Rroxscaffold_1G00043320

3'-5' exonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014275
Physical Location & Seq
Forward (+)
61754856 .. 61755377
522 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043320.1

Sequence Viewer

Length: 522 bp
ATGAATGAACCCTTAAGAGGCTTCACCAACGTCATGAGCGACAGCACCAAAGTAGTCACTGAGATCGTCTCCGAACATGGTGCAGTGCACCTCTGCCTCTACCTCATCACCCAGAAAATTCGTGACGAGAAGGACATGGTTGTAGGGTTTGACACGGAATGTTCTCTGGTAGACATGGAAGACGGCCGAGTCGAACCTCGAGTGGTCCTTATCAAACTCTTCTCCTGCGTCGGGTGTGTCCTTATAATATTGAACCATAAGTCAGGCCCCGTGTGCCCTTCGCTGCTCAACTTCTTCATGATGAAGGACATTGTTTTTGTTGGAGTTCATGTCAACGAGGACGTGAGGATGTTGAAGGAGAATTATGGGGTTGTGGTTAGGAATGTGGTGGAGCTGAGTGAATTGGCGACATATGGGCTTCGAAAGCCGCGACTTTTTGCTTATGGAGCAAGGGATTTGGCAAGAGATGTTTTGAAGCTGGGGCTTGAGCAGAGGCCTCAGAAGGTGGCTTGGATGAGCTAG
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
DNA_pol_A_exo1

Protein Analysis

173

Amino Acids

19.54

Weight (kDa)

6.42

Isoelectric Point (pI)

28.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_pol_A_exo1 PF01612 43 - 171 6.4e-09 3'-5' exonuclease
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: OG0014275)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G11770 AT5G06450
fragaria_vesca FvH4_3g21850
prunus_persica Prupe.4G202600_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0037631
rosa_laevigata RLG00000033791 RLG00000033797 RLG00000034136
rosa_roxburghii Rroxscaffold_1G00043320 Rroxscaffold_1G00043380
rosa_rugosa Rorug05G0166200
rosa_samantha Rh5BG291800 Rh5CG290500 Rh5DG265600 Rh5DG266100 Rh5DG301600
rosa_wichuraiana Rw5G023660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 245
AasI GACNNNNNNGTC 1 cut(s) 188
AccI GTMKAC 1 cut(s) 171
AccII CGCG 1 cut(s) 430
AciI CCGC 1 cut(s) 428
AcoI YGGCCR 1 cut(s) 184
AcsI RAATTY 1 cut(s) 117
AfiI CCNNNNNNNGG 2 cut(s) 17, 231
AflII CTTAAG 1 cut(s) 13
AgsI TTSAA 3 cut(s) 253, 355, 475
AjiI CACGTC 1 cut(s) 343
AluBI AGCT 3 cut(s) 394, 478, 519
AluI AGCT 3 cut(s) 394, 478, 519
Alw21I GWGCWC 1 cut(s) 90
Alw26I GTCTC 1 cut(s) 73
Alw44I GTGCAC 1 cut(s) 86
Ama87I CYCGRG 1 cut(s) 198
AoxI GGCC 3 cut(s) 184, 265, 494
ApaLI GTGCAC 1 cut(s) 86
ApeKI GCWGC 1 cut(s) 283
ApoI RAATTY 1 cut(s) 117
ArsI GACNNNNNNTTYG 2 cut(s) 299, 331
AspS9I GGNCC 2 cut(s) 205, 266
AsuHPI GGTGA 2 cut(s) 16, 100
AsuII TTCGAA 1 cut(s) 421
AvaI CYCGRG 1 cut(s) 198
AvaII GGWCC 1 cut(s) 205
BaeGI GKGCMC 2 cut(s) 90, 278
BbsI GAAGAC 1 cut(s) 186
Bbv12I GWGCWC 1 cut(s) 90
BbvI GCAGC 1 cut(s) 270
BceAI ACGGC 1 cut(s) 199
BcgI CGANNNNNNTGC 2 cut(s) 62, 96
BcoDI GTCTC 1 cut(s) 73
BfaI CTAG 1 cut(s) 520
BfrI CTTAAG 1 cut(s) 13
BisI GCNGC 2 cut(s) 284, 428
BlsI GCNGC 2 cut(s) 285, 429
Bme18I GGWCC 1 cut(s) 205
BmeT110I CYCGRG 1 cut(s) 198
BmgBI CACGTC 1 cut(s) 343
BmgT120I GGNCC 2 cut(s) 205, 266
BmiI GGNNCC 1 cut(s) 268
BpiI GAAGAC 1 cut(s) 186
BplI GAGNNNNNCTC 2 cut(s) 53, 85
Bpu14I TTCGAA 1 cut(s) 421
BpuEI CTTGAG 1 cut(s) 506
BsaXI ACNNNNNCTCC 2 cut(s) 315, 345
Bsc4I CCNNNNNNNGG 2 cut(s) 17, 231
BseGI GGATG 2 cut(s) 354, 519
BseLI CCNNNNNNNGG 2 cut(s) 17, 231
BseMII CTCAG 3 cut(s) 51, 386, 512
BseSI GKGCMC 2 cut(s) 90, 278
BseX3I CGGCCG 1 cut(s) 184
BseXI GCAGC 1 cut(s) 270
BseYI CCCAGC 1 cut(s) 478
BsgI GTGCAG 1 cut(s) 102
Bsh1236I CGCG 1 cut(s) 430
Bsh1285I CGRYCG 1 cut(s) 187
BshFI GGCC 3 cut(s) 186, 267, 496
BsiEI CGRYCG 1 cut(s) 187
BsiHKAI GWGCWC 1 cut(s) 90
BsiHKCI CYCGRG 1 cut(s) 198
BslI CCNNNNNNNGG 2 cut(s) 17, 231
BsmAI GTCTC 1 cut(s) 73
BsmBI CGTCTC 1 cut(s) 73
BsnI GGCC 3 cut(s) 186, 267, 496
BsoBI CYCGRG 1 cut(s) 198
Bsp119I TTCGAA 1 cut(s) 421
Bsp1286I GDGCHC 2 cut(s) 90, 278
Bsp143I GATC 1 cut(s) 63
BspACI CCGC 1 cut(s) 428
BspANI GGCC 3 cut(s) 186, 267, 496
BspCNI CTCAG 3 cut(s) 52, 387, 511
BspFNI CGCG 1 cut(s) 430
BspHI TCATGA 2 cut(s) 33, 297
BspLI GGNNCC 1 cut(s) 268
BspT104I TTCGAA 1 cut(s) 421
BspTI CTTAAG 1 cut(s) 13
BssMI GATC 1 cut(s) 63
Bst6I CTCTTC 1 cut(s) 224
BstAFI CTTAAG 1 cut(s) 13
BstBI TTCGAA 1 cut(s) 421
BstDEI CTNAG 3 cut(s) 60, 395, 498
BstF5I GGATG 2 cut(s) 354, 519
BstFNI CGCG 1 cut(s) 430
BstKTI GATC 1 cut(s) 66
BstMAI GTCTC 1 cut(s) 73
BstMBI GATC 1 cut(s) 63
BstMCI CGRYCG 1 cut(s) 187
BstMWI GCNNNNNNNGC 3 cut(s) 273, 424, 446
BstSLI GKGCMC 2 cut(s) 90, 278
BstUI CGCG 1 cut(s) 430
BstV1I GCAGC 1 cut(s) 270
BstV2I GAAGAC 1 cut(s) 186
BstZI CGGCCG 1 cut(s) 184
BsuRI GGCC 3 cut(s) 186, 267, 496
BtrI CACGTC 1 cut(s) 343
BtsCI GGATG 2 cut(s) 354, 519
BtsI GCAGTG 1 cut(s) 90
BtsIMutI CAGTG 2 cut(s) 57, 90
CciI TCATGA 2 cut(s) 33, 297
Cfr13I GGNCC 2 cut(s) 205, 266
CseI GACGC 1 cut(s) 217
CviAII CATG 6 cut(s) 34, 77, 136, 175, 298, 329
DdeI CTNAG 3 cut(s) 60, 395, 498
DpnI GATC 1 cut(s) 65
DpnII GATC 1 cut(s) 63
DrdI GACNNNNNNGTC 1 cut(s) 188
DseDI GACNNNNNNGTC 1 cut(s) 188
EaeI YGGCCR 1 cut(s) 184
EagI CGGCCG 1 cut(s) 184
Eam1104I CTCTTC 1 cut(s) 224
EarI CTCTTC 1 cut(s) 224
EclXI CGGCCG 1 cut(s) 184
Eco147I AGGCCT 1 cut(s) 496
Eco47I GGWCC 1 cut(s) 205
Eco52I CGGCCG 1 cut(s) 184
Eco88I CYCGRG 1 cut(s) 198
EcoO109I RGGNCCY 1 cut(s) 266
Esp3I CGTCTC 1 cut(s) 73
FaeI CATG 6 cut(s) 37, 80, 139, 178, 301, 332
FatI CATG 6 cut(s) 33, 76, 135, 174, 297, 328
FauNDI CATATG 1 cut(s) 412
FblI GTMKAC 1 cut(s) 171
Fnu4HI GCNGC 2 cut(s) 284, 428
FokI GGATG 1 cut(s) 361
Fsp4HI GCNGC 2 cut(s) 284, 428
FspBI CTAG 1 cut(s) 520
GluI GCNGC 2 cut(s) 284, 428
GsaI CCCAGC 1 cut(s) 482
HaeIII GGCC 3 cut(s) 186, 267, 496
HgaI GACGC 1 cut(s) 217
Hin1II CATG 6 cut(s) 37, 80, 139, 178, 301, 332
HincII GTYRAC 1 cut(s) 334
HindII GTYRAC 1 cut(s) 334
HinfI GANTC 1 cut(s) 189
HphI GGTGA 2 cut(s) 16, 100
Hpy166II GTNNAC 3 cut(s) 88, 172, 334
Hpy188I TCNGA 2 cut(s) 73, 501
Hpy188III TCNNGA 3 cut(s) 34, 122, 298
Hpy8I GTNNAC 3 cut(s) 88, 172, 334
Hpy99I CGWCG 1 cut(s) 233
HpyAV CCTTC 5 cut(s) 124, 288, 298, 349, 496
HpyCH4IV ACGT 2 cut(s) 30, 342
HpyCH4V TGCA 2 cut(s) 83, 88
HpyF10VI GCNNNNNNNGC 3 cut(s) 273, 424, 446
HpyF3I CTNAG 3 cut(s) 60, 395, 498
HpySE526I ACGT 2 cut(s) 30, 342
Hsp92II CATG 6 cut(s) 37, 80, 139, 178, 301, 332
Kzo9I GATC 1 cut(s) 63
LmnI GCTCC 2 cut(s) 391, 446
LpnPI CCDG 5 cut(s) 125, 152, 238, 249, 464
Lsp1109I GCAGC 1 cut(s) 270
MaeI CTAG 1 cut(s) 520
MaeII ACGT 2 cut(s) 30, 342
MaeIII GTNAC 2 cut(s) 55, 122
MalI GATC 1 cut(s) 65
MboI GATC 1 cut(s) 63
MboII GAAGA 3 cut(s) 191, 211, 286
MhlI GDGCHC 2 cut(s) 90, 278
MluCI AATT 3 cut(s) 117, 361, 401
MlyI GAGTC 1 cut(s) 198
MmeI TCCRAC 1 cut(s) 301
MnlI CCTC 9 cut(s) 11, 101, 107, 113, 207, 331, 339, 486, 507
MseI TTAA 1 cut(s) 14
MspCI CTTAAG 1 cut(s) 13
MvnI CGCG 1 cut(s) 430
MwoI GCNNNNNNNGC 3 cut(s) 273, 424, 446
NdeI CATATG 1 cut(s) 412
NdeII GATC 1 cut(s) 63
NlaIII CATG 6 cut(s) 37, 80, 139, 178, 301, 332
NlaIV GGNNCC 1 cut(s) 268
NmeAIII GCCGAG 1 cut(s) 212
NmuCI GTSAC 2 cut(s) 55, 122
NspV TTCGAA 1 cut(s) 421
PaeR7I CTCGAG 1 cut(s) 198
PagI TCATGA 2 cut(s) 33, 297
PceI AGGCCT 1 cut(s) 496
PcsI WCGNNNNNNNCGW 3 cut(s) 36, 189, 427
PkrI GCNGC 2 cut(s) 285, 429
PleI GAGTC 1 cut(s) 197
PpsI GAGTC 1 cut(s) 197
PsiI TTATAA 1 cut(s) 245
PspFI CCCAGC 1 cut(s) 478
PspN4I GGNNCC 1 cut(s) 268
PspPI GGNCC 2 cut(s) 205, 266
PspXI VCTCGAGB 1 cut(s) 198
SaqAI TTAA 1 cut(s) 14
SatI GCNGC 2 cut(s) 284, 428
Sau3AI GATC 1 cut(s) 63
Sau96I GGNCC 2 cut(s) 205, 266
SchI GAGTC 1 cut(s) 198
SduI GDGCHC 2 cut(s) 90, 278
SetI ASST 9 cut(s) 33, 93, 105, 199, 345, 396, 480, 507, 521
Sfr274I CTCGAG 1 cut(s) 198
SfuI TTCGAA 1 cut(s) 421
SinI GGWCC 1 cut(s) 205
SlaI CTCGAG 1 cut(s) 198
SmlI CTYRAG 3 cut(s) 13, 198, 485
SmoI CTYRAG 3 cut(s) 13, 198, 485
Sse9I AATT 3 cut(s) 117, 361, 401
SseBI AGGCCT 1 cut(s) 496
SsiI CCGC 1 cut(s) 428
SspI AATATT 1 cut(s) 249
SspMI CTAG 1 cut(s) 520
StuI AGGCCT 1 cut(s) 496
TaiI ACGT 2 cut(s) 33, 345
TaqI TCGA 3 cut(s) 192, 199, 421
TasI AATT 3 cut(s) 117, 361, 401
TauI GCSGC 1 cut(s) 430
Tru1I TTAA 1 cut(s) 14
Tru9I TTAA 1 cut(s) 14
TscAI CASTG 2 cut(s) 64, 90
TseFI GTSAC 2 cut(s) 55, 122
TseI GCWGC 1 cut(s) 283
Tsp45I GTSAC 2 cut(s) 55, 122
TspDTI ATGAA 5 cut(s) 17, 21, 286, 317, 317
TspGWI ACGGA 1 cut(s) 170
TspRI CASTG 2 cut(s) 64, 90
Vha464I CTTAAG 1 cut(s) 13
VneI GTGCAC 1 cut(s) 86
VpaK11BI GGWCC 1 cut(s) 205
XapI RAATTY 1 cut(s) 117
XhoI CTCGAG 1 cut(s) 198
XmiI GTMKAC 1 cut(s) 171
XspI CTAG 1 cut(s) 520
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.