Rw3G027440

Replication factor C subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0019826
Physical Location & Seq
Forward (+)
38932166 .. 38932656
491 bp
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UTR
Exon/CDS
Intron
Rw3G027440.1

Sequence Viewer

Length: 405 bp
ATGAATACTTACTCCATTAGTCAGGATGACTATGATACTATTGTAGAGTTATCAAAATTTCAGGGGCATCCAAATCCGCTGGATGGTGTCCAGCCGGCTGTAAAAGCGGCTCTGACAAAAGCATACAAAGAAGGAAGCAAATCAAGGATGACACGAGTTGCAGAGTTTGTCACTTTCCCTGGAATGAAAAAGGCTCCTAAGAAGAGGATTGCAGATATTTTAGAACCATCTGACGATGTAATTGGAGAGAACAATGATGATACAGAGGTTCTAAGTGAAGAAGAAAATTCATCTGATACAGAGGACTTTTTTTTATTTCAGATTGTTGCTGATTCATTATCTATCTTCAGAATATTGCTTTATTGTGGGGCTTTTTCAGGTTTAGGCAATTTGTCAGAACTATAA
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

134

Amino Acids

14.83

Weight (kDa)

4.45

Isoelectric Point (pI)

35.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RFC1 PF08519 1 - 43 7.9e-08 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)
AciI CCGC 2 cut(s) 77, 107
AcsI RAATTY 2 cut(s) 56, 286
AcuI CTGAAG 1 cut(s) 331
AfiI CCNNNNNNNGG 1 cut(s) 83
AjnI CCWGG 1 cut(s) 178
ApoI RAATTY 2 cut(s) 56, 286
BaeI ACNNNNGTAYC 4 cut(s) 27, 60, 252, 285
BauI CACGAG 1 cut(s) 153
BccI CCATC 2 cut(s) 77, 235
BciT130I CCWGG 1 cut(s) 180
BisI GCNGC 1 cut(s) 108
BlsI GCNGC 1 cut(s) 109
Bme1390I CCNGG 1 cut(s) 180
BmiI GGNNCC 1 cut(s) 195
BmrFI CCNGG 1 cut(s) 180
BmsI GCATC 1 cut(s) 76
BsaJI CCNNGG 1 cut(s) 178
Bsc4I CCNNNNNNNGG 1 cut(s) 83
Bse118I RCCGGY 1 cut(s) 94
BseBI CCWGG 1 cut(s) 180
BseDI CCNNGG 1 cut(s) 178
BseGI GGATG 4 cut(s) 31, 67, 88, 153
BseLI CCNNNNNNNGG 1 cut(s) 83
BsiSI CCGG 1 cut(s) 95
BslI CCNNNNNNNGG 1 cut(s) 83
BspACI CCGC 2 cut(s) 77, 107
BspLI GGNNCC 1 cut(s) 195
BsrFI RCCGGY 1 cut(s) 94
BssAI RCCGGY 1 cut(s) 94
BssECI CCNNGG 1 cut(s) 178
BssSI CACGAG 1 cut(s) 153
Bst2BI CACGAG 1 cut(s) 153
Bst2UI CCWGG 1 cut(s) 180
Bst6I CTCTTC 1 cut(s) 197
BstC8I GCNNGC 1 cut(s) 96
BstDEI CTNAG 2 cut(s) 198, 272
BstF5I GGATG 4 cut(s) 31, 67, 88, 153
BstMWI GCNNNNNNNGC 1 cut(s) 104
BstNI CCWGG 1 cut(s) 180
BstSCI CCNGG 1 cut(s) 178
BtsCI GGATG 4 cut(s) 31, 67, 88, 153
Cac8I GCNNGC 1 cut(s) 96
Cfr10I RCCGGY 1 cut(s) 94
CviJI RGCY 5 cut(s) 94, 98, 110, 194, 371
CviKI_1 RGCY 5 cut(s) 94, 98, 110, 194, 371
DdeI CTNAG 2 cut(s) 198, 272
Eam1104I CTCTTC 1 cut(s) 197
EarI CTCTTC 1 cut(s) 197
Eco57I CTGAAG 1 cut(s) 331
EcoRII CCWGG 1 cut(s) 178
FaiI YATR 3 cut(s) 33, 124, 403
Fnu4HI GCNGC 1 cut(s) 108
FokI GGATG 4 cut(s) 38, 54, 95, 160
Fsp4HI GCNGC 1 cut(s) 108
GluI GCNGC 1 cut(s) 108
HapII CCGG 1 cut(s) 95
HinfI GANTC 1 cut(s) 332
HpaII CCGG 1 cut(s) 95
Hpy188I TCNGA 6 cut(s) 114, 232, 295, 321, 350, 397
Hpy188III TCNNGA 1 cut(s) 23
HpyAV CCTTC 1 cut(s) 125
HpyCH4V TGCA 2 cut(s) 161, 212
HpyF10VI GCNNNNNNNGC 1 cut(s) 104
HpyF3I CTNAG 2 cut(s) 198, 272
KroI GCCGGC 1 cut(s) 94
KroNI GCCGGC 1 cut(s) 96
LmnI GCTCC 1 cut(s) 199
LpnPI CCDG 8 cut(s) 8, 47, 65, 104, 108, 165, 192, 363
LweI GCATC 1 cut(s) 76
MaeIII GTNAC 1 cut(s) 169
MboII GAAGA 4 cut(s) 214, 290, 293, 337
MluCI AATT 4 cut(s) 56, 240, 286, 388
MnlI CCTC 3 cut(s) 198, 259, 295
MroNI GCCGGC 1 cut(s) 94
MspA1I CMGCKG 1 cut(s) 79
MspI CCGG 1 cut(s) 95
MspR9I CCNGG 1 cut(s) 180
MvaI CCWGG 1 cut(s) 180
MwoI GCNNNNNNNGC 1 cut(s) 104
NaeI GCCGGC 1 cut(s) 96
NgoMIV GCCGGC 1 cut(s) 94
NlaIV GGNNCC 1 cut(s) 195
NmuCI GTSAC 1 cut(s) 169
PdiI GCCGGC 1 cut(s) 96
PfeI GAWTC 1 cut(s) 332
PkrI GCNGC 1 cut(s) 109
Psp6I CCWGG 1 cut(s) 178
PspGI CCWGG 1 cut(s) 178
PspN4I GGNNCC 1 cut(s) 195
SatI GCNGC 1 cut(s) 108
ScrFI CCNGG 1 cut(s) 180
SetI ASST 2 cut(s) 270, 382
SfaNI GCATC 1 cut(s) 76
Sse9I AATT 4 cut(s) 56, 240, 286, 388
SsiI CCGC 2 cut(s) 77, 107
SspI AATATT 1 cut(s) 354
StyD4I CCNGG 1 cut(s) 178
TasI AATT 4 cut(s) 56, 240, 286, 388
TauI GCSGC 1 cut(s) 110
TfiI GAWTC 1 cut(s) 332
TseFI GTSAC 1 cut(s) 169
Tsp45I GTSAC 1 cut(s) 169
TspDTI ATGAA 4 cut(s) 17, 200, 279, 324
XapI RAATTY 2 cut(s) 56, 286
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.