Rh7BG178200

Replication factor C subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7B
OG0015060
Physical Location & Seq
Forward (+)
14068376 .. 14071859
3484 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7BG178200.1

Sequence Viewer

Length: 702 bp
ATGTTTGCTCAAAAGAAAGTAACACTTCCTCCTGGGCGCCATAAAATTGTCATCTTGGATGAAGCTGACAGCATGACATCTGGAGCGCAACAAGCTTTGAGGCGGACAATGGAAATATATTCAAATTCCACGCGGTTCGCTCTTGCATGCAATACTTCCTCCAAAATCATTGAGCCTATTCAGAGTAGATGTGCCCTAGTCCGATTTTCTAGATTATCTGATCAGGAGATACTTGGTCGTCTAATGGTTGTGGTCCAAGCTGAAAAGGTTCCCTATGTTCCAGAAGGTCTGGAAGCCATCATTTTTACTGCTGATGGTGATATGAGGCAGGCATTGAATAACTTGCAAGCTACAAACAGTGGATTCCGGTTTGTCAACCAAGAAAATGTTTTCAAGGTCTGTGACCAGCCTCATCCATTGCATGTAAAGAATATGGTTCGTAACATACTTGAAGGGAAATTTGACGACGCTTGTTCGGGTCTCAAGCAGCTCTATGATTTGGGCTATTCACCCACTGACATAATCACAACTTTTTTCCGTATCATTAAAAATTATGATATGGCTGAGTATTTGAAACTGGAATTCATGAAGGAAACTGGGTTTGCTCACATGAGAATCTGCGATGGAGTTGGCTCATATCTTCAGCTGTGTGGTCTTTTGGCTAAGCTTTCCCTAGTCCGTGACACAGCCAAAGCGACATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000166 GO:0000723 GO:0000731 GO:0003674 GO:0005488 GO:0005524 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006281 GO:0006283 GO:0006289 GO:0006296 GO:0006297 GO:0006301 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0008144 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0016043 GO:0017076 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019725 GO:0019985 GO:0022402 GO:0030554 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031390 GO:0031974 GO:0031981 GO:0032200 GO:0032201 GO:0032553 GO:0032555 GO:0032559 GO:0032991 GO:0033260 GO:0033554 GO:0033683 GO:0034641 GO:0034645 GO:0034654 GO:0035639 GO:0036094 GO:0042276 GO:0042592 GO:0042769 GO:0043085 GO:0043167 GO:0043168 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0044786 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051276 GO:0051338 GO:0051347 GO:0051606 GO:0051716 GO:0060249 GO:0060255 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070987 GO:0071704 GO:0071840 GO:0071897 GO:0080090 GO:0090304 GO:0090305 GO:0090329 GO:0097159 GO:0097367 GO:1900262 GO:1900264 GO:1901265 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:2000112 GO:2000278 GO:2000573
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 map03030 map03420 map03430
Pfam Domains
Protein Families
AAA Rep_fac_C

Protein Analysis

233

Amino Acids

26.21

Weight (kDa)

8.49

Isoelectric Point (pI)

41.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_pol3_delta2 PF13177 12 - 72 1.4e-07 DNA polymerase III, delta subunit
Rep_fac_C PF08542 137 - 222 4.9e-25 Replication factor C C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015060)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G63160
fragaria_vesca FvH4_5g01730 FvH4_5g01730
malus_domestica MD04G1065200.v1.1
prunus_persica Prupe.8G039600_v2.0.a1
pyrus_communis pycom04g05880
rosa_chinensis RchiOBHm_Chr7g0198991
rosa_laevigata RLG00000003826
rosa_multiflora Rmu_sc0006266.1_g000025 Rmu_sc0007328.1_g000009
rosa_roxburghii Rroxscaffold_3G00257230
rosa_rugosa Rorug07G0052000
rosa_samantha Rh7AG175000 Rh7BG178200 Rh7DG177600
rosa_wichuraiana Rw7G015350

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 36
AccII CGCG 1 cut(s) 133
AciI CCGC 2 cut(s) 103, 133
AcsI RAATTY 3 cut(s) 124, 458, 581
AcuI CTGAAG 1 cut(s) 626
AcyI GRCGYC 1 cut(s) 37
AgsI TTSAA 5 cut(s) 123, 337, 394, 452, 574
AjnI CCWGG 1 cut(s) 31
AluBI AGCT 7 cut(s) 65, 95, 260, 350, 490, 646, 667
AluI AGCT 7 cut(s) 65, 95, 260, 350, 490, 646, 667
Alw26I GTCTC 1 cut(s) 485
ApeKI GCWGC 1 cut(s) 487
ApoI RAATTY 3 cut(s) 124, 458, 581
Asp700I GAANNNNTTC 1 cut(s) 267
AspLEI GCGC 2 cut(s) 39, 88
AspS9I GGNCC 1 cut(s) 253
AsuHPI GGTGA 2 cut(s) 329, 501
AvaII GGWCC 1 cut(s) 253
BaeGI GKGCMC 1 cut(s) 196
BanI GGYRCC 1 cut(s) 36
BbvI GCAGC 1 cut(s) 499
BccI CCATC 3 cut(s) 305, 308, 617
BciT130I CCWGG 1 cut(s) 33
BclI TGATCA 1 cut(s) 220
BcoDI GTCTC 1 cut(s) 485
BfaI CTAG 3 cut(s) 197, 210, 674
BfoI RGCGCY 1 cut(s) 40
BisI GCNGC 1 cut(s) 488
BlpI GCTNAGC 1 cut(s) 663
BlsI GCNGC 1 cut(s) 489
Bme1390I CCNGG 1 cut(s) 33
Bme18I GGWCC 1 cut(s) 253
BmgT120I GGNCC 1 cut(s) 253
BmiI GGNNCC 2 cut(s) 38, 270
BmrFI CCNGG 1 cut(s) 33
BmrI ACTGGG 1 cut(s) 606
BmuI ACTGGG 1 cut(s) 606
BpmI CTGGAG 1 cut(s) 102
Bpu1102I GCTNAGC 1 cut(s) 663
BpuEI CTTGAG 1 cut(s) 467
BsaHI GRCGYC 1 cut(s) 37
BsaI GGTCTC 1 cut(s) 485
BsaJI CCNNGG 1 cut(s) 32
BsaWI WCCGGW 1 cut(s) 366
BsaXI ACNNNNNCTCC 2 cut(s) 13, 43
Bse1I ACTGG 2 cut(s) 582, 601
Bse3DI GCAATG 1 cut(s) 416
BseBI CCWGG 1 cut(s) 33
BseDI CCNNGG 1 cut(s) 32
BseGI GGATG 2 cut(s) 64, 412
BseMI GCAATG 1 cut(s) 416
BseMII CTCAG 1 cut(s) 555
BseNI ACTGG 2 cut(s) 582, 601
BseSI GKGCMC 1 cut(s) 196
BseXI GCAGC 1 cut(s) 499
Bsh1236I CGCG 1 cut(s) 133
BshNI GGYRCC 1 cut(s) 36
BsiSI CCGG 1 cut(s) 367
BsmAI GTCTC 1 cut(s) 485
Bso31I GGTCTC 1 cut(s) 485
Bsp1286I GDGCHC 1 cut(s) 196
Bsp143I GATC 1 cut(s) 220
Bsp1720I GCTNAGC 1 cut(s) 663
BspACI CCGC 2 cut(s) 103, 133
BspCNI CTCAG 1 cut(s) 556
BspFNI CGCG 1 cut(s) 133
BspHI TCATGA 1 cut(s) 585
BspLI GGNNCC 2 cut(s) 38, 270
BspT107I GGYRCC 1 cut(s) 36
BspTNI GGTCTC 1 cut(s) 485
BsrDI GCAATG 1 cut(s) 416
BsrI ACTGG 2 cut(s) 582, 601
BssECI CCNNGG 1 cut(s) 32
BssMI GATC 1 cut(s) 220
BssNI GRCGYC 1 cut(s) 37
Bst2UI CCWGG 1 cut(s) 33
Bst4CI ACNGT 1 cut(s) 359
BstACI GRCGYC 1 cut(s) 37
BstC8I GCNNGC 3 cut(s) 148, 330, 348
BstDEI CTNAG 2 cut(s) 564, 663
BstF5I GGATG 2 cut(s) 64, 412
BstFNI CGCG 1 cut(s) 133
BstH2I RGCGCY 1 cut(s) 40
BstHHI GCGC 2 cut(s) 39, 88
BstKTI GATC 1 cut(s) 223
BstMAI GTCTC 1 cut(s) 485
BstMBI GATC 1 cut(s) 220
BstMWI GCNNNNNNNGC 1 cut(s) 92
BstNI CCWGG 1 cut(s) 33
BstNSI RCATGY 2 cut(s) 150, 425
BstSCI CCNGG 1 cut(s) 31
BstSLI GKGCMC 1 cut(s) 196
BstUI CGCG 1 cut(s) 133
BstV1I GCAGC 1 cut(s) 499
BtgZI GCGATG 1 cut(s) 636
BtsCI GGATG 2 cut(s) 64, 412
BtsIMutI CAGTG 2 cut(s) 364, 513
Cac8I GCNNGC 3 cut(s) 148, 330, 348
CciI TCATGA 1 cut(s) 585
CfoI GCGC 2 cut(s) 39, 88
Cfr13I GGNCC 1 cut(s) 253
CseI GACGC 1 cut(s) 476
CviAII CATG 5 cut(s) 73, 147, 422, 586, 610
DdeI CTNAG 2 cut(s) 564, 663
DinI GGCGCC 1 cut(s) 38
DpnI GATC 1 cut(s) 222
DpnII GATC 1 cut(s) 220
EciI GGCGGA 1 cut(s) 118
Eco31I GGTCTC 1 cut(s) 485
Eco47I GGWCC 1 cut(s) 253
Eco57I CTGAAG 1 cut(s) 626
EcoRI GAATTC 1 cut(s) 581
EcoRII CCWGG 1 cut(s) 31
EgeI GGCGCC 1 cut(s) 38
EheI GGCGCC 1 cut(s) 38
FaeI CATG 5 cut(s) 76, 150, 425, 589, 613
FalI AAGNNNNNCTT 2 cut(s) 9, 41
FatI CATG 5 cut(s) 72, 146, 421, 585, 609
FbaI TGATCA 1 cut(s) 220
Fnu4HI GCNGC 1 cut(s) 488
FokI GGATG 2 cut(s) 71, 399
Fsp4HI GCNGC 1 cut(s) 488
FspBI CTAG 3 cut(s) 197, 210, 674
GlaI GCGC 2 cut(s) 38, 87
GluI GCNGC 1 cut(s) 488
GsuI CTGGAG 1 cut(s) 102
HaeII RGCGCY 1 cut(s) 40
HapII CCGG 1 cut(s) 367
HgaI GACGC 1 cut(s) 476
HhaI GCGC 2 cut(s) 39, 88
Hin1I GRCGYC 1 cut(s) 37
Hin1II CATG 5 cut(s) 76, 150, 425, 589, 613
Hin6I GCGC 2 cut(s) 37, 86
HinP1I GCGC 2 cut(s) 37, 86
HincII GTYRAC 1 cut(s) 376
HindII GTYRAC 1 cut(s) 376
HindIII AAGCTT 2 cut(s) 93, 665
HinfI GANTC 2 cut(s) 363, 615
HpaII CCGG 1 cut(s) 367
HphI GGTGA 2 cut(s) 329, 501
Hpy166II GTNNAC 1 cut(s) 376
Hpy188I TCNGA 3 cut(s) 183, 203, 220
Hpy188III TCNNGA 6 cut(s) 81, 210, 224, 281, 290, 586
Hpy8I GTNNAC 1 cut(s) 376
Hpy99I CGWCG 1 cut(s) 470
HpyAV CCTTC 3 cut(s) 278, 446, 583
HpyCH4III ACNGT 1 cut(s) 359
HpyCH4V TGCA 4 cut(s) 146, 150, 346, 421
HpyF10VI GCNNNNNNNGC 1 cut(s) 92
HpyF3I CTNAG 2 cut(s) 564, 663
Hsp92I GRCGYC 1 cut(s) 37
Hsp92II CATG 5 cut(s) 76, 150, 425, 589, 613
HspAI GCGC 2 cut(s) 37, 86
KasI GGCGCC 1 cut(s) 36
Ksp22I TGATCA 1 cut(s) 220
Kzo9I GATC 1 cut(s) 220
LmnI GCTCC 1 cut(s) 83
Lsp1109I GCAGC 1 cut(s) 499
MaeI CTAG 3 cut(s) 197, 210, 674
MaeIII GTNAC 4 cut(s) 19, 401, 440, 680
MalI GATC 1 cut(s) 222
MboI GATC 1 cut(s) 220
MboII GAAGA 1 cut(s) 632
MhlI GDGCHC 1 cut(s) 196
MluCI AATT 5 cut(s) 45, 124, 458, 550, 581
Mly113I GGCGCC 1 cut(s) 37
MnlI CCTC 5 cut(s) 39, 93, 169, 318, 420
MroXI GAANNNNTTC 1 cut(s) 267
MseI TTAA 1 cut(s) 546
MspA1I CMGCKG 1 cut(s) 646
MspI CCGG 1 cut(s) 367
MspR9I CCNGG 1 cut(s) 33
MvaI CCWGG 1 cut(s) 33
MvnI CGCG 1 cut(s) 133
MwoI GCNNNNNNNGC 1 cut(s) 92
NarI GGCGCC 1 cut(s) 37
NdeII GATC 1 cut(s) 220
NlaIII CATG 5 cut(s) 76, 150, 425, 589, 613
NlaIV GGNNCC 2 cut(s) 38, 270
NmuCI GTSAC 2 cut(s) 401, 680
NspI RCATGY 2 cut(s) 150, 425
PaeI GCATGC 1 cut(s) 150
PagI TCATGA 1 cut(s) 585
PdmI GAANNNNTTC 1 cut(s) 267
PfeI GAWTC 2 cut(s) 363, 615
PkrI GCNGC 1 cut(s) 489
PluTI GGCGCC 1 cut(s) 40
Psp6I CCWGG 1 cut(s) 31
PspGI CCWGG 1 cut(s) 31
PspN4I GGNNCC 2 cut(s) 38, 270
PspPI GGNCC 1 cut(s) 253
PvuII CAGCTG 1 cut(s) 646
SaqAI TTAA 1 cut(s) 546
SatI GCNGC 1 cut(s) 488
Sau3AI GATC 1 cut(s) 220
Sau96I GGNCC 1 cut(s) 253
ScrFI CCNGG 1 cut(s) 33
SduI GDGCHC 1 cut(s) 196
SfoI GGCGCC 1 cut(s) 38
SinI GGWCC 1 cut(s) 253
SmlI CTYRAG 1 cut(s) 482
SmoI CTYRAG 1 cut(s) 482
SphI GCATGC 1 cut(s) 150
Sse9I AATT 5 cut(s) 45, 124, 458, 550, 581
SsiI CCGC 2 cut(s) 103, 133
SspDI GGCGCC 1 cut(s) 36
SspMI CTAG 3 cut(s) 197, 210, 674
StyD4I CCNGG 1 cut(s) 31
TaaI ACNGT 1 cut(s) 359
TasI AATT 5 cut(s) 45, 124, 458, 550, 581
TfiI GAWTC 2 cut(s) 363, 615
Tru1I TTAA 1 cut(s) 546
Tru9I TTAA 1 cut(s) 546
TscAI CASTG 2 cut(s) 364, 520
TseFI GTSAC 2 cut(s) 401, 680
TseI GCWGC 1 cut(s) 487
Tsp45I GTSAC 2 cut(s) 401, 680
TspDTI ATGAA 3 cut(s) 75, 574, 602
TspGWI ACGGA 2 cut(s) 527, 668
TspRI CASTG 2 cut(s) 364, 520
VpaK11BI GGWCC 1 cut(s) 253
XapI RAATTY 3 cut(s) 124, 458, 581
XbaI TCTAGA 1 cut(s) 209
XceI RCATGY 2 cut(s) 150, 425
XmnI GAANNNNTTC 1 cut(s) 267
XspI CTAG 3 cut(s) 197, 210, 674
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.