RchiOBHm_Chr3g0473901

Replication protein A 14 kDa subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0013004
Physical Location & Seq
Reverse (-)
19640755 .. 19643094
2340 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 561 bp
ATGTTTTGGCGCTTAATTTTGCCGCCCCGTCAAAAATCAAACCACTTTCGTATCCGCGTGTGGGGGCGCGTGTTTCACAGTCGCGTCTCTGATATAAAAACCCTTTGCAGTCTCAGAGTTGAGAAAACCCTCTCAGATTCTTCTTCATCTTTTGCCGCGCTCTCCGTCGCTCGATCTTCCAAACTCAAGTTCTATTCTCGACTCAGTTTCTCCGGCGATCTCCTCCGATCATCAACAGATATGGATACGTCAAACCCGTCCGTTTTTGTGAATGCAGAGCTGCTGCGGTTGTATGTCGGAAGGCAGGTTCGGGCGTTGATTCAGGTTGTGCAACTGGATGCTGGATCTGTCATTGGCAAATCTACTGATGAAATTCAGTTAATTGTAAAGGGCACCCCACCCTTTCCTCTTACAAAATTTGTTGAGGTCATAGGTATTGCTGACAGCGATAAATCTATCCAAGCTAGCATATGGAACAACTTTGGTGACACAATTGACACGCATGCTTACAATCAGCTTTGCTTGCTTGCAAATGGAGAATTTAAGCACTTGTTCATCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
Rep_fac-A_3

Protein Analysis

186

Amino Acids

20.91

Weight (kDa)

9.69

Isoelectric Point (pI)

27.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rep_fac-A_3 PF08661 81 - 182 6.9e-20 Replication factor A protein 3
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0013004)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G52630 AT3G52630 AT4G18590
fragaria_vesca FvH4_6g18910
malus_domestica MD12G1025300.v1.1 MD14G1024000.v1.1
prunus_persica Prupe.7G108800_v2.0.a1
pyrus_communis pycom12g02480
rosa_chinensis RchiOBHm_Chr3g0473901
rosa_laevigata RLG00000023972
rosa_multiflora Rmu_sc0002414.1_g000040
rosa_roxburghii Rroxscaffold_6G00407670
rosa_rugosa Rorug03G0136800
rosa_samantha Rh3AG187000 Rh3BG215600 Rh3CG212300 Rh3DG211500
rosa_wichuraiana Rw3G017120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 295
AccB1I GGYRCC 1 cut(s) 392
AccII CGCG 4 cut(s) 57, 69, 84, 158
AciI CCGC 4 cut(s) 23, 55, 156, 286
AclWI GGATC 1 cut(s) 352
AcsI RAATTY 3 cut(s) 372, 416, 539
AfiI CCNNNNNNNGG 1 cut(s) 61
AjuI GAANNNNNNNTTGG 2 cut(s) 173, 205
AloI GAACNNNNNNTCC 2 cut(s) 291, 323
AluBI AGCT 3 cut(s) 280, 464, 517
AluI AGCT 3 cut(s) 280, 464, 517
Alw26I GTCTC 2 cut(s) 91, 116
AlwI GGATC 1 cut(s) 352
ApeKI GCWGC 2 cut(s) 280, 283
ApoI RAATTY 3 cut(s) 372, 416, 539
AspLEI GCGC 3 cut(s) 12, 69, 160
AsuHPI GGTGA 1 cut(s) 497
AsuNHI GCTAGC 1 cut(s) 464
BaeGI GKGCMC 1 cut(s) 395
BaeI ACNNNNGTAYC 2 cut(s) 34, 67
BanI GGYRCC 1 cut(s) 392
BbvI GCAGC 2 cut(s) 267, 270
BciVI GTATCC 2 cut(s) 62, 238
BcoDI GTCTC 2 cut(s) 91, 116
BfaI CTAG 1 cut(s) 465
BfoI RGCGCY 1 cut(s) 13
BfuAI ACCTGC 1 cut(s) 295
BfuI GTATCC 2 cut(s) 62, 238
BisI GCNGC 4 cut(s) 23, 156, 281, 284
BlsI GCNGC 4 cut(s) 24, 157, 282, 285
BmiI GGNNCC 1 cut(s) 394
BmsI GCATC 1 cut(s) 328
BmtI GCTAGC 1 cut(s) 468
BpuEI CTTGAG 1 cut(s) 170
Bsc4I CCNNNNNNNGG 1 cut(s) 61
Bse1I ACTGG 1 cut(s) 339
BseGI GGATG 1 cut(s) 343
BseLI CCNNNNNNNGG 1 cut(s) 61
BseMII CTCAG 3 cut(s) 127, 147, 217
BseNI ACTGG 1 cut(s) 339
BseRI GAGGAG 1 cut(s) 212
BseSI GKGCMC 1 cut(s) 395
BseXI GCAGC 2 cut(s) 267, 270
Bsh1236I CGCG 4 cut(s) 57, 69, 84, 158
BshNI GGYRCC 1 cut(s) 392
BsiSI CCGG 1 cut(s) 213
BslI CCNNNNNNNGG 1 cut(s) 61
BsmAI GTCTC 2 cut(s) 91, 116
BsmBI CGTCTC 1 cut(s) 91
BsmI GAATGC 1 cut(s) 277
Bsp1286I GDGCHC 1 cut(s) 395
Bsp143I GATC 4 cut(s) 173, 217, 227, 344
BspACI CCGC 4 cut(s) 23, 55, 156, 286
BspCNI CTCAG 3 cut(s) 126, 146, 216
BspFNI CGCG 4 cut(s) 57, 69, 84, 158
BspLI GGNNCC 1 cut(s) 394
BspMI ACCTGC 1 cut(s) 295
BspOI GCTAGC 1 cut(s) 468
BspPI GGATC 1 cut(s) 352
BspT107I GGYRCC 1 cut(s) 392
BsrI ACTGG 1 cut(s) 339
BssMI GATC 4 cut(s) 173, 217, 227, 344
Bst4CI ACNGT 1 cut(s) 80
BstC8I GCNNGC 4 cut(s) 466, 504, 524, 528
BstDEI CTNAG 3 cut(s) 113, 133, 203
BstF5I GGATG 1 cut(s) 343
BstFNI CGCG 4 cut(s) 57, 69, 84, 158
BstH2I RGCGCY 1 cut(s) 13
BstHHI GCGC 3 cut(s) 12, 69, 160
BstKTI GATC 4 cut(s) 176, 220, 230, 347
BstMAI GTCTC 2 cut(s) 91, 116
BstMBI GATC 4 cut(s) 173, 217, 227, 344
BstMWI GCNNNNNNNGC 1 cut(s) 523
BstNSI RCATGY 1 cut(s) 506
BstSLI GKGCMC 1 cut(s) 395
BstUI CGCG 4 cut(s) 57, 69, 84, 158
BstV1I GCAGC 2 cut(s) 267, 270
BstX2I RGATCY 1 cut(s) 344
BstYI RGATCY 1 cut(s) 344
BsuI GTATCC 2 cut(s) 62, 238
BtsCI GGATG 1 cut(s) 343
BveI ACCTGC 1 cut(s) 295
Cac8I GCNNGC 4 cut(s) 466, 504, 524, 528
CfoI GCGC 3 cut(s) 12, 69, 160
CseI GACGC 1 cut(s) 73
CviAII CATG 1 cut(s) 503
CviJI RGCY 3 cut(s) 280, 464, 517
CviKI_1 RGCY 3 cut(s) 280, 464, 517
DdeI CTNAG 3 cut(s) 113, 133, 203
DpnI GATC 4 cut(s) 175, 219, 229, 346
DpnII GATC 4 cut(s) 173, 217, 227, 344
Esp3I CGTCTC 1 cut(s) 91
FaeI CATG 1 cut(s) 506
FaiI YATR 7 cut(s) 95, 242, 294, 431, 470, 472, 504
FatI CATG 1 cut(s) 502
FauNDI CATATG 1 cut(s) 470
Fnu4HI GCNGC 4 cut(s) 23, 156, 281, 284
FokI GGATG 1 cut(s) 350
Fsp4HI GCNGC 4 cut(s) 23, 156, 281, 284
FspBI CTAG 1 cut(s) 465
GlaI GCGC 3 cut(s) 11, 68, 159
GluI GCNGC 4 cut(s) 23, 156, 281, 284
HaeII RGCGCY 1 cut(s) 13
HapII CCGG 1 cut(s) 213
HgaI GACGC 1 cut(s) 73
HhaI GCGC 3 cut(s) 12, 69, 160
Hin1II CATG 1 cut(s) 506
Hin6I GCGC 3 cut(s) 10, 67, 158
HinP1I GCGC 3 cut(s) 10, 67, 158
HinfI GANTC 3 cut(s) 137, 201, 319
HpaII CCGG 1 cut(s) 213
HphI GGTGA 1 cut(s) 497
Hpy188I TCNGA 6 cut(s) 91, 116, 136, 227, 299, 560
Hpy188III TCNNGA 1 cut(s) 198
Hpy99I CGWCG 1 cut(s) 170
HpyAV CCTTC 1 cut(s) 294
HpyCH4III ACNGT 1 cut(s) 80
HpyCH4IV ACGT 1 cut(s) 248
HpyCH4V TGCA 4 cut(s) 108, 275, 331, 530
HpyF10VI GCNNNNNNNGC 1 cut(s) 523
HpyF3I CTNAG 3 cut(s) 113, 133, 203
HpySE526I ACGT 1 cut(s) 248
Hsp92II CATG 1 cut(s) 506
HspAI GCGC 3 cut(s) 10, 67, 158
Kzo9I GATC 4 cut(s) 173, 217, 227, 344
LpnPI CCDG 5 cut(s) 226, 290, 308, 320, 327
Lsp1109I GCAGC 2 cut(s) 267, 270
LweI GCATC 1 cut(s) 328
MaeI CTAG 1 cut(s) 465
MaeII ACGT 1 cut(s) 248
MaeIII GTNAC 1 cut(s) 485
MalI GATC 4 cut(s) 175, 219, 229, 346
MboI GATC 4 cut(s) 173, 217, 227, 344
MboII GAAGA 3 cut(s) 132, 135, 168
MfeI CAATTG 1 cut(s) 492
MflI RGATCY 1 cut(s) 344
MhlI GDGCHC 1 cut(s) 395
MluCI AATT 6 cut(s) 15, 372, 381, 416, 492, 539
MlyI GAGTC 1 cut(s) 195
MmeI TCCRAC 1 cut(s) 277
MnlI CCTC 4 cut(s) 140, 233, 417, 418
MseI TTAA 3 cut(s) 14, 380, 543
MspI CCGG 1 cut(s) 213
MunI CAATTG 1 cut(s) 492
Mva1269I GAATGC 1 cut(s) 277
MvnI CGCG 4 cut(s) 57, 69, 84, 158
MwoI GCNNNNNNNGC 1 cut(s) 523
NdeI CATATG 1 cut(s) 470
NdeII GATC 4 cut(s) 173, 217, 227, 344
NheI GCTAGC 1 cut(s) 464
NlaIII CATG 1 cut(s) 506
NlaIV GGNNCC 1 cut(s) 394
NmuCI GTSAC 1 cut(s) 485
NspI RCATGY 1 cut(s) 506
PaeI GCATGC 1 cut(s) 506
PcsI WCGNNNNNNNCGW 1 cut(s) 254
PctI GAATGC 1 cut(s) 277
PfeI GAWTC 2 cut(s) 137, 319
PkrI GCNGC 4 cut(s) 24, 157, 282, 285
PleI GAGTC 1 cut(s) 195
PpsI GAGTC 1 cut(s) 195
PspN4I GGNNCC 1 cut(s) 394
PsuI RGATCY 1 cut(s) 344
SaqAI TTAA 3 cut(s) 14, 380, 543
SatI GCNGC 4 cut(s) 23, 156, 281, 284
Sau3AI GATC 4 cut(s) 173, 217, 227, 344
SchI GAGTC 1 cut(s) 195
SduI GDGCHC 1 cut(s) 395
SetI ASST 8 cut(s) 251, 282, 309, 327, 429, 436, 466, 519
SfaNI GCATC 1 cut(s) 328
SmlI CTYRAG 1 cut(s) 185
SmoI CTYRAG 1 cut(s) 185
SphI GCATGC 1 cut(s) 506
Sse9I AATT 6 cut(s) 15, 372, 381, 416, 492, 539
SsiI CCGC 4 cut(s) 23, 55, 156, 286
SspMI CTAG 1 cut(s) 465
TaaI ACNGT 1 cut(s) 80
TaiI ACGT 1 cut(s) 251
TaqI TCGA 2 cut(s) 172, 199
TasI AATT 6 cut(s) 15, 372, 381, 416, 492, 539
TauI GCSGC 2 cut(s) 25, 158
TfiI GAWTC 2 cut(s) 137, 319
Tru1I TTAA 3 cut(s) 14, 380, 543
Tru9I TTAA 3 cut(s) 14, 380, 543
TseFI GTSAC 1 cut(s) 485
TseI GCWGC 2 cut(s) 280, 283
Tsp45I GTSAC 1 cut(s) 485
TspDTI ATGAA 3 cut(s) 135, 384, 544
TspGWI ACGGA 2 cut(s) 154, 250
XapI RAATTY 3 cut(s) 372, 416, 539
XceI RCATGY 1 cut(s) 506
XspI CTAG 1 cut(s) 465
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.