Rh1DG120400

Bacterial extracellular solute-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0011078
Physical Location & Seq
Forward (+)
21989999 .. 21994708
4710 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG120400.1

Sequence Viewer

Length: 1251 bp
ATGGCTACTGCTGCTGCTGCTCCATTGCTGCCGTCACGCATCTGGTTCCACTTGGATCCCTCATGTTCCCAATTCCAAAGCCCTAACCTTATTCCCTCCTTCCCTCTCCGCCGTCGCTCTAATCATACTCATAGCCTCACTCTCACACTCGTCTCTTCTGCCCACAATCTCACTCCGCCGGAGCCGCCGCCGCCGCCGCCTACTTCCACCACCGTCCCTTACACCTTGCTTCGGTTCGCCGCCTCCGCCGCCCTCCTTCTCGGGATTGGGCTCGGATGCTGCGTCGCCTCCGCCCGCTCTTCTCCTCTAGCCCAGCCTCTGCCGGCGCTACAGGATCAAGCTACGGATGATGACAATTTAGAAGCGGCGTTTGGAACTTGGAAGTCCAAGACATTCGCTTTGACTGTGCCCTTGACAGTTGCTGCTCTACGCGGCTCTGTACCTCCTTCATGGATTAAGGATTTTATGCAGTCTCAAGGAAAAAGATCAAAGCTTCAACTCAAGTCTCATGCAAGTCTCGAGAGCGTATTTTCGGATCTCTCAAGAGACTTCAGCAAAGGCGATGTTCGGCCTTCTTCTGTTGCGGCTGCTGATGTAGTTAGTATTGGGGACTCTTGGCTTAGTCATGCCATTAACAAGGGTCTAATTGAGCCAATTCAAGGGGTAGAAGACCAGGATTGGTATAAAGGATTGAGTGACAGATGGAAAGTATATCTACGCAGGAACTCTGAGGGGAGAATTGACCCTGATGGTAAAATATGGGCTGCTCCATATCGGTGGGGCTGCATGGTGATAGCATACAAAAAAACTAAATTTAGAAAGCATAACTTGGCTCCAATATCGGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGAAGGATTTCAATGGTTGATTCTTCTAGAGAGGTTATCGGTGCAGTTCTGAAGCATATGGGAACCTCCTACAACACACAAGATATCCATTTGCAAGTTGATGGTGGGAAAGATGCTGTAAGGCAAAATCTGGCTTTACTTGGAAAACAGGTCCGACTATTTGACAGTGTACACTATTTGAAAGCATTTGCGGTTGGAGATGTGTGGGTGGCTGTCGGGTGGAGCAGTGATGTTCTTCCTGTTGCCAAACGCATGTCTGATGTTGCAGTAATTGTTCCGAAATCTGGAACTAGTATATGGGCAGATATGTGGGTACGTTCTGCATCATGTTGTGTTACTGAGACATTGCTTTCTTCTCTTGCTTTCTTCTCCTAG

Protein Analysis

416

Amino Acids

45.5

Weight (kDa)

9.15

Isoelectric Point (pI)

54.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SBP_bac_1 PF01547 179 - 290 7.2e-06 Bacterial extracellular solute-binding protein
SBP_bac_8 PF13416 195 - 399 6.6e-17 Bacterial extracellular solute-binding protein
SBP_bac_11 PF13531 196 - 372 2.2e-06 Bacterial extracellular solute-binding protein
SBP_bac_6 PF13343 197 - 401 2.9e-22 Bacterial extracellular solute-binding protein
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: OG0011078)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G31410
fragaria_vesca FvH4_3g41920 FvH4_3g41920 FvH4_3g41920
malus_domestica MD07G1026800.v1.1
prunus_persica Prupe.2G060600_v2.0.a1 Prupe.2G060600_v2.0.a1
pyrus_communis pycom07g02020 pycom07g02060
rosa_chinensis RchiOBHm_Chr1g0331171
rosa_laevigata RLG00000029748
rosa_multiflora Rmu_sc0005711.1_g000003
rosa_roxburghii Rroxscaffold_4G00319290
rosa_rugosa Rorug01G0091900 Rorug01G0092000
rosa_samantha Rh1AG116000 Rh1BG087700 Rh1CG111500 Rh1DG120400
rosa_wichuraiana Rw1G009320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 297
AccII CGCG 1 cut(s) 432
AclWI GGATC 4 cut(s) 50, 63, 342, 543
AcsI RAATTY 1 cut(s) 812
AcuI CTGAAG 2 cut(s) 535, 947
AfaI GTAC 3 cut(s) 441, 1047, 1191
AfiI CCNNNNNNNGG 3 cut(s) 231, 659, 1160
AgsI TTSAA 4 cut(s) 497, 659, 888, 1057
AhlI ACTAGT 1 cut(s) 1166
AjnI CCWGG 1 cut(s) 672
AjuI GAANNNNNNNTTGG 2 cut(s) 354, 386
AluBI AGCT 2 cut(s) 341, 493
AluI AGCT 2 cut(s) 341, 493
Alw26I GTCTC 6 cut(s) 157, 477, 510, 521, 540, 1211
AlwI GGATC 4 cut(s) 50, 63, 342, 543
AlwNI CAGNNNCTG 2 cut(s) 319, 422
Ama87I CYCGRG 2 cut(s) 260, 518
AoxI GGCC 1 cut(s) 569
ApeKI GCWGC 9 cut(s) 11, 14, 17, 28, 279, 422, 587, 764, 783
ApoI RAATTY 1 cut(s) 812
ArsI GACNNNNNNTTYG 2 cut(s) 382, 414
Asp700I GAANNNNTTC 1 cut(s) 883
AspLEI GCGC 1 cut(s) 328
AspS9I GGNCC 1 cut(s) 1027
AsuHPI GGTGA 1 cut(s) 802
AvaI CYCGRG 2 cut(s) 260, 518
AvaII GGWCC 1 cut(s) 1027
BaeGI GKGCMC 1 cut(s) 411
BamHI GGATCC 1 cut(s) 55
BanII GRGCYC 1 cut(s) 273
BbsI GAAGAC 1 cut(s) 675
BbvI GCAGC 7 cut(s) 4, 15, 266, 409, 574, 751, 770
BccI CCATC 3 cut(s) 696, 743, 971
BceAI ACGGC 2 cut(s) 16, 96
BciT130I CCWGG 1 cut(s) 674
BcoDI GTCTC 6 cut(s) 157, 477, 510, 521, 540, 1211
BcuI ACTAGT 1 cut(s) 1166
BfaI CTAG 4 cut(s) 308, 903, 1167, 1249
BfmI CTRYAG 1 cut(s) 329
BfoI RGCGCY 1 cut(s) 329
Bme1390I CCNGG 1 cut(s) 674
Bme18I GGWCC 1 cut(s) 1027
BmeT110I CYCGRG 2 cut(s) 260, 518
BmgT120I GGNCC 1 cut(s) 1027
BmiI GGNNCC 5 cut(s) 47, 57, 183, 834, 940
BmrFI CCNGG 1 cut(s) 674
BmrI ACTGGG 1 cut(s) 856
BmsI GCATC 4 cut(s) 48, 266, 979, 1208
BmuI ACTGGG 1 cut(s) 856
BpiI GAAGAC 1 cut(s) 675
BpuEI CTTGAG 3 cut(s) 459, 485, 526
Bsc4I CCNNNNNNNGG 3 cut(s) 231, 659, 1160
Bse118I RCCGGY 1 cut(s) 322
Bse1I ACTGG 1 cut(s) 851
Bse3DI GCAATG 2 cut(s) 23, 1220
BseBI CCWGG 1 cut(s) 674
BseGI GGATG 2 cut(s) 281, 352
BseLI CCNNNNNNNGG 3 cut(s) 231, 659, 1160
BseMI GCAATG 2 cut(s) 23, 1220
BseMII CTCAG 2 cut(s) 720, 1206
BseNI ACTGG 1 cut(s) 851
BseRI GAGGAG 1 cut(s) 294
BseSI GKGCMC 1 cut(s) 411
BseXI GCAGC 7 cut(s) 4, 15, 266, 409, 574, 751, 770
BseYI CCCAGC 1 cut(s) 312
BsgI GTGCAG 1 cut(s) 939
Bsh1236I CGCG 1 cut(s) 432
BshFI GGCC 1 cut(s) 571
BsiHKCI CYCGRG 2 cut(s) 260, 518
BsiSI CCGG 2 cut(s) 179, 323
BslFI GGGAC 2 cut(s) 200, 623
BslI CCNNNNNNNGG 3 cut(s) 231, 659, 1160
BsmAI GTCTC 6 cut(s) 157, 477, 510, 521, 540, 1211
BsmBI CGTCTC 1 cut(s) 157
BsmFI GGGAC 2 cut(s) 200, 623
BsnI GGCC 1 cut(s) 571
BsoBI CYCGRG 2 cut(s) 260, 518
Bsp1286I GDGCHC 2 cut(s) 273, 411
Bsp1407I TGTACA 1 cut(s) 1045
Bsp143I GATC 4 cut(s) 55, 334, 485, 535
BspANI GGCC 1 cut(s) 571
BspCNI CTCAG 2 cut(s) 721, 1207
BspFNI CGCG 1 cut(s) 432
BspLI GGNNCC 5 cut(s) 47, 57, 183, 834, 940
BspPI GGATC 4 cut(s) 50, 63, 342, 543
BspQI GCTCTTC 1 cut(s) 304
BsrBI CCGCTC 1 cut(s) 297
BsrDI GCAATG 2 cut(s) 23, 1220
BsrFI RCCGGY 1 cut(s) 322
BsrGI TGTACA 1 cut(s) 1045
BsrI ACTGG 1 cut(s) 851
BssAI RCCGGY 1 cut(s) 322
BssMI GATC 4 cut(s) 55, 334, 485, 535
Bst2UI CCWGG 1 cut(s) 674
Bst4CI ACNGT 4 cut(s) 214, 406, 418, 1043
Bst6I CTCTTC 2 cut(s) 160, 304
BstAUI TGTACA 1 cut(s) 1045
BstC8I GCNNGC 2 cut(s) 295, 324
BstDEI CTNAG 3 cut(s) 620, 729, 1215
BstF5I GGATG 2 cut(s) 281, 352
BstFNI CGCG 1 cut(s) 432
BstH2I RGCGCY 1 cut(s) 329
BstHHI GCGC 1 cut(s) 328
BstKTI GATC 4 cut(s) 58, 337, 488, 538
BstMAI GTCTC 6 cut(s) 157, 477, 510, 521, 540, 1211
BstMBI GATC 4 cut(s) 55, 334, 485, 535
BstMWI GCNNNNNNNGC 8 cut(s) 11, 17, 184, 190, 193, 196, 245, 248
BstNI CCWGG 1 cut(s) 674
BstNSI RCATGY 1 cut(s) 1132
BstSCI CCNGG 1 cut(s) 672
BstSFI CTRYAG 1 cut(s) 329
BstSLI GKGCMC 1 cut(s) 411
BstUI CGCG 1 cut(s) 432
BstV1I GCAGC 7 cut(s) 4, 15, 266, 409, 574, 751, 770
BstV2I GAAGAC 1 cut(s) 675
BstX2I RGATCY 2 cut(s) 55, 535
BstXI CCANNNNNNTGG 1 cut(s) 777
BstYI RGATCY 2 cut(s) 55, 535
BsuRI GGCC 1 cut(s) 571
BtgZI GCGATG 1 cut(s) 576
BtsCI GGATG 2 cut(s) 281, 352
BtsI GCAGTG 1 cut(s) 1108
BtsIMutI CAGTG 2 cut(s) 1048, 1108
Cac8I GCNNGC 2 cut(s) 295, 324
CaiI CAGNNNCTG 2 cut(s) 319, 422
CfoI GCGC 1 cut(s) 328
Cfr10I RCCGGY 1 cut(s) 322
Cfr13I GGNCC 1 cut(s) 1027
CseI GACGC 1 cut(s) 271
Csp6I GTAC 3 cut(s) 440, 1046, 1190
CviAII CATG 7 cut(s) 63, 450, 509, 626, 787, 1129, 1203
CviQI GTAC 3 cut(s) 440, 1046, 1190
DdeI CTNAG 3 cut(s) 620, 729, 1215
DpnI GATC 4 cut(s) 57, 336, 487, 537
DpnII GATC 4 cut(s) 55, 334, 485, 535
Eam1104I CTCTTC 2 cut(s) 160, 304
EarI CTCTTC 2 cut(s) 160, 304
EciI GGCGGA 4 cut(s) 98, 165, 235, 280
Eco24I GRGCYC 1 cut(s) 273
Eco32I GATATC 1 cut(s) 961
Eco47I GGWCC 1 cut(s) 1027
Eco57I CTGAAG 2 cut(s) 535, 947
Eco88I CYCGRG 2 cut(s) 260, 518
EcoRII CCWGG 1 cut(s) 672
EcoRV GATATC 1 cut(s) 961
EcoT38I GRGCYC 1 cut(s) 273
Esp3I CGTCTC 1 cut(s) 157
FaeI CATG 7 cut(s) 66, 453, 512, 629, 790, 1132, 1206
FalI AAGNNNNNCTT 2 cut(s) 812, 844
FaqI GGGAC 2 cut(s) 200, 623
FatI CATG 7 cut(s) 62, 449, 508, 625, 786, 1128, 1202
FauI CCCGC 1 cut(s) 302
FauNDI CATATG 1 cut(s) 933
FokI GGATG 2 cut(s) 288, 359
FriOI GRGCYC 1 cut(s) 273
FspBI CTAG 4 cut(s) 308, 903, 1167, 1249
GlaI GCGC 1 cut(s) 327
GsaI CCCAGC 1 cut(s) 316
HaeII RGCGCY 1 cut(s) 329
HaeIII GGCC 1 cut(s) 571
HapII CCGG 2 cut(s) 179, 323
HgaI GACGC 1 cut(s) 271
HhaI GCGC 1 cut(s) 328
Hin1II CATG 7 cut(s) 66, 453, 512, 629, 790, 1132, 1206
Hin6I GCGC 1 cut(s) 326
HinP1I GCGC 1 cut(s) 326
HindIII AAGCTT 1 cut(s) 491
HinfI GANTC 2 cut(s) 611, 896
HpaII CCGG 2 cut(s) 179, 323
HphI GGTGA 1 cut(s) 802
Hpy166II GTNNAC 2 cut(s) 1046, 1048
Hpy188I TCNGA 8 cut(s) 275, 535, 730, 844, 927, 1031, 1135, 1155
Hpy188III TCNNGA 6 cut(s) 262, 518, 520, 543, 903, 1161
Hpy8I GTNNAC 2 cut(s) 1046, 1048
Hpy99I CGWCG 2 cut(s) 117, 287
HpyAV CCTTC 5 cut(s) 109, 266, 456, 582, 873
HpyCH4III ACNGT 4 cut(s) 214, 406, 418, 1043
HpyCH4IV ACGT 1 cut(s) 1192
HpyCH4V TGCA 8 cut(s) 469, 512, 786, 875, 920, 970, 1142, 1199
HpyF10VI GCNNNNNNNGC 8 cut(s) 11, 17, 184, 190, 193, 196, 245, 248
HpyF3I CTNAG 3 cut(s) 620, 729, 1215
HpySE526I ACGT 1 cut(s) 1192
Hsp92II CATG 7 cut(s) 66, 453, 512, 629, 790, 1132, 1206
HspAI GCGC 1 cut(s) 326
KroI GCCGGC 1 cut(s) 322
KroNI GCCGGC 1 cut(s) 324
Kzo9I GATC 4 cut(s) 55, 334, 485, 535
LguI GCTCTTC 1 cut(s) 304
LmnI GCTCC 5 cut(s) 25, 181, 772, 838, 1098
Lsp1109I GCAGC 7 cut(s) 4, 15, 266, 409, 574, 751, 770
LweI GCATC 4 cut(s) 48, 266, 979, 1208
MaeI CTAG 4 cut(s) 308, 903, 1167, 1249
MaeII ACGT 1 cut(s) 1192
MaeIII GTNAC 3 cut(s) 33, 695, 1210
MalI GATC 4 cut(s) 57, 336, 487, 537
MbiI CCGCTC 1 cut(s) 297
MboI GATC 4 cut(s) 55, 334, 485, 535
MboII GAAGA 8 cut(s) 147, 291, 567, 680, 891, 1103, 1221, 1234
MflI RGATCY 2 cut(s) 55, 535
MhlI GDGCHC 2 cut(s) 273, 411
MluCI AATT 7 cut(s) 71, 355, 645, 654, 738, 812, 1146
MlyI GAGTC 1 cut(s) 605
MmeI TCCRAC 2 cut(s) 1051, 1054
MroNI GCCGGC 1 cut(s) 322
MroXI GAANNNNTTC 1 cut(s) 883
MseI TTAA 2 cut(s) 456, 633
MslI CAYNNNNRTG 1 cut(s) 775
MspI CCGG 2 cut(s) 179, 323
MspR9I CCNGG 1 cut(s) 674
MvaI CCWGG 1 cut(s) 674
MvnI CGCG 1 cut(s) 432
MwoI GCNNNNNNNGC 8 cut(s) 11, 17, 184, 190, 193, 196, 245, 248
NaeI GCCGGC 1 cut(s) 324
NdeI CATATG 1 cut(s) 933
NdeII GATC 4 cut(s) 55, 334, 485, 535
NgoMIV GCCGGC 1 cut(s) 322
NlaIII CATG 7 cut(s) 66, 453, 512, 629, 790, 1132, 1206
NlaIV GGNNCC 5 cut(s) 47, 57, 183, 834, 940
NmuCI GTSAC 2 cut(s) 33, 695
NspI RCATGY 1 cut(s) 1132
PaeR7I CTCGAG 1 cut(s) 518
PciSI GCTCTTC 1 cut(s) 304
PcsI WCGNNNNNNNCGW 1 cut(s) 279
PdiI GCCGGC 1 cut(s) 324
PdmI GAANNNNTTC 1 cut(s) 883
PfeI GAWTC 1 cut(s) 896
PleI GAGTC 1 cut(s) 605
PpsI GAGTC 1 cut(s) 605
Psp6I CCWGG 1 cut(s) 672
PspFI CCCAGC 1 cut(s) 312
PspGI CCWGG 1 cut(s) 672
PspN4I GGNNCC 5 cut(s) 47, 57, 183, 834, 940
PspPI GGNCC 1 cut(s) 1027
PstNI CAGNNNCTG 2 cut(s) 319, 422
PsuI RGATCY 2 cut(s) 55, 535
RsaI GTAC 3 cut(s) 441, 1047, 1191
RsaNI GTAC 3 cut(s) 440, 1046, 1190
RseI CAYNNNNRTG 1 cut(s) 775
SapI GCTCTTC 1 cut(s) 304
SaqAI TTAA 2 cut(s) 456, 633
Sau3AI GATC 4 cut(s) 55, 334, 485, 535
Sau96I GGNCC 1 cut(s) 1027
SchI GAGTC 1 cut(s) 605
ScrFI CCNGG 1 cut(s) 674
SduI GDGCHC 2 cut(s) 273, 411
SfaNI GCATC 4 cut(s) 48, 266, 979, 1208
SfcI CTRYAG 1 cut(s) 329
Sfr274I CTCGAG 1 cut(s) 518
SinI GGWCC 1 cut(s) 1027
SlaI CTCGAG 1 cut(s) 518
SmiMI CAYNNNNRTG 1 cut(s) 775
SmlI CTYRAG 4 cut(s) 474, 500, 518, 541
SmoI CTYRAG 4 cut(s) 474, 500, 518, 541
SpeI ACTAGT 1 cut(s) 1166
Sse9I AATT 7 cut(s) 71, 355, 645, 654, 738, 812, 1146
SspMI CTAG 4 cut(s) 308, 903, 1167, 1249
StyD4I CCNGG 1 cut(s) 672
TaaI ACNGT 4 cut(s) 214, 406, 418, 1043
TaiI ACGT 1 cut(s) 1195
TaqI TCGA 1 cut(s) 519
TasI AATT 7 cut(s) 71, 355, 645, 654, 738, 812, 1146
TatI WGTACW 1 cut(s) 1045
TfiI GAWTC 1 cut(s) 896
Tru1I TTAA 2 cut(s) 456, 633
Tru9I TTAA 2 cut(s) 456, 633
TscAI CASTG 2 cut(s) 1048, 1108
TseFI GTSAC 2 cut(s) 33, 695
TseI GCWGC 9 cut(s) 11, 14, 17, 28, 279, 422, 587, 764, 783
Tsp45I GTSAC 2 cut(s) 33, 695
TspDTI ATGAA 1 cut(s) 438
TspGWI ACGGA 1 cut(s) 359
TspRI CASTG 2 cut(s) 1048, 1108
VpaK11BI GGWCC 1 cut(s) 1027
XapI RAATTY 1 cut(s) 812
XbaI TCTAGA 1 cut(s) 902
XceI RCATGY 1 cut(s) 1132
XcmI CCANNNNNNNNNTGG 1 cut(s) 843
XhoI CTCGAG 1 cut(s) 518
XmnI GAANNNNTTC 1 cut(s) 883
XspI CTAG 4 cut(s) 308, 903, 1167, 1249
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.