Rroxscaffold_7G00171690

replication factor C

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
Physical Location & Seq
Reverse (-)
11996618 .. 11999381
2764 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00171690.1

Sequence Viewer

Length: 1098 bp
ATGGCAGAGCTAACCACTCCCATGGACATCGACGGCGACGATAACAACCCCTCTCTAAAACCCAACAACAAGGGCAAAAACGTCGCCGTTTCCGGCCCCTCCCACGGCAAAGCCACTCCCTGGGTCGAGAAGTACCGCCCTCAATCCCTCGCCGACGTCGCCGCCCACCGCGACATTGTCGACACCATTGATAGGCTCACTAGTGAGAACAGATTGCCACACCTCCTACTGTATGGCCCTCCTGGCACTGGAAAAACTTCCACGATTCTGGCCGTCGCACGCAAGCTCTATGGTGCACATTACCACAATATGATTCTCGAGTTGAATGCATCGGATGACAGGGGAATCGATGTTGTGAGGCAACAGATCCAGGATTTTGCCAGCACACAGAGTTTTTCGTTTGGGATTGACAATGCAAAGGCATCTGTAAAGTTGGTCTTACTGGATGAGGCAGATGCTATGACTAAGGATGCTCAGTTTGCTTTGAGAAGAGTGATTGAGAAATACACAAAGAACACCAGATTTTCACTAATCTGTAACCATGTCAACAAGATTATTCCAGCTTTACAGTCAAGATGTACTCGTTTTCGGTTTGCTCCACTTGATTCTTTTCATGTGACAGAGCGACTCAAACATGTTATAGAAGCTGAAGGGCTTGATGTGTCTGAGAGTGGCTTAGCAGCAGTTGTACGGCTTAGCAATGGTGACATGAGAAAGGCTCTGAACATTCTGCAGTCAACTCATATGGCTTCACAGAAGATAACAGAAGAAGCAGTATATCTTTGCACAGGAAACCCATTGCCTAAGGACATTGAGCAAATATCTCACTGGCTTTTGAATGAGTCATTTACAGAGGGTTTCAAACGAATTTCTGATATGAAAACAAGAAAGGGATTGGCTTTGGTAGATATCGTAAGAGAAGTGACTATGTTTGTTTTTAAGATTAAGATGCCGCCAGATGTTCGAGTTTTGTTGATTAATGATTTAGCTGACATAGAGTACAGATTGAGCTTTGGGTGCAACGATAAATTGCAACTTGGATCAATAATTGCTTCTTTTACGAAAGCTCGCTCTGCACTTGTTGCTGCTGCAAAGTAG

Protein Analysis

365

Amino Acids

40.56

Weight (kDa)

8.73

Isoelectric Point (pI)

36.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad17 PF03215 38 - 178 1.5e-09 Rad17 P-loop domain
DNA_pol3_delta2 PF13177 60 - 201 2.4e-08 DNA polymerase III, delta subunit
AAA PF00004 75 - 200 1.4e-15 ATPase family associated with various cellular activities (AAA)
RCF1-5-like_lid PF21960 209 - 248 2.1e-07 RCF1/5-like, AAA+ ATPase lid domain
Rep_fac_C PF08542 266 - 352 8.9e-22 Replication factor C C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 159
AccB7I CCANNNNNTGG 1 cut(s) 120
AccI GTMKAC 1 cut(s) 180
AccII CGCG 1 cut(s) 171
AciI CCGC 4 cut(s) 136, 162, 169, 953
AclWI GGATC 2 cut(s) 361, 1048
AcoI YGGCCR 1 cut(s) 270
AcsI RAATTY 1 cut(s) 867
AcuI CTGAAG 1 cut(s) 669
AcyI GRCGYC 1 cut(s) 156
AfaI GTAC 4 cut(s) 134, 580, 690, 1001
AfiI CCNNNNNNNGG 4 cut(s) 104, 120, 192, 248
AflIII ACRYGT 1 cut(s) 634
AgsI TTSAA 3 cut(s) 325, 838, 862
AhlI ACTAGT 1 cut(s) 200
AjnI CCWGG 3 cut(s) 119, 241, 369
AluBI AGCT 7 cut(s) 10, 286, 563, 647, 989, 1011, 1067
AluI AGCT 7 cut(s) 10, 286, 563, 647, 989, 1011, 1067
Alw21I GWGCWC 1 cut(s) 298
Alw44I GTGCAC 1 cut(s) 294
AlwI GGATC 2 cut(s) 361, 1048
Ama87I CYCGRG 1 cut(s) 317
AoxI GGCC 3 cut(s) 94, 235, 270
ApaLI GTGCAC 1 cut(s) 294
ApeKI GCWGC 3 cut(s) 680, 1085, 1088
ApoI RAATTY 1 cut(s) 867
AseI ATTAAT 1 cut(s) 978
Asp700I GAANNNNTTC 1 cut(s) 256
AspS9I GGNCC 2 cut(s) 95, 236
AsuHPI GGTGA 1 cut(s) 716
AvaI CYCGRG 1 cut(s) 317
AxyI CCTNAGG 1 cut(s) 804
BaeGI GKGCMC 1 cut(s) 298
Bbv12I GWGCWC 1 cut(s) 298
BbvI GCAGC 3 cut(s) 692, 1072, 1075
BceAI ACGGC 5 cut(s) 49, 71, 121, 257, 707
BcgI CGANNNNNNTGC 4 cut(s) 64, 98, 308, 342
BciT130I CCWGG 3 cut(s) 121, 243, 371
BcuI ACTAGT 1 cut(s) 200
BfaI CTAG 1 cut(s) 201
BfmI CTRYAG 1 cut(s) 731
BglI GCCNNNNNGGC 1 cut(s) 243
BisI GCNGC 5 cut(s) 162, 681, 953, 1086, 1089
BlpI GCTNAGC 2 cut(s) 676, 695
BlsI GCNGC 5 cut(s) 163, 682, 954, 1087, 1090
Bme1390I CCNGG 3 cut(s) 121, 243, 371
BmeT110I CYCGRG 1 cut(s) 317
BmgT120I GGNCC 2 cut(s) 95, 236
BmiI GGNNCC 1 cut(s) 97
BmrFI CCNGG 3 cut(s) 121, 243, 371
BmsI GCATC 5 cut(s) 338, 431, 445, 460, 939
BplI GAGNNNNNCTC 2 cut(s) 703, 735
Bpu1102I GCTNAGC 2 cut(s) 676, 695
Bsa29I ATCGAT 1 cut(s) 348
BsaHI GRCGYC 1 cut(s) 156
BsaJI CCNNGG 4 cut(s) 21, 103, 119, 120
Bsc4I CCNNNNNNNGG 4 cut(s) 104, 120, 192, 248
Bse1I ACTGG 3 cut(s) 253, 447, 833
Bse21I CCTNAGG 1 cut(s) 804
Bse3DI GCAATG 2 cut(s) 706, 797
BseBI CCWGG 3 cut(s) 121, 243, 371
BseCI ATCGAT 1 cut(s) 348
BseDI CCNNGG 4 cut(s) 21, 103, 119, 120
BseGI GGATG 3 cut(s) 340, 451, 475
BseLI CCNNNNNNNGG 4 cut(s) 104, 120, 192, 248
BseMI GCAATG 2 cut(s) 706, 797
BseMII CTCAG 2 cut(s) 488, 657
BseNI ACTGG 3 cut(s) 253, 447, 833
BseSI GKGCMC 1 cut(s) 298
BseXI GCAGC 3 cut(s) 692, 1072, 1075
BsgI GTGCAG 1 cut(s) 1059
Bsh1236I CGCG 1 cut(s) 171
BshFI GGCC 3 cut(s) 96, 237, 272
BshVI ATCGAT 1 cut(s) 348
BsiHKAI GWGCWC 1 cut(s) 298
BsiHKCI CYCGRG 1 cut(s) 317
BsiSI CCGG 1 cut(s) 93
BslI CCNNNNNNNGG 4 cut(s) 104, 120, 192, 248
BsmI GAATGC 1 cut(s) 331
BsnI GGCC 3 cut(s) 96, 237, 272
BsoBI CYCGRG 1 cut(s) 317
Bsp1286I GDGCHC 1 cut(s) 298
Bsp143I GATC 2 cut(s) 366, 1040
Bsp1720I GCTNAGC 2 cut(s) 676, 695
Bsp19I CCATGG 1 cut(s) 21
BspACI CCGC 4 cut(s) 136, 162, 169, 953
BspANI GGCC 3 cut(s) 96, 237, 272
BspCNI CTCAG 2 cut(s) 487, 658
BspDI ATCGAT 1 cut(s) 348
BspFNI CGCG 1 cut(s) 171
BspLI GGNNCC 1 cut(s) 97
BspMAI CTGCAG 1 cut(s) 735
BspPI GGATC 2 cut(s) 361, 1048
BsrDI GCAATG 2 cut(s) 706, 797
BsrI ACTGG 3 cut(s) 253, 447, 833
BssECI CCNNGG 4 cut(s) 21, 103, 119, 120
BssMI GATC 2 cut(s) 366, 1040
BssNI GRCGYC 1 cut(s) 156
BssT1I CCWWGG 1 cut(s) 21
Bst2UI CCWGG 3 cut(s) 121, 243, 371
Bst4CI ACNGT 2 cut(s) 231, 570
Bst6I CTCTTC 1 cut(s) 484
BstACI GRCGYC 1 cut(s) 156
BstAPI GCANNNNNTGC 1 cut(s) 1082
BstC8I GCNNGC 4 cut(s) 280, 284, 382, 1069
BstDEI CTNAG 6 cut(s) 465, 474, 666, 676, 695, 804
BstDSI CCRYGG 2 cut(s) 21, 103
BstF5I GGATG 3 cut(s) 340, 451, 475
BstFNI CGCG 1 cut(s) 171
BstKTI GATC 2 cut(s) 369, 1043
BstMBI GATC 2 cut(s) 366, 1040
BstMWI GCNNNNNNNGC 6 cut(s) 158, 243, 479, 1017, 1073, 1082
BstNI CCWGG 3 cut(s) 121, 243, 371
BstNSI RCATGY 1 cut(s) 638
BstSCI CCNGG 3 cut(s) 119, 241, 369
BstSFI CTRYAG 1 cut(s) 731
BstSLI GKGCMC 1 cut(s) 298
BstUI CGCG 1 cut(s) 171
BstV1I GCAGC 3 cut(s) 692, 1072, 1075
BstX2I RGATCY 1 cut(s) 366
BstXI CCANNNNNNTGG 2 cut(s) 22, 268
BstYI RGATCY 1 cut(s) 366
Bsu15I ATCGAT 1 cut(s) 348
Bsu36I CCTNAGG 1 cut(s) 804
BsuRI GGCC 3 cut(s) 96, 237, 272
BsuTUI ATCGAT 1 cut(s) 348
BtgI CCRYGG 2 cut(s) 21, 103
BtsCI GGATG 3 cut(s) 340, 451, 475
BtsIMutI CAGTG 2 cut(s) 246, 826
Cac8I GCNNGC 4 cut(s) 280, 284, 382, 1069
Cfr13I GGNCC 2 cut(s) 95, 236
ClaI ATCGAT 1 cut(s) 348
Csp6I GTAC 4 cut(s) 133, 579, 689, 1000
CviAII CATG 5 cut(s) 22, 542, 614, 635, 709
CviQI GTAC 4 cut(s) 133, 579, 689, 1000
DdeI CTNAG 6 cut(s) 465, 474, 666, 676, 695, 804
DpnI GATC 2 cut(s) 368, 1042
DpnII GATC 2 cut(s) 366, 1040
EaeI YGGCCR 1 cut(s) 270
Eam1104I CTCTTC 1 cut(s) 484
EarI CTCTTC 1 cut(s) 484
Eco130I CCWWGG 1 cut(s) 21
Eco32I GATATC 1 cut(s) 910
Eco57I CTGAAG 1 cut(s) 669
Eco81I CCTNAGG 1 cut(s) 804
Eco88I CYCGRG 1 cut(s) 317
EcoRII CCWGG 3 cut(s) 119, 241, 369
EcoRV GATATC 1 cut(s) 910
EcoT14I CCWWGG 1 cut(s) 21
EcoT22I ATGCAT 1 cut(s) 331
ErhI CCWWGG 1 cut(s) 21
FaeI CATG 5 cut(s) 25, 545, 617, 638, 712
FalI AAGNNNNNCTT 2 cut(s) 422, 454
FatI CATG 5 cut(s) 21, 541, 613, 634, 708
FauNDI CATATG 1 cut(s) 744
FblI GTMKAC 1 cut(s) 180
Fnu4HI GCNGC 5 cut(s) 162, 681, 953, 1086, 1089
FokI GGATG 3 cut(s) 347, 458, 482
Fsp4HI GCNGC 5 cut(s) 162, 681, 953, 1086, 1089
FspBI CTAG 1 cut(s) 201
GluI GCNGC 5 cut(s) 162, 681, 953, 1086, 1089
HaeIII GGCC 3 cut(s) 96, 237, 272
HapII CCGG 1 cut(s) 93
Hin1I GRCGYC 1 cut(s) 156
Hin1II CATG 5 cut(s) 25, 545, 617, 638, 712
HincII GTYRAC 3 cut(s) 181, 547, 738
HindII GTYRAC 3 cut(s) 181, 547, 738
HinfI GANTC 6 cut(s) 265, 313, 345, 605, 627, 842
HpaII CCGG 1 cut(s) 93
HphI GGTGA 1 cut(s) 716
Hpy166II GTNNAC 4 cut(s) 181, 296, 547, 738
Hpy188I TCNGA 4 cut(s) 334, 667, 723, 874
Hpy188III TCNNGA 3 cut(s) 127, 317, 573
Hpy8I GTNNAC 4 cut(s) 181, 296, 547, 738
Hpy99I CGWCG 6 cut(s) 35, 41, 86, 158, 161, 278
HpyAV CCTTC 1 cut(s) 644
HpyCH4III ACNGT 2 cut(s) 231, 570
HpyCH4IV ACGT 2 cut(s) 81, 156
HpyCH4V TGCA 9 cut(s) 296, 329, 416, 733, 786, 1020, 1033, 1076, 1091
HpyF10VI GCNNNNNNNGC 6 cut(s) 158, 243, 479, 1017, 1073, 1082
HpyF3I CTNAG 6 cut(s) 465, 474, 666, 676, 695, 804
HpySE526I ACGT 2 cut(s) 81, 156
Hsp92I GRCGYC 1 cut(s) 156
Hsp92II CATG 5 cut(s) 25, 545, 617, 638, 712
Kzo9I GATC 2 cut(s) 366, 1040
LmnI GCTCC 1 cut(s) 601
Lsp1109I GCAGC 3 cut(s) 692, 1072, 1075
LweI GCATC 5 cut(s) 338, 431, 445, 460, 939
MaeI CTAG 1 cut(s) 201
MaeII ACGT 2 cut(s) 81, 156
MaeIII GTNAC 4 cut(s) 536, 616, 704, 922
MalI GATC 2 cut(s) 368, 1042
MboI GATC 2 cut(s) 366, 1040
MboII GAAGA 3 cut(s) 501, 769, 779
MflI RGATCY 1 cut(s) 366
MhlI GDGCHC 1 cut(s) 298
MluCI AATT 3 cut(s) 867, 1028, 1047
MlyI GAGTC 2 cut(s) 621, 851
MnlI CCTC 9 cut(s) 61, 109, 150, 158, 233, 249, 351, 442, 847
Mph1103I ATGCAT 1 cut(s) 331
MroXI GAANNNNTTC 1 cut(s) 256
MseI TTAA 3 cut(s) 939, 945, 978
MslI CAYNNNNRTG 1 cut(s) 20
MspI CCGG 1 cut(s) 93
MspR9I CCNGG 3 cut(s) 121, 243, 371
Mva1269I GAATGC 1 cut(s) 331
MvaI CCWGG 3 cut(s) 121, 243, 371
MvnI CGCG 1 cut(s) 171
MwoI GCNNNNNNNGC 6 cut(s) 158, 243, 479, 1017, 1073, 1082
NcoI CCATGG 1 cut(s) 21
NdeI CATATG 1 cut(s) 744
NdeII GATC 2 cut(s) 366, 1040
NlaIII CATG 5 cut(s) 25, 545, 617, 638, 712
NlaIV GGNNCC 1 cut(s) 97
NmuCI GTSAC 3 cut(s) 616, 704, 922
NsiI ATGCAT 1 cut(s) 331
NspI RCATGY 1 cut(s) 638
PaeR7I CTCGAG 1 cut(s) 317
PasI CCCWGGG 1 cut(s) 120
PciI ACATGT 1 cut(s) 634
PcsI WCGNNNNNNNCGW 1 cut(s) 36
PctI GAATGC 1 cut(s) 331
PdmI GAANNNNTTC 1 cut(s) 256
PfeI GAWTC 4 cut(s) 265, 313, 345, 605
PflFI GACNNNGTC 1 cut(s) 176
PflMI CCANNNNNTGG 1 cut(s) 120
PfoI TCCNGGA 1 cut(s) 369
PkrI GCNGC 5 cut(s) 163, 682, 954, 1087, 1090
PleI GAGTC 2 cut(s) 621, 850
PpsI GAGTC 2 cut(s) 621, 850
PscI ACATGT 1 cut(s) 634
PshBI ATTAAT 1 cut(s) 978
Psp6I CCWGG 3 cut(s) 119, 241, 369
PspGI CCWGG 3 cut(s) 119, 241, 369
PspN4I GGNNCC 1 cut(s) 97
PspPI GGNCC 2 cut(s) 95, 236
PstI CTGCAG 1 cut(s) 735
PsuI RGATCY 1 cut(s) 366
PsyI GACNNNGTC 1 cut(s) 176
RsaI GTAC 4 cut(s) 134, 580, 690, 1001
RsaNI GTAC 4 cut(s) 133, 579, 689, 1000
RseI CAYNNNNRTG 1 cut(s) 20
SalI GTCGAC 1 cut(s) 179
SaqAI TTAA 3 cut(s) 939, 945, 978
SatI GCNGC 5 cut(s) 162, 681, 953, 1086, 1089
Sau3AI GATC 2 cut(s) 366, 1040
Sau96I GGNCC 2 cut(s) 95, 236
SchI GAGTC 2 cut(s) 621, 851
ScrFI CCNGG 3 cut(s) 121, 243, 371
SduI GDGCHC 1 cut(s) 298
SfaNI GCATC 5 cut(s) 338, 431, 445, 460, 939
SfcI CTRYAG 1 cut(s) 731
Sfr274I CTCGAG 1 cut(s) 317
SlaI CTCGAG 1 cut(s) 317
SmiMI CAYNNNNRTG 1 cut(s) 20
SmlI CTYRAG 1 cut(s) 317
SmoI CTYRAG 1 cut(s) 317
SpeI ACTAGT 1 cut(s) 200
Sse9I AATT 3 cut(s) 867, 1028, 1047
SsiI CCGC 4 cut(s) 136, 162, 169, 953
SspMI CTAG 1 cut(s) 201
StyD4I CCNGG 3 cut(s) 119, 241, 369
StyI CCWWGG 1 cut(s) 21
TaaI ACNGT 2 cut(s) 231, 570
TaiI ACGT 2 cut(s) 84, 159
TaqI TCGA 6 cut(s) 30, 126, 180, 318, 348, 964
TasI AATT 3 cut(s) 867, 1028, 1047
TatI WGTACW 2 cut(s) 578, 999
TauI GCSGC 2 cut(s) 164, 955
TfiI GAWTC 4 cut(s) 265, 313, 345, 605
Tru1I TTAA 3 cut(s) 939, 945, 978
Tru9I TTAA 3 cut(s) 939, 945, 978
TscAI CASTG 2 cut(s) 253, 833
TseFI GTSAC 3 cut(s) 616, 704, 922
TseI GCWGC 3 cut(s) 680, 1085, 1088
Tsp45I GTSAC 3 cut(s) 616, 704, 922
TspDTI ATGAA 2 cut(s) 602, 893
TspRI CASTG 2 cut(s) 253, 833
Tth111I GACNNNGTC 1 cut(s) 176
Van91I CCANNNNNTGG 1 cut(s) 120
VneI GTGCAC 1 cut(s) 294
VspI ATTAAT 1 cut(s) 978
XapI RAATTY 1 cut(s) 867
XceI RCATGY 1 cut(s) 638
XhoI CTCGAG 1 cut(s) 317
XmiI GTMKAC 1 cut(s) 180
XmnI GAANNNNTTC 1 cut(s) 256
XspI CTAG 1 cut(s) 201
ZraI GACGTC 1 cut(s) 157
Zsp2I ATGCAT 1 cut(s) 331
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.