau3AI GATC 1 cut(s) 369
Sau96I GGNCC 2 cut(s) 16, 306
SchI GAGTC 3 cut(s) 13, 79, 215
ScrFI CCNGG 1 cut(s) 310
SetI ASST 7 cut(s) 31, 96, 140, 150, 182, 231, 251
SfaNI GCATC 1 cut(s) 31
SfcI CTRYAG 1 cut(s) 301
SinI GGWCC 2 cut(s) 16, 306
Sse9I AATT 2 cut(s) 194, 288
SsiI CCGC 1 cut(s) 20
StyD4I CCNGG 1 cut(s) 308
StyI CCWWGG 1 cut(s) 222
TaaI ACNGT 2 cut(s) 302, 360
TaqI TCGA 1 cut(s) 25
TasI AATT 2 cut(s) 194, 288
Tru1I TTAA 1 cut(s) 287
Tru9I TTAA 1 cut(s) 287
TscAI CASTG 1 cut(s) 108
TspDTI ATGAA 4 cut(s) 206, 252, 257, 362
TspRI CASTG 1 cut(s) 108
VpaK11BI GGWCC 2 cut(s) 16, 306
XcmI CCANNNNNNNNNTGG 1 cut(s) 229
XmiI GTMKAC 1 cut(s) 276
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.