Rroxscaffold_5G00381080

Bacterial PH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0015409
Physical Location & Seq
Forward (+)
61158903 .. 61159490
588 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00381080.1

Sequence Viewer

Length: 588 bp
ATGGCCTCCTCCTCCTCCACCTCAATTCTCTCACCCACCACCACCACCTCCATAGTCCGCCACCACTCCTCCAAGCTCCCCTTCCCTTACTCCACCAAACCCATTTCCACTACTTTCTCTAACAACAGACCACTCACCAGACTCTACGTGTCCACCCCGACCAACAAGCCCGCCAACAACACCGCCAACAAGAAACCCACCTCGGAGACCGTCTTCTTCGACGGCGGGGCCCACTACGGCGACCTCGCTGCCAACCTCGTCCTGGGCTTCACTCTCCTCTGGCTGCCCCTAACGTTAGCCGCCGTGTTCCGGGCGTTTTTCCTGAGGTACAGGTTCACCAACCTGCGGGTGACGGTGATATCGGGACTGACGGGCCAGGACAGGAGTGACTTCTCGTACAAGGTCATCAAGGACGTTCAGGTGGTGCCACGTTTCATCGGCGAGTGGGGTGATATCATCATCACCCTCAGAGATGGCACCAAGGTCGATCTTAGGAGTGTGCCTAAGTTCAGAGAGATTGCCAAGTATTGCTTATCCATGGCTGATAAGCCTGCCGTGGTTAAAGAAACAGGAACTAAGGGCTTTTGA
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
bPH_2

Protein Analysis

195

Amino Acids

21.6

Weight (kDa)

10.04

Isoelectric Point (pI)

33.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bPH_2 PF03703 107 - 177 4.6e-13 Bacterial PH 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: OG0015409)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G14345
fragaria_vesca FvH4_4g31650
malus_domestica MD13G1074900.v1.1
prunus_persica Prupe.1G271300_v2.0.a1
pyrus_communis pycom13g06670
rosa_chinensis RchiOBHm_Chr4g0440151
rosa_laevigata RLG00000006201
rosa_multiflora Rmu_co8332745.1_g000001 Rmu_sc0001685.1_g000020
rosa_roxburghii Rroxscaffold_5G00381080
rosa_rugosa Rorug04G0324800
rosa_samantha Rh4AG375600 Rh4BG388000 Rh4CG402600 Rh4DG382200
rosa_wichuraiana Rw4G032140

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 351
AccB1I GGYRCC 2 cut(s) 424, 476
AciI CCGC 6 cut(s) 58, 171, 183, 225, 300, 346
AclI AACGTT 1 cut(s) 293
AfaI GTAC 2 cut(s) 329, 398
AfiI CCNNNNNNNGG 3 cut(s) 262, 309, 345
AflIII ACRYGT 1 cut(s) 147
AjnI CCWGG 2 cut(s) 261, 375
AjuI GAANNNNNNNTTGG 2 cut(s) 65, 97
AluBI AGCT 1 cut(s) 76
AluI AGCT 1 cut(s) 76
Alw26I GTCTC 1 cut(s) 200
AoxI GGCC 3 cut(s) 3, 228, 373
ApaI GGGCCC 1 cut(s) 232
ApeKI GCWGC 2 cut(s) 248, 283
AspS9I GGNCC 3 cut(s) 228, 229, 373
AsuC2I CCSGG 1 cut(s) 311
AsuHPI GGTGA 7 cut(s) 24, 127, 328, 361, 367, 454, 461
AxyI CCTNAGG 1 cut(s) 323
BaeGI GKGCMC 1 cut(s) 232
BanI GGYRCC 2 cut(s) 424, 476
BanII GRGCYC 1 cut(s) 232
BbsI GAAGAC 1 cut(s) 205
BbvI GCAGC 2 cut(s) 235, 270
BccI CCATC 1 cut(s) 467
BceAI ACGGC 4 cut(s) 238, 253, 287, 539
BcgI CGANNNNNNTGC 4 cut(s) 230, 264, 466, 500
BciT130I CCWGG 2 cut(s) 263, 377
BcnI CCSGG 1 cut(s) 311
BcoDI GTCTC 1 cut(s) 200
BfuAI ACCTGC 1 cut(s) 351
BisI GCNGC 3 cut(s) 249, 284, 300
BlsI GCNGC 3 cut(s) 250, 285, 301
Bme1390I CCNGG 3 cut(s) 263, 311, 377
BmgT120I GGNCC 3 cut(s) 228, 229, 373
BmiI GGNNCC 4 cut(s) 229, 230, 426, 478
BmrFI CCNGG 3 cut(s) 263, 311, 377
BpiI GAAGAC 1 cut(s) 205
BpuMI CCSGG 1 cut(s) 311
BsaAI YACGTR 1 cut(s) 148
BsaI GGTCTC 1 cut(s) 200
BsaJI CCNNGG 5 cut(s) 201, 262, 480, 537, 555
BsaXI ACNNNNNCTCC 2 cut(s) 53, 83
Bsc4I CCNNNNNNNGG 3 cut(s) 262, 309, 345
Bse21I CCTNAGG 1 cut(s) 323
BseBI CCWGG 2 cut(s) 263, 377
BseDI CCNNGG 5 cut(s) 201, 262, 480, 537, 555
BseLI CCNNNNNNNGG 3 cut(s) 262, 309, 345
BseMII CTCAG 2 cut(s) 314, 481
BseRI GAGGAG 3 cut(s) 4, 58, 266
BseSI GKGCMC 1 cut(s) 232
BseXI GCAGC 2 cut(s) 235, 270
BshFI GGCC 3 cut(s) 5, 230, 375
BshNI GGYRCC 2 cut(s) 424, 476
BsiSI CCGG 1 cut(s) 310
BslFI GGGAC 1 cut(s) 378
BslI CCNNNNNNNGG 3 cut(s) 262, 309, 345
BsmAI GTCTC 1 cut(s) 200
BsmFI GGGAC 1 cut(s) 378
BsnI GGCC 3 cut(s) 5, 230, 375
Bso31I GGTCTC 1 cut(s) 200
Bsp120I GGGCCC 1 cut(s) 228
Bsp1286I GDGCHC 1 cut(s) 232
Bsp143I GATC 1 cut(s) 487
Bsp19I CCATGG 1 cut(s) 537
BspACI CCGC 6 cut(s) 58, 171, 183, 225, 300, 346
BspANI GGCC 3 cut(s) 5, 230, 375
BspCNI CTCAG 2 cut(s) 315, 480
BspLI GGNNCC 4 cut(s) 229, 230, 426, 478
BspMI ACCTGC 1 cut(s) 351
BspT107I GGYRCC 2 cut(s) 424, 476
BspTNI GGTCTC 1 cut(s) 200
BssECI CCNNGG 5 cut(s) 201, 262, 480, 537, 555
BssMI GATC 1 cut(s) 487
BssT1I CCWWGG 2 cut(s) 480, 537
Bst2UI CCWGG 2 cut(s) 263, 377
Bst4CI ACNGT 2 cut(s) 211, 355
BstBAI YACGTR 1 cut(s) 148
BstC8I GCNNGC 2 cut(s) 171, 552
BstDEI CTNAG 5 cut(s) 323, 467, 491, 504, 576
BstDSI CCRYGG 2 cut(s) 537, 555
BstKTI GATC 1 cut(s) 490
BstMAI GTCTC 1 cut(s) 200
BstMBI GATC 1 cut(s) 487
BstNI CCWGG 2 cut(s) 263, 377
BstSCI CCNGG 3 cut(s) 261, 309, 375
BstSLI GKGCMC 1 cut(s) 232
BstV1I GCAGC 2 cut(s) 235, 270
BstV2I GAAGAC 1 cut(s) 205
Bsu36I CCTNAGG 1 cut(s) 323
BsuRI GGCC 3 cut(s) 5, 230, 375
BtgI CCRYGG 2 cut(s) 537, 555
BveI ACCTGC 1 cut(s) 351
Cac8I GCNNGC 2 cut(s) 171, 552
Cfr13I GGNCC 3 cut(s) 228, 229, 373
Csp6I GTAC 2 cut(s) 328, 397
CviAII CATG 1 cut(s) 538
CviQI GTAC 2 cut(s) 328, 397
DdeI CTNAG 5 cut(s) 323, 467, 491, 504, 576
DpnI GATC 1 cut(s) 489
DpnII GATC 1 cut(s) 487
EciI GGCGGA 1 cut(s) 47
Eco130I CCWWGG 2 cut(s) 480, 537
Eco24I GRGCYC 1 cut(s) 232
Eco31I GGTCTC 1 cut(s) 200
Eco32I GATATC 2 cut(s) 360, 454
Eco81I CCTNAGG 1 cut(s) 323
EcoO109I RGGNCCY 1 cut(s) 228
EcoRII CCWGG 2 cut(s) 261, 375
EcoRV GATATC 2 cut(s) 360, 454
EcoT14I CCWWGG 2 cut(s) 480, 537
EcoT38I GRGCYC 1 cut(s) 232
ErhI CCWWGG 2 cut(s) 480, 537
FaeI CATG 1 cut(s) 541
FaiI YATR 2 cut(s) 53, 539
FalI AAGNNNNNCTT 4 cut(s) 65, 97, 515, 547
FaqI GGGAC 1 cut(s) 378
FatI CATG 1 cut(s) 537
FauI CCCGC 3 cut(s) 178, 218, 339
Fnu4HI GCNGC 3 cut(s) 249, 284, 300
FriOI GRGCYC 1 cut(s) 232
Fsp4HI GCNGC 3 cut(s) 249, 284, 300
GluI GCNGC 3 cut(s) 249, 284, 300
HaeIII GGCC 3 cut(s) 5, 230, 375
HapII CCGG 1 cut(s) 310
Hin1II CATG 1 cut(s) 541
HinfI GANTC 1 cut(s) 141
HpaII CCGG 1 cut(s) 310
HphI GGTGA 7 cut(s) 24, 127, 328, 361, 367, 454, 461
Hpy166II GTNNAC 2 cut(s) 153, 336
Hpy188I TCNGA 3 cut(s) 205, 470, 512
Hpy188III TCNNGA 2 cut(s) 322, 363
Hpy8I GTNNAC 2 cut(s) 153, 336
Hpy99I CGWCG 1 cut(s) 224
HpyAV CCTTC 1 cut(s) 91
HpyCH4III ACNGT 2 cut(s) 211, 355
HpyCH4IV ACGT 4 cut(s) 147, 293, 414, 430
HpyF3I CTNAG 5 cut(s) 323, 467, 491, 504, 576
HpySE526I ACGT 4 cut(s) 147, 293, 414, 430
Hsp92II CATG 1 cut(s) 541
Kzo9I GATC 1 cut(s) 487
LmnI GCTCC 1 cut(s) 81
Lsp1109I GCAGC 2 cut(s) 235, 270
MaeII ACGT 4 cut(s) 147, 293, 414, 430
MaeIII GTNAC 2 cut(s) 349, 386
MalI GATC 1 cut(s) 489
MboI GATC 1 cut(s) 487
MboII GAAGA 2 cut(s) 205, 208
MhlI GDGCHC 1 cut(s) 232
MluCI AATT 1 cut(s) 24
MlyI GAGTC 1 cut(s) 135
MseI TTAA 1 cut(s) 561
MspI CCGG 1 cut(s) 310
MspR9I CCNGG 3 cut(s) 263, 311, 377
MvaI CCWGG 2 cut(s) 263, 377
NciI CCSGG 1 cut(s) 311
NcoI CCATGG 1 cut(s) 537
NdeII GATC 1 cut(s) 487
NlaIII CATG 1 cut(s) 541
NlaIV GGNNCC 4 cut(s) 229, 230, 426, 478
NmuCI GTSAC 2 cut(s) 349, 386
PkrI GCNGC 3 cut(s) 250, 285, 301
PleI GAGTC 1 cut(s) 135
PpsI GAGTC 1 cut(s) 135
Ppu21I YACGTR 1 cut(s) 148
Psp1406I AACGTT 1 cut(s) 293
Psp6I CCWGG 2 cut(s) 261, 375
PspGI CCWGG 2 cut(s) 261, 375
PspN4I GGNNCC 4 cut(s) 229, 230, 426, 478
PspOMI GGGCCC 1 cut(s) 228
PspPI GGNCC 3 cut(s) 228, 229, 373
RsaI GTAC 2 cut(s) 329, 398
RsaNI GTAC 2 cut(s) 328, 397
SaqAI TTAA 1 cut(s) 561
SatI GCNGC 3 cut(s) 249, 284, 300
Sau3AI GATC 1 cut(s) 487
Sau96I GGNCC 3 cut(s) 228, 229, 373
SchI GAGTC 1 cut(s) 135
ScrFI CCNGG 3 cut(s) 263, 311, 377
SduI GDGCHC 1 cut(s) 232
Sse9I AATT 1 cut(s) 24
SsiI CCGC 6 cut(s) 58, 171, 183, 225, 300, 346
StyD4I CCNGG 3 cut(s) 261, 309, 375
StyI CCWWGG 2 cut(s) 480, 537
TaaI ACNGT 2 cut(s) 211, 355
TaiI ACGT 4 cut(s) 150, 296, 417, 433
TaqI TCGA 2 cut(s) 219, 486
TasI AATT 1 cut(s) 24
TauI GCSGC 1 cut(s) 302
Tru1I TTAA 1 cut(s) 561
Tru9I TTAA 1 cut(s) 561
TseFI GTSAC 2 cut(s) 349, 386
TseI GCWGC 2 cut(s) 248, 283
Tsp45I GTSAC 2 cut(s) 349, 386
TspDTI ATGAA 1 cut(s) 424
XcmI CCANNNNNNNNNTGG 1 cut(s) 259
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.