Rroxscaffold_6G00399480

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0010860
Physical Location & Seq
Forward (+)
21382190 .. 21384035
1846 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00399480.1

Sequence Viewer

Length: 642 bp
ATGGCGCCGTTTCCATGTTCAAGCGAACGCACTGCTGCTTCGGCTCTGCTCCTCCTCACCGTCACACCACCACCGCCTTCTAAGGGCTGTTTGGATGATGGCGATGAGTCATCGGTTGTGAGATCGGAGCTAGGAAAGAGCGACCGTACTATTTCCAGAGGTCAGAGCTTTGTTTCCGGCGACTCCAAATCCTGCTGCACTTCGTCCTTGCTTGCTGGTTCCAGGGAGAAGATTCAAGCTCGCACAATCAGGATGATCGCTCTTGCAGCTCTTCATCGTGATGTGAAGCTCAAAGCCGAGCAGAAAAACCGCTCGAAGATCCAAGGCGGCGGCGTGAAATTCAACAGCTGGAAAACTCGCTCGGGCGTGAAGGTGGCCATGACGACGTCGTTTGCTGCTGCCTCCACGTCCTCGGAGTCCTCCTGCCTGTCCAGTGCGGCTTCGAGCGCGCGAAGCCGTTACTACGAGCCGAAAGCCGCTGGGAGCAGCTGGATTAAGAAGAAGAAGAAGCAGGTGGGGTCGGTTATGCTGCGGCGCAAAGCCGAAGCCATTCTGAAGCTGCTCGCTCAAGGCTGCTACTCTGAAGTCAAGATCCGTCAGACTCTCGATAGCATGAGGAGGATCGATGTCATTCTTAGATAG
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
No domains found.

Protein Analysis

213

Amino Acids

22.97

Weight (kDa)

10.2

Isoelectric Point (pI)

56.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HTH_74 PF25370 176 - 202 4e-10 HTH three-helical bundle
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: OG0010860)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G57440 AT3G57440
fragaria_vesca FvH4_6g23771 FvH4_6g23771
malus_domestica MD12G1073500.v1.1 MD14G1067100.v1.1
prunus_persica Prupe.7G061400_v2.0.a1
pyrus_communis pycom14g05020
rosa_chinensis RchiOBHm_Chr3g0482221
rosa_laevigata RLG00000023361
rosa_multiflora Rmu_sc0017838.1_g000001
rosa_roxburghii Rroxscaffold_6G00399440 Rroxscaffold_6G00399480 Rroxscaffold_6G00399960
rosa_rugosa Rorug03G0195700
rosa_samantha Rh3AG247200 Rh3BG281800 Rh3CG277800 Rh3DG274400
rosa_wichuraiana Rw3G022110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 502
AatII GACGTC 1 cut(s) 389
Acc36I ACCTGC 1 cut(s) 502
AccB1I GGYRCC 1 cut(s) 4
AccBSI CCGCTC 1 cut(s) 312
AccII CGCG 2 cut(s) 449, 451
AciI CCGC 7 cut(s) 74, 310, 327, 330, 437, 477, 532
AclWI GGATC 3 cut(s) 313, 586, 629
AcoI YGGCCR 1 cut(s) 375
AcsI RAATTY 1 cut(s) 338
AcuI CTGAAG 2 cut(s) 575, 603
AcyI GRCGYC 2 cut(s) 5, 386
AfaI GTAC 1 cut(s) 148
AfiI CCNNNNNNNGG 1 cut(s) 83
AgsI TTSAA 3 cut(s) 21, 236, 343
AjiI CACGTC 1 cut(s) 408
AjnI CCWGG 1 cut(s) 221
AluBI AGCT 8 cut(s) 130, 168, 239, 269, 289, 348, 489, 559
AluI AGCT 8 cut(s) 130, 168, 239, 269, 289, 348, 489, 559
AlwI GGATC 3 cut(s) 313, 586, 629
Ama87I CYCGRG 1 cut(s) 361
AoxI GGCC 1 cut(s) 375
ApeKI GCWGC 9 cut(s) 35, 195, 266, 395, 398, 486, 529, 559, 573
ApoI RAATTY 1 cut(s) 338
Asp700I GAANNNNTTC 1 cut(s) 549
AspLEI GCGC 4 cut(s) 7, 449, 451, 537
AsuHPI GGTGA 1 cut(s) 49
AvaI CYCGRG 1 cut(s) 361
BalI TGGCCA 1 cut(s) 377
BanI GGYRCC 1 cut(s) 4
BbvI GCAGC 9 cut(s) 22, 182, 278, 382, 385, 498, 516, 546, 560
BccI CCATC 1 cut(s) 92
BceAI ACGGC 1 cut(s) 441
BcgI CGANNNNNNTGC 2 cut(s) 14, 48
BciT130I CCWGG 1 cut(s) 223
BfaI CTAG 1 cut(s) 131
BfoI RGCGCY 1 cut(s) 8
BfuAI ACCTGC 1 cut(s) 502
Bme1390I CCNGG 1 cut(s) 223
BmeT110I CYCGRG 1 cut(s) 361
BmgBI CACGTC 1 cut(s) 408
BmiI GGNNCC 2 cut(s) 6, 220
BmrFI CCNGG 1 cut(s) 223
BpuEI CTTGAG 1 cut(s) 552
Bsa29I ATCGAT 1 cut(s) 624
BsaHI GRCGYC 2 cut(s) 5, 386
BsaJI CCNNGG 3 cut(s) 222, 322, 411
Bsc4I CCNNNNNNNGG 1 cut(s) 83
Bse1I ACTGG 1 cut(s) 432
BseBI CCWGG 1 cut(s) 223
BseCI ATCGAT 1 cut(s) 624
BseDI CCNNGG 3 cut(s) 222, 322, 411
BseGI GGATG 2 cut(s) 100, 258
BseLI CCNNNNNNNGG 1 cut(s) 83
BseNI ACTGG 1 cut(s) 432
BsePI GCGCGC 1 cut(s) 447
BseRI GAGGAG 3 cut(s) 41, 44, 631
BseXI GCAGC 9 cut(s) 22, 182, 278, 382, 385, 498, 516, 546, 560
BseYI CCCAGC 1 cut(s) 479
BsgI GTGCAG 1 cut(s) 181
Bsh1236I CGCG 2 cut(s) 449, 451
Bsh1285I CGRYCG 1 cut(s) 145
BshFI GGCC 1 cut(s) 377
BshNI GGYRCC 1 cut(s) 4
BshVI ATCGAT 1 cut(s) 624
BsiEI CGRYCG 1 cut(s) 145
BsiHKCI CYCGRG 1 cut(s) 361
BsiSI CCGG 1 cut(s) 177
BslI CCNNNNNNNGG 1 cut(s) 83
BsnI GGCC 1 cut(s) 377
BsoBI CYCGRG 1 cut(s) 361
Bsp143I GATC 5 cut(s) 122, 255, 318, 591, 621
BspACI CCGC 7 cut(s) 74, 310, 327, 330, 437, 477, 532
BspANI GGCC 1 cut(s) 377
BspDI ATCGAT 1 cut(s) 624
BspFNI CGCG 2 cut(s) 449, 451
BspLI GGNNCC 2 cut(s) 6, 220
BspMI ACCTGC 1 cut(s) 502
BspPI GGATC 3 cut(s) 313, 586, 629
BspQI GCTCTTC 1 cut(s) 276
BspT107I GGYRCC 1 cut(s) 4
BsrBI CCGCTC 1 cut(s) 312
BsrI ACTGG 1 cut(s) 432
BssECI CCNNGG 3 cut(s) 222, 322, 411
BssHII GCGCGC 1 cut(s) 447
BssMI GATC 5 cut(s) 122, 255, 318, 591, 621
BssNI GRCGYC 2 cut(s) 5, 386
BssT1I CCWWGG 1 cut(s) 322
Bst2UI CCWGG 1 cut(s) 223
Bst4CI ACNGT 2 cut(s) 61, 146
Bst6I CTCTTC 1 cut(s) 276
BstACI GRCGYC 2 cut(s) 5, 386
BstC8I GCNNGC 4 cut(s) 213, 241, 449, 564
BstDEI CTNAG 2 cut(s) 81, 635
BstF5I GGATG 2 cut(s) 100, 258
BstFNI CGCG 2 cut(s) 449, 451
BstH2I RGCGCY 1 cut(s) 8
BstHHI GCGC 4 cut(s) 7, 449, 451, 537
BstKTI GATC 5 cut(s) 125, 258, 321, 594, 624
BstMBI GATC 5 cut(s) 122, 255, 318, 591, 621
BstMCI CGRYCG 1 cut(s) 145
BstMWI GCNNNNNNNGC 4 cut(s) 41, 266, 446, 453
BstNI CCWGG 1 cut(s) 223
BstSCI CCNGG 1 cut(s) 221
BstUI CGCG 2 cut(s) 449, 451
BstV1I GCAGC 9 cut(s) 22, 182, 278, 382, 385, 498, 516, 546, 560
BstX2I RGATCY 2 cut(s) 318, 591
BstYI RGATCY 2 cut(s) 318, 591
Bsu15I ATCGAT 1 cut(s) 624
BsuRI GGCC 1 cut(s) 377
BsuTUI ATCGAT 1 cut(s) 624
BtgZI GCGATG 1 cut(s) 117
BtrI CACGTC 1 cut(s) 408
BtsCI GGATG 2 cut(s) 100, 258
BtsI GCAGTG 1 cut(s) 30
BtsIMutI CAGTG 2 cut(s) 30, 439
BveI ACCTGC 1 cut(s) 502
Cac8I GCNNGC 4 cut(s) 213, 241, 449, 564
CfoI GCGC 4 cut(s) 7, 449, 451, 537
ClaI ATCGAT 1 cut(s) 624
Csp6I GTAC 1 cut(s) 147
CviAII CATG 3 cut(s) 15, 379, 613
CviQI GTAC 1 cut(s) 147
DdeI CTNAG 2 cut(s) 81, 635
DinI GGCGCC 1 cut(s) 6
DpnI GATC 5 cut(s) 124, 257, 320, 593, 623
DpnII GATC 5 cut(s) 122, 255, 318, 591, 621
EaeI YGGCCR 1 cut(s) 375
Eam1104I CTCTTC 1 cut(s) 276
EarI CTCTTC 1 cut(s) 276
Eco130I CCWWGG 1 cut(s) 322
Eco57I CTGAAG 2 cut(s) 575, 603
Eco88I CYCGRG 1 cut(s) 361
EcoRII CCWGG 1 cut(s) 221
EcoT14I CCWWGG 1 cut(s) 322
EgeI GGCGCC 1 cut(s) 6
EheI GGCGCC 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 322
FaeI CATG 3 cut(s) 18, 382, 616
FaiI YATR 4 cut(s) 16, 380, 527, 614
FatI CATG 3 cut(s) 14, 378, 612
FokI GGATG 2 cut(s) 107, 265
FspBI CTAG 1 cut(s) 131
GlaI GCGC 4 cut(s) 6, 448, 450, 536
GsaI CCCAGC 1 cut(s) 483
HaeII RGCGCY 1 cut(s) 8
HaeIII GGCC 1 cut(s) 377
HapII CCGG 1 cut(s) 177
HhaI GCGC 4 cut(s) 7, 449, 451, 537
Hin1I GRCGYC 2 cut(s) 5, 386
Hin1II CATG 3 cut(s) 18, 382, 616
Hin6I GCGC 4 cut(s) 5, 447, 449, 535
HinP1I GCGC 4 cut(s) 5, 447, 449, 535
HinfI GANTC 5 cut(s) 107, 182, 232, 416, 601
HpaII CCGG 1 cut(s) 177
HphI GGTGA 1 cut(s) 49
Hpy188I TCNGA 6 cut(s) 127, 165, 415, 555, 583, 600
Hpy188III TCNNGA 5 cut(s) 156, 250, 278, 589, 605
Hpy99I CGWCG 2 cut(s) 388, 391
HpyAV CCTTC 2 cut(s) 87, 364
HpyCH4III ACNGT 2 cut(s) 61, 146
HpyCH4IV ACGT 2 cut(s) 386, 407
HpyCH4V TGCA 2 cut(s) 198, 266
HpyF10VI GCNNNNNNNGC 4 cut(s) 41, 266, 446, 453
HpyF3I CTNAG 2 cut(s) 81, 635
HpySE526I ACGT 2 cut(s) 386, 407
Hsp92I GRCGYC 2 cut(s) 5, 386
Hsp92II CATG 3 cut(s) 18, 382, 616
HspAI GCGC 4 cut(s) 5, 447, 449, 535
KasI GGCGCC 1 cut(s) 4
Kzo9I GATC 5 cut(s) 122, 255, 318, 591, 621
LguI GCTCTTC 1 cut(s) 276
LmnI GCTCC 3 cut(s) 54, 127, 483
Lsp1109I GCAGC 9 cut(s) 22, 182, 278, 382, 385, 498, 516, 546, 560
MaeI CTAG 1 cut(s) 131
MaeII ACGT 2 cut(s) 386, 407
MaeIII GTNAC 2 cut(s) 61, 458
MalI GATC 5 cut(s) 124, 257, 320, 593, 623
MbiI CCGCTC 1 cut(s) 312
MboI GATC 5 cut(s) 122, 255, 318, 591, 621
MboII GAAGA 6 cut(s) 241, 263, 328, 511, 514, 517
MflI RGATCY 2 cut(s) 318, 591
MlsI TGGCCA 1 cut(s) 377
MluCI AATT 1 cut(s) 338
MluNI TGGCCA 1 cut(s) 377
Mly113I GGCGCC 1 cut(s) 5
MlyI GAGTC 4 cut(s) 116, 176, 425, 595
MnlI CCTC 8 cut(s) 62, 65, 152, 412, 421, 430, 609, 612
Mox20I TGGCCA 1 cut(s) 377
MroXI GAANNNNTTC 1 cut(s) 549
MscI TGGCCA 1 cut(s) 377
MseI TTAA 1 cut(s) 495
MslI CAYNNNNRTG 1 cut(s) 279
Msp20I TGGCCA 1 cut(s) 377
MspA1I CMGCKG 3 cut(s) 348, 479, 489
MspI CCGG 1 cut(s) 177
MspR9I CCNGG 1 cut(s) 223
MvaI CCWGG 1 cut(s) 223
MvnI CGCG 2 cut(s) 449, 451
MwoI GCNNNNNNNGC 4 cut(s) 41, 266, 446, 453
NarI GGCGCC 1 cut(s) 5
NdeII GATC 5 cut(s) 122, 255, 318, 591, 621
NlaIII CATG 3 cut(s) 18, 382, 616
NlaIV GGNNCC 2 cut(s) 6, 220
NmeAIII GCCGAG 1 cut(s) 322
NmuCI GTSAC 1 cut(s) 61
PaqCI CACCTGC 1 cut(s) 502
PauI GCGCGC 1 cut(s) 447
PciSI GCTCTTC 1 cut(s) 276
PdmI GAANNNNTTC 1 cut(s) 549
PfeI GAWTC 1 cut(s) 232
PflFI GACNNNGTC 1 cut(s) 385
PleI GAGTC 4 cut(s) 115, 176, 424, 595
PluTI GGCGCC 1 cut(s) 8
PpsI GAGTC 4 cut(s) 115, 176, 424, 595
Psp6I CCWGG 1 cut(s) 221
PspFI CCCAGC 1 cut(s) 479
PspGI CCWGG 1 cut(s) 221
PspN4I GGNNCC 2 cut(s) 6, 220
PsuI RGATCY 2 cut(s) 318, 591
PsyI GACNNNGTC 1 cut(s) 385
PteI GCGCGC 1 cut(s) 447
PvuII CAGCTG 2 cut(s) 348, 489
RsaI GTAC 1 cut(s) 148
RsaNI GTAC 1 cut(s) 147
RseI CAYNNNNRTG 1 cut(s) 279
SapI GCTCTTC 1 cut(s) 276
SaqAI TTAA 1 cut(s) 495
Sau3AI GATC 5 cut(s) 122, 255, 318, 591, 621
SchI GAGTC 4 cut(s) 116, 176, 425, 595
ScrFI CCNGG 1 cut(s) 223
SfoI GGCGCC 1 cut(s) 6
SmiMI CAYNNNNRTG 1 cut(s) 279
SmlI CTYRAG 1 cut(s) 567
SmoI CTYRAG 1 cut(s) 567
Sse9I AATT 1 cut(s) 338
SsiI CCGC 7 cut(s) 74, 310, 327, 330, 437, 477, 532
SspDI GGCGCC 1 cut(s) 4
SspMI CTAG 1 cut(s) 131
StyD4I CCNGG 1 cut(s) 221
StyI CCWWGG 1 cut(s) 322
TaaI ACNGT 2 cut(s) 61, 146
TaiI ACGT 2 cut(s) 389, 410
TaqI TCGA 4 cut(s) 314, 443, 606, 624
TasI AATT 1 cut(s) 338
TauI GCSGC 5 cut(s) 330, 333, 440, 479, 535
TfiI GAWTC 1 cut(s) 232
Tru1I TTAA 1 cut(s) 495
Tru9I TTAA 1 cut(s) 495
TscAI CASTG 2 cut(s) 37, 439
TseFI GTSAC 1 cut(s) 61
TseI GCWGC 9 cut(s) 35, 195, 266, 395, 398, 486, 529, 559, 573
Tsp45I GTSAC 1 cut(s) 61
TspDTI ATGAA 1 cut(s) 263
TspGWI ACGGA 1 cut(s) 584
TspRI CASTG 2 cut(s) 37, 439
Tth111I GACNNNGTC 1 cut(s) 385
XapI RAATTY 1 cut(s) 338
XmnI GAANNNNTTC 1 cut(s) 549
XspI CTAG 1 cut(s) 131
ZraI GACGTC 1 cut(s) 387
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.