Rh3AG313500

Replication factor C subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0019826
Physical Location & Seq
Forward (+)
39936811 .. 39945488
8678 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG313500.1

Sequence Viewer

Length: 780 bp
ATGGAACCTATTTCTCAATATTATTCAGCACCACAATACTTCCATATGCCATATGTTTCTCACAATATTCCAAGTTCACAGCCACAATATGTTTCTCACAATATTCCATCATCACAACCACAGAGTCATCGAAGCTCATTCAATATGACATATTCTGGACCTTACCCTGTGTCTTATATTGATTTTACGCCCACGTCATCACAACTGTGCTTTCAAGCCCCTCCCTACTTCCTTAATGATGAAGCTGTTCAGGAAGTTGTGGAGTTCATGAATACTTACTCCATTAGTCAGGATGACTATGATACTATCGTAGAGTTATCAAAATTTCAGGGGCATCCAAATCCGCTGGATTGTGTCCAGCCGGCTGTAAAAGCAGCTCTGACAAAAGCATACAAAGAAGGAAGCAAATCAAGGATGACACGAGTTGCAGAGTTTGTCACTTTCCCTGGAATGAAAAAGGCTCCTAAGAAGAGGATTGCAGATATTTTAGAACCATCTGACGATGTAATTGGAGAGAACAATGATGATACAGAGGTTCTAAGTGAAGAAGAAAATTCATCTGATACAGAGGACTTGGAAAGCTCTGCTGTCAGGGAGAAGGTGCAAGAGGAACTTCAAAGTTTGAATAAAAAAGGAGTGCAAGTTCAATTGGATTTGAAGTGTGCAGCAAATCCAAGTGCCAAGAGGACACCAGCTGGAAAAGGTAAATGTGGTTCTTCTGGTGCCTCTGAGAAAAAAGGTGGCCGAGGTTTAGGGTCTGGTTCCAAAAGAAAGAGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000166 GO:0000280 GO:0000712 GO:0000723 GO:0000731 GO:0001101 GO:0003674 GO:0003676 GO:0003677 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:0006278 GO:0006281 GO:0006283 GO:0006289 GO:0006296 GO:0006297 GO:0006301 GO:0006310 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007004 GO:0007049 GO:0007059 GO:0007127 GO:0007131 GO:0008047 GO:0008144 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009719 GO:0009725 GO:0009737 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010833 GO:0016043 GO:0017076 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019725 GO:0019985 GO:0022402 GO:0022414 GO:0030234 GO:0030554 GO:0031056 GO:0031060 GO:0031323 GO:0031326 GO:0031399 GO:0031935 GO:0031974 GO:0031981 GO:0032200 GO:0032201 GO:0032268 GO:0032553 GO:0032555 GO:0032559 GO:0032991 GO:0033043 GO:0033044 GO:0033260 GO:0033554 GO:0033683 GO:0033993 GO:0034641 GO:0034645 GO:0034654 GO:0035639 GO:0035825 GO:0036094 GO:0042221 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:0045132 GO:0046483 GO:0048285 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051246 GO:0051252 GO:0051276 GO:0051304 GO:0051307 GO:0051321 GO:0051570 GO:0051606 GO:0051716 GO:0060249 GO:0060255 GO:0060968 GO:0061982 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070987 GO:0071704 GO:0071840 GO:0071897 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:0097305 GO:0097367 GO:0098772 GO:0098813 GO:0140013 GO:1901265 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1901700 GO:1902275 GO:1903046 GO:1903506 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 map03030 map03420 map03430
Pfam Domains
Protein Families
AAA BRCT RFC1

Protein Analysis

259

Amino Acids

28.62

Weight (kDa)

5.8

Isoelectric Point (pI)

58.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RFC1 PF08519 79 - 132 9.2e-12 Replication factor RFC1 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: OG0019826)

Species Orthologous Gene IDs
pyrus_communis pycom10g04070
rosa_chinensis RchiOBHm_Chr3g0494061
rosa_multiflora Rmu_sc0003412.1_g000010
rosa_rugosa Rorug07G0014300
rosa_samantha Rh3AG313500 Rh4AG150200
rosa_wichuraiana Rw3G027440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 722
AciI CCGC 1 cut(s) 344
AcoI YGGCCR 1 cut(s) 742
AcsI RAATTY 2 cut(s) 323, 553
AgsI TTSAA 6 cut(s) 142, 215, 617, 625, 647, 658
AjiI CACGTC 1 cut(s) 195
AjnI CCWGG 1 cut(s) 445
AleI CACNNNNGTG 1 cut(s) 205
AloI GAACNNNNNNTCC 2 cut(s) 627, 659
AluBI AGCT 5 cut(s) 135, 245, 377, 582, 695
AluI AGCT 5 cut(s) 135, 245, 377, 582, 695
AoxI GGCC 1 cut(s) 742
ApeKI GCWGC 2 cut(s) 374, 665
ApoI RAATTY 2 cut(s) 323, 553
Asp700I GAANNNNTTC 1 cut(s) 246
AspS9I GGNCC 1 cut(s) 158
AvaII GGWCC 1 cut(s) 158
BaeI ACNNNNGTAYC 4 cut(s) 294, 327, 519, 552
BanI GGYRCC 1 cut(s) 722
BauI CACGAG 1 cut(s) 420
BbvI GCAGC 2 cut(s) 386, 677
BccI CCATC 2 cut(s) 115, 502
BciT130I CCWGG 1 cut(s) 447
BisI GCNGC 2 cut(s) 375, 666
BlsI GCNGC 2 cut(s) 376, 667
Bme1390I CCNGG 1 cut(s) 447
Bme18I GGWCC 1 cut(s) 158
BmgBI CACGTC 1 cut(s) 195
BmgT120I GGNCC 1 cut(s) 158
BmiI GGNNCC 4 cut(s) 6, 462, 724, 763
BmrFI CCNGG 1 cut(s) 447
BmsI GCATC 1 cut(s) 343
BsaJI CCNNGG 2 cut(s) 445, 745
BsaXI ACNNNNNCTCC 2 cut(s) 627, 657
Bse118I RCCGGY 1 cut(s) 361
BseBI CCWGG 1 cut(s) 447
BseDI CCNNGG 2 cut(s) 445, 745
BseGI GGATG 3 cut(s) 298, 334, 420
BseMII CTCAG 1 cut(s) 720
BseXI GCAGC 2 cut(s) 386, 677
BsgI GTGCAG 1 cut(s) 684
BshFI GGCC 1 cut(s) 744
BshNI GGYRCC 1 cut(s) 722
BsiSI CCGG 1 cut(s) 362
BsnI GGCC 1 cut(s) 744
BspACI CCGC 1 cut(s) 344
BspANI GGCC 1 cut(s) 744
BspCNI CTCAG 1 cut(s) 721
BspHI TCATGA 1 cut(s) 267
BspLI GGNNCC 4 cut(s) 6, 462, 724, 763
BspT107I GGYRCC 1 cut(s) 722
BsrFI RCCGGY 1 cut(s) 361
BssAI RCCGGY 1 cut(s) 361
BssECI CCNNGG 2 cut(s) 445, 745
BssSI CACGAG 1 cut(s) 420
Bst2BI CACGAG 1 cut(s) 420
Bst2UI CCWGG 1 cut(s) 447
Bst4CI ACNGT 1 cut(s) 207
Bst6I CTCTTC 1 cut(s) 464
BstC8I GCNNGC 1 cut(s) 363
BstDEI CTNAG 3 cut(s) 465, 539, 729
BstF5I GGATG 3 cut(s) 298, 334, 420
BstMWI GCNNNNNNNGC 1 cut(s) 371
BstNI CCWGG 1 cut(s) 447
BstSCI CCNGG 1 cut(s) 445
BstV1I GCAGC 2 cut(s) 386, 677
BsuRI GGCC 1 cut(s) 744
BtrI CACGTC 1 cut(s) 195
BtsCI GGATG 3 cut(s) 298, 334, 420
Cac8I GCNNGC 1 cut(s) 363
CciI TCATGA 1 cut(s) 267
Cfr10I RCCGGY 1 cut(s) 361
Cfr13I GGNCC 1 cut(s) 158
CviAII CATG 1 cut(s) 268
DdeI CTNAG 3 cut(s) 465, 539, 729
EaeI YGGCCR 1 cut(s) 742
Eam1104I CTCTTC 1 cut(s) 464
EarI CTCTTC 1 cut(s) 464
Eco47I GGWCC 1 cut(s) 158
EcoRII CCWGG 1 cut(s) 445
FaeI CATG 1 cut(s) 271
FalI AAGNNNNNCTT 2 cut(s) 597, 629
FatI CATG 1 cut(s) 267
FauNDI CATATG 2 cut(s) 45, 52
Fnu4HI GCNGC 2 cut(s) 375, 666
FokI GGATG 3 cut(s) 305, 321, 427
Fsp4HI GCNGC 2 cut(s) 375, 666
GluI GCNGC 2 cut(s) 375, 666
HaeIII GGCC 1 cut(s) 744
HapII CCGG 1 cut(s) 362
Hin1II CATG 1 cut(s) 271
HinfI GANTC 1 cut(s) 124
HpaII CCGG 1 cut(s) 362
Hpy166II GTNNAC 1 cut(s) 77
Hpy188I TCNGA 4 cut(s) 381, 499, 562, 730
Hpy188III TCNNGA 4 cut(s) 156, 251, 268, 290
Hpy8I GTNNAC 1 cut(s) 77
HpyAV CCTTC 2 cut(s) 392, 592
HpyCH4III ACNGT 1 cut(s) 207
HpyCH4IV ACGT 1 cut(s) 194
HpyCH4V TGCA 5 cut(s) 428, 479, 604, 640, 665
HpyF10VI GCNNNNNNNGC 1 cut(s) 371
HpyF3I CTNAG 3 cut(s) 465, 539, 729
HpySE526I ACGT 1 cut(s) 194
Hsp92II CATG 1 cut(s) 271
KroI GCCGGC 1 cut(s) 361
KroNI GCCGGC 1 cut(s) 363
LmnI GCTCC 1 cut(s) 466
Lsp1109I GCAGC 2 cut(s) 386, 677
LweI GCATC 1 cut(s) 343
MaeII ACGT 1 cut(s) 194
MaeIII GTNAC 1 cut(s) 436
MboII GAAGA 4 cut(s) 481, 557, 560, 708
MfeI CAATTG 1 cut(s) 647
MluCI AATT 4 cut(s) 323, 507, 553, 647
MlyI GAGTC 1 cut(s) 133
MnlI CCTC 8 cut(s) 231, 465, 526, 562, 601, 678, 736, 740
MroNI GCCGGC 1 cut(s) 361
MroXI GAANNNNTTC 1 cut(s) 246
MseI TTAA 1 cut(s) 234
MslI CAYNNNNRTG 1 cut(s) 205
MspA1I CMGCKG 2 cut(s) 346, 695
MspI CCGG 1 cut(s) 362
MspR9I CCNGG 1 cut(s) 447
MunI CAATTG 1 cut(s) 647
MvaI CCWGG 1 cut(s) 447
MwoI GCNNNNNNNGC 1 cut(s) 371
NaeI GCCGGC 1 cut(s) 363
NdeI CATATG 2 cut(s) 45, 52
NgoMIV GCCGGC 1 cut(s) 361
NlaIII CATG 1 cut(s) 271
NlaIV GGNNCC 4 cut(s) 6, 462, 724, 763
NmeAIII GCCGAG 1 cut(s) 770
NmuCI GTSAC 1 cut(s) 436
OliI CACNNNNGTG 1 cut(s) 205
PagI TCATGA 1 cut(s) 267
PdiI GCCGGC 1 cut(s) 363
PdmI GAANNNNTTC 1 cut(s) 246
PkrI GCNGC 2 cut(s) 376, 667
PleI GAGTC 1 cut(s) 132
PpsI GAGTC 1 cut(s) 132
Psp6I CCWGG 1 cut(s) 445
PspGI CCWGG 1 cut(s) 445
PspN4I GGNNCC 4 cut(s) 6, 462, 724, 763
PspPI GGNCC 1 cut(s) 158
PsrI GAACNNNNNNTAC 2 cut(s) 697, 729
PvuII CAGCTG 1 cut(s) 695
RseI CAYNNNNRTG 1 cut(s) 205
SaqAI TTAA 1 cut(s) 234
SatI GCNGC 2 cut(s) 375, 666
Sau96I GGNCC 1 cut(s) 158
SchI GAGTC 1 cut(s) 133
ScrFI CCNGG 1 cut(s) 447
SfaNI GCATC 1 cut(s) 343
SinI GGWCC 1 cut(s) 158
SmiMI CAYNNNNRTG 1 cut(s) 205
Sse9I AATT 4 cut(s) 323, 507, 553, 647
SsiI CCGC 1 cut(s) 344
SspI AATATT 3 cut(s) 20, 67, 103
StyD4I CCNGG 1 cut(s) 445
TaaI ACNGT 1 cut(s) 207
TaiI ACGT 1 cut(s) 197
TaqI TCGA 1 cut(s) 130
TasI AATT 4 cut(s) 323, 507, 553, 647
Tru1I TTAA 1 cut(s) 234
Tru9I TTAA 1 cut(s) 234
TseFI GTSAC 1 cut(s) 436
TseI GCWGC 2 cut(s) 374, 665
Tsp45I GTSAC 1 cut(s) 436
TspDTI ATGAA 5 cut(s) 255, 256, 284, 467, 546
VpaK11BI GGWCC 1 cut(s) 158
XapI RAATTY 2 cut(s) 323, 553
XmnI GAANNNNTTC 1 cut(s) 246
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.