Rroxscaffold_1G00043380

3'-5' exonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014275
Physical Location & Seq
Forward (+)
61876799 .. 61877413
615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043380.1

Sequence Viewer

Length: 615 bp
ATGAATGAACCCTTAAGAGGCTTCACCAATGTCATGAGCGACGACACCAAAGTAGTCACTGAGATCTTCTCTGAACACGGTGCAGTGCACCTCTGCCTCTATCTCATCACCCAGAAAATTCGTGACGAGAAGGACATGGTTGTAGGGTTTGACACTGATTGTTCTCTGGTAGACACGGAAGACGGCCGAGTCGAACCTTGGGTGGTCCTTATCAAACTCTTCTCCTGCGTCGGGTGTGTCCTTATAAGATTGAACCATAAGTCAGGCCCTGTGTGCCCTTCACTGCTCAACTTCTTCATGATGAAGGACATTGTGTTTGTTGGGGTTCATGTCAACGAGGACGTGAGGATGTTGAAGGAGAATTATGGGGTTGTGGTTAGGAATCTGGTGGAGCTGAGTGAATTGGCGGCATATGGGCTTCGAAAGCCGCGGCTTTTGGCTTATGGAGCAAGGGATTTGGCAAGAGATGTTTTGAAGATAGGGCTTGAGCAGAGACCTCATAAGGTGGCTTGGATGAGCTGGACTGAGGAGTTTCTGACCGCAGAGCAGATCAAGTGTGCAACTGTTGATGCTTATGTTGCTTATAAAATTGGGAAGAAGTTACTGAGCAGCTAG
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

204

Amino Acids

23.1

Weight (kDa)

6.22

Isoelectric Point (pI)

22.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_pol_A_exo1 PF01612 44 - 202 4.2e-10 3'-5' exonuclease
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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 2 cut(s) 245, 585
AasI GACNNNNNNGTC 1 cut(s) 188
AccI GTMKAC 1 cut(s) 171
AccII CGCG 1 cut(s) 430
AciI CCGC 4 cut(s) 407, 428, 430, 540
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, 519, 612
AluI AGCT 3 cut(s) 394, 519, 612
Alw21I GWGCWC 1 cut(s) 90
Alw26I GTCTC 1 cut(s) 487
Alw44I GTGCAC 1 cut(s) 86
AlwNI CAGNNNCTG 1 cut(s) 269
AoxI GGCC 2 cut(s) 184, 265
ApaLI GTGCAC 1 cut(s) 86
ApeKI GCWGC 1 cut(s) 609
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
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
BceAI ACGGC 1 cut(s) 199
BcoDI GTCTC 1 cut(s) 487
BfaI CTAG 1 cut(s) 613
BfrI CTTAAG 1 cut(s) 13
BglII AGATCT 1 cut(s) 63
BisI GCNGC 4 cut(s) 408, 428, 431, 610
BlsI GCNGC 4 cut(s) 409, 429, 432, 611
Bme18I GGWCC 1 cut(s) 205
BmgBI CACGTC 1 cut(s) 343
BmgT120I GGNCC 2 cut(s) 205, 266
BmsI GCATC 1 cut(s) 559
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
BsaI GGTCTC 1 cut(s) 487
BsaJI CCNNGG 2 cut(s) 197, 428
Bsc4I CCNNNNNNNGG 2 cut(s) 17, 231
BseDI CCNNGG 2 cut(s) 197, 428
BseGI GGATG 2 cut(s) 354, 519
BseLI CCNNNNNNNGG 2 cut(s) 17, 231
BseMII CTCAG 4 cut(s) 51, 386, 516, 596
BseRI GAGGAG 1 cut(s) 542
BseSI GKGCMC 2 cut(s) 90, 278
BseX3I CGGCCG 1 cut(s) 184
BsgI GTGCAG 1 cut(s) 102
Bsh1236I CGCG 1 cut(s) 430
Bsh1285I CGRYCG 1 cut(s) 187
BshFI GGCC 2 cut(s) 186, 267
BsiEI CGRYCG 1 cut(s) 187
BsiHKAI GWGCWC 1 cut(s) 90
BslI CCNNNNNNNGG 2 cut(s) 17, 231
BsmAI GTCTC 1 cut(s) 487
BsnI GGCC 2 cut(s) 186, 267
Bso31I GGTCTC 1 cut(s) 487
Bsp119I TTCGAA 1 cut(s) 421
Bsp1286I GDGCHC 2 cut(s) 90, 278
Bsp143I GATC 2 cut(s) 63, 549
BspACI CCGC 4 cut(s) 407, 428, 430, 540
BspANI GGCC 2 cut(s) 186, 267
BspCNI CTCAG 4 cut(s) 52, 387, 517, 597
BspFNI CGCG 1 cut(s) 430
BspHI TCATGA 2 cut(s) 33, 297
BspT104I TTCGAA 1 cut(s) 421
BspTI CTTAAG 1 cut(s) 13
BspTNI GGTCTC 1 cut(s) 487
BssECI CCNNGG 2 cut(s) 197, 428
BssMI GATC 2 cut(s) 63, 549
BssT1I CCWWGG 1 cut(s) 197
Bst4CI ACNGT 2 cut(s) 80, 565
Bst6I CTCTTC 1 cut(s) 224
BstAFI CTTAAG 1 cut(s) 13
BstBI TTCGAA 1 cut(s) 421
BstDEI CTNAG 4 cut(s) 60, 395, 525, 605
BstDSI CCRYGG 1 cut(s) 428
BstF5I GGATG 2 cut(s) 354, 519
BstFNI CGCG 1 cut(s) 430
BstKTI GATC 2 cut(s) 66, 552
BstMAI GTCTC 1 cut(s) 487
BstMBI GATC 2 cut(s) 63, 549
BstMCI CGRYCG 1 cut(s) 187
BstMWI GCNNNNNNNGC 4 cut(s) 273, 424, 446, 578
BstSLI GKGCMC 2 cut(s) 90, 278
BstUI CGCG 1 cut(s) 430
BstV2I GAAGAC 1 cut(s) 186
BstX2I RGATCY 1 cut(s) 63
BstYI RGATCY 1 cut(s) 63
BstZI CGGCCG 1 cut(s) 184
BsuRI GGCC 2 cut(s) 186, 267
BtgI CCRYGG 1 cut(s) 428
BtrI CACGTC 1 cut(s) 343
BtsCI GGATG 2 cut(s) 354, 519
BtsI GCAGTG 2 cut(s) 90, 281
BtsIMutI CAGTG 4 cut(s) 57, 90, 153, 281
CaiI CAGNNNCTG 1 cut(s) 269
CciI TCATGA 2 cut(s) 33, 297
Cfr13I GGNCC 2 cut(s) 205, 266
Cfr42I CCGCGG 1 cut(s) 431
CseI GACGC 1 cut(s) 217
CviAII CATG 4 cut(s) 34, 136, 298, 329
DdeI CTNAG 4 cut(s) 60, 395, 525, 605
DpnI GATC 2 cut(s) 65, 551
DpnII GATC 2 cut(s) 63, 549
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
Eco130I CCWWGG 1 cut(s) 197
Eco31I GGTCTC 1 cut(s) 487
Eco47I GGWCC 1 cut(s) 205
Eco52I CGGCCG 1 cut(s) 184
EcoO109I RGGNCCY 1 cut(s) 266
EcoT14I CCWWGG 1 cut(s) 197
ErhI CCWWGG 1 cut(s) 197
FaeI CATG 4 cut(s) 37, 139, 301, 332
FatI CATG 4 cut(s) 33, 135, 297, 328
FauNDI CATATG 1 cut(s) 412
FblI GTMKAC 1 cut(s) 171
Fnu4HI GCNGC 4 cut(s) 408, 428, 431, 610
FokI GGATG 2 cut(s) 361, 526
Fsp4HI GCNGC 4 cut(s) 408, 428, 431, 610
FspBI CTAG 1 cut(s) 613
GluI GCNGC 4 cut(s) 408, 428, 431, 610
HaeIII GGCC 2 cut(s) 186, 267
HgaI GACGC 1 cut(s) 217
Hin1II CATG 4 cut(s) 37, 139, 301, 332
HincII GTYRAC 1 cut(s) 334
HindII GTYRAC 1 cut(s) 334
HinfI GANTC 2 cut(s) 189, 382
HphI GGTGA 2 cut(s) 16, 100
Hpy166II GTNNAC 3 cut(s) 88, 172, 334
Hpy188I TCNGA 2 cut(s) 73, 537
Hpy188III TCNNGA 3 cut(s) 34, 122, 298
Hpy8I GTNNAC 3 cut(s) 88, 172, 334
Hpy99I CGWCG 2 cut(s) 44, 233
HpyAV CCTTC 4 cut(s) 124, 288, 298, 349
HpyCH4III ACNGT 2 cut(s) 80, 565
HpyCH4IV ACGT 1 cut(s) 342
HpyCH4V TGCA 3 cut(s) 83, 88, 560
HpyF10VI GCNNNNNNNGC 4 cut(s) 273, 424, 446, 578
HpyF3I CTNAG 4 cut(s) 60, 395, 525, 605
HpySE526I ACGT 1 cut(s) 342
Hsp92II CATG 4 cut(s) 37, 139, 301, 332
KspI CCGCGG 1 cut(s) 431
Kzo9I GATC 2 cut(s) 63, 549
LmnI GCTCC 2 cut(s) 391, 446
LpnPI CCDG 7 cut(s) 125, 152, 238, 249, 282, 371, 505
LweI GCATC 1 cut(s) 559
MaeI CTAG 1 cut(s) 613
MaeII ACGT 1 cut(s) 342
MaeIII GTNAC 3 cut(s) 55, 122, 600
MalI GATC 2 cut(s) 65, 551
MboI GATC 2 cut(s) 63, 549
MboII GAAGA 6 cut(s) 58, 191, 211, 286, 487, 607
MflI RGATCY 1 cut(s) 63
MhlI GDGCHC 2 cut(s) 90, 278
MluCI AATT 4 cut(s) 117, 361, 401, 588
MlyI GAGTC 1 cut(s) 198
MnlI CCTC 7 cut(s) 11, 101, 107, 331, 339, 507, 520
MseI TTAA 1 cut(s) 14
MspA1I CMGCKG 1 cut(s) 430
MspCI CTTAAG 1 cut(s) 13
MvnI CGCG 1 cut(s) 430
MwoI GCNNNNNNNGC 4 cut(s) 273, 424, 446, 578
NdeI CATATG 1 cut(s) 412
NdeII GATC 2 cut(s) 63, 549
NlaIII CATG 4 cut(s) 37, 139, 301, 332
NmeAIII GCCGAG 1 cut(s) 212
NmuCI GTSAC 2 cut(s) 55, 122
NspV TTCGAA 1 cut(s) 421
PagI TCATGA 2 cut(s) 33, 297
PcsI WCGNNNNNNNCGW 1 cut(s) 189
PfeI GAWTC 1 cut(s) 382
PkrI GCNGC 4 cut(s) 409, 429, 432, 611
PleI GAGTC 1 cut(s) 197
PpsI GAGTC 1 cut(s) 197
PsiI TTATAA 2 cut(s) 245, 585
PspPI GGNCC 2 cut(s) 205, 266
PstNI CAGNNNCTG 1 cut(s) 269
PsuI RGATCY 1 cut(s) 63
SacII CCGCGG 1 cut(s) 431
SaqAI TTAA 1 cut(s) 14
SatI GCNGC 4 cut(s) 408, 428, 431, 610
Sau3AI GATC 2 cut(s) 63, 549
Sau96I GGNCC 2 cut(s) 205, 266
SchI GAGTC 1 cut(s) 198
SduI GDGCHC 2 cut(s) 90, 278
SetI ASST 8 cut(s) 93, 199, 345, 396, 499, 507, 521, 614
SfaNI GCATC 1 cut(s) 559
Sfr303I CCGCGG 1 cut(s) 431
SfuI TTCGAA 1 cut(s) 421
SgrBI CCGCGG 1 cut(s) 431
SinI GGWCC 1 cut(s) 205
SmlI CTYRAG 2 cut(s) 13, 485
SmoI CTYRAG 2 cut(s) 13, 485
Sse9I AATT 4 cut(s) 117, 361, 401, 588
SsiI CCGC 4 cut(s) 407, 428, 430, 540
SspMI CTAG 1 cut(s) 613
StyI CCWWGG 1 cut(s) 197
TaaI ACNGT 2 cut(s) 80, 565
TaiI ACGT 1 cut(s) 345
TaqI TCGA 2 cut(s) 192, 421
TasI AATT 4 cut(s) 117, 361, 401, 588
TauI GCSGC 3 cut(s) 410, 430, 433
TfiI GAWTC 1 cut(s) 382
Tru1I TTAA 1 cut(s) 14
Tru9I TTAA 1 cut(s) 14
TscAI CASTG 4 cut(s) 64, 90, 160, 288
TseFI GTSAC 2 cut(s) 55, 122
TseI GCWGC 1 cut(s) 609
Tsp45I GTSAC 2 cut(s) 55, 122
TspDTI ATGAA 5 cut(s) 17, 21, 286, 317, 317
TspGWI ACGGA 1 cut(s) 191
TspRI CASTG 4 cut(s) 64, 90, 160, 288
Vha464I CTTAAG 1 cut(s) 13
VneI GTGCAC 1 cut(s) 86
VpaK11BI GGWCC 1 cut(s) 205
XapI RAATTY 1 cut(s) 117
XmiI GTMKAC 1 cut(s) 171
XspI CTAG 1 cut(s) 613
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.