Rh2BG063800
ERF Family

Probably involved in the RNA silencing pathway and required for the generation of small interfering RNAs (siRNAs)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000505
Physical Location & Seq
Forward (+)
4868968 .. 4869978
1011 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG063800.1

Sequence Viewer

Length: 696 bp
ATGGAAGAAGTGAGATTACCTCCGCCGGTGGAGGAGTTGCTCCGTAGAATCTGTACTGAGAAAAAGTTACCATGGCCGGACGCCGGGGTCCGGCGGGAGCTGGTCTCTATCAGCCAGGAACGTGCACATGAGGTCCTGGTTAAAGTCTTCAACAAACAAGATATCATAAGTCTCGGCGGTTTCATCAAGCACTTGATCCGTAACCTCCCTGCTTCTCCTCCTCCTTCGACAGCTGTCCGCGCTTATTATGATCAAAGACCCTCCGCTTGTCCAGTTACGCCACCTTGTTCTCAACTTCAGTACAGCTCCGCAGTTGCAGGTCAGGCATTCAGTGATCGGACCGAGCAGCCTGTGATTAATGGACGGTATGGACCATCACCATATTCTTCTGGTTGTAAAGCCATCAGCTCTTTCTCGTATCCAACAATACCGCTGGCTTGTAACATTGCTCCAGTGCAACTTGATCATAGGTTTCAAGGTGAGGTTGTAACCAAGTCGCCAGATCTAGAGAAATATGGAGGCCATGGACAAGCACACTTAATTGGCAGCTCTTGGGAAAAGTTAAAGAATGTTATAGTCGCAGAGGATATTAAGCATTTGAAAGATTTGCCAATGGCAGAGTTTGAGTCCAAAGTTTGGCTACTCTTCGGACATAAATATATCAGCAATGGAGACCAAGCTGCCTTGTCTTGGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RdRP

Protein Analysis

231

Amino Acids

25.67

Weight (kDa)

8.23

Isoelectric Point (pI)

58.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
4HB_RdRP3_N PF26249 4 - 67 2.1e-07 RdRP3/4/5, N-terminal four helical bundle domain
RdRP_helical PF26252 185 - 230 3.4e-06 RNA dependent RNA polymerase, helical domain
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: OG0000505)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G19910 AT2G19910 AT2G19920 AT2G19920 AT2G19920 AT2G19920 AT2G19930 AT2G19930 AT2G19930
fragaria_vesca FvH4_1g05980 FvH4_1g05990 FvH4_1g05990 FvH4_1g09718
malus_domestica MD02G1064400.v1.1 MD15G1195300.v1.1 MD15G1195400.v1.1
prunus_persica Prupe.7G221200_v2.0.a1 Prupe.7G221200_v2.0.a1 Prupe.7G221200_v2.0.a1 Prupe.7G221200_v2.0.a1
pyrus_communis pycom02g05070 pycom15g17460
rosa_chinensis RchiOBHm_Chr2g0091671 RchiOBHm_Chr2g0091681 RchiOBHm_Chr2g0091691 RchiOBHm_Chr2g0091701 RchiOBHm_Chr2g0091711 RchiOBHm_Chr2g0091721 RchiOBHm_Chr2g0091731 RchiOBHm_Chr5g0014401
rosa_laevigata RLG00000013772 RLG00000016242 RLG00000016244 RLG00000016245 RLG00000016246 RLG00000032105
rosa_multiflora Rmu_co8374041.1_g000001 Rmu_co8478121.1_g000001 Rmu_sc0000897.1_g000005 Rmu_sc0000897.1_g000009
rosa_roxburghii Rroxscaffold_1G00062180 Rroxscaffold_1G00062190 Rroxscaffold_1G00068800 Rroxscaffold_2G00149790 Rroxscaffold_2G00149800 Rroxscaffold_2G00149810
rosa_rugosa Rorug02G0019600 Rorug02G0019700 Rorug02G0019800 Rorug02G0019900 Rorug02G0019900 Rorug02G0020000 Rorug02G0020000 Rorug02G0020100 Rorug02G0020100 Rorug02G0020200 Rorug05G0017800
rosa_samantha Rh2AG064700 Rh2AG064800 Rh2AG064900 Rh2BG063800 Rh2BG063900 Rh2BG064000 Rh2BG064100 Rh2CG065500 Rh2CG065600 Rh2CG065700 Rh2DG063900 Rh2DG064000 Rh2DG064100 Rh2DG064200 Rh2DG381700 Rh5AG056700 Rh5AG056800 Rh5AG056900 Rh5AG112600 Rh5BG109300 Rh5CG063800 Rh5CG121100 Rh5DG053100 Rh5DG108300 Rh6CG100100
rosa_wichuraiana Rw2G005560 Rw2G005580 Rw2G005590 Rw5G005370 Rw5G009770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 86
Acc36I ACCTGC 1 cut(s) 308
AccB7I CCANNNNNTGG 1 cut(s) 636
AccII CGCG 1 cut(s) 240
AciI CCGC 7 cut(s) 23, 94, 177, 238, 264, 309, 431
AclWI GGATC 1 cut(s) 190
AcoI YGGCCR 1 cut(s) 74
AcuI CTGAAG 1 cut(s) 281
AcyI GRCGYC 1 cut(s) 81
AfaI GTAC 2 cut(s) 55, 302
AfiI CCNNNNNNNGG 4 cut(s) 83, 90, 636, 690
AgsI TTSAA 3 cut(s) 151, 476, 601
AjnI CCWGG 2 cut(s) 114, 135
AluBI AGCT 6 cut(s) 100, 233, 306, 408, 549, 680
AluI AGCT 6 cut(s) 100, 233, 306, 408, 549, 680
Alw21I GWGCWC 1 cut(s) 127
Alw26I GTCTC 3 cut(s) 109, 176, 666
Alw44I GTGCAC 1 cut(s) 123
AlwI GGATC 1 cut(s) 190
AoxI GGCC 2 cut(s) 74, 520
ApaLI GTGCAC 1 cut(s) 123
ApeKI GCWGC 3 cut(s) 346, 546, 680
AseI ATTAAT 1 cut(s) 357
AspLEI GCGC 1 cut(s) 242
AspS9I GGNCC 4 cut(s) 88, 133, 339, 371
AsuC2I CCSGG 1 cut(s) 85
AsuHPI GGTGA 2 cut(s) 369, 491
AvaII GGWCC 4 cut(s) 88, 133, 339, 371
BaeGI GKGCMC 1 cut(s) 127
BarI GAAGNNNNNNTAC 1 cut(s) 32
BbsI GAAGAC 1 cut(s) 139
Bbv12I GWGCWC 1 cut(s) 127
BbvI GCAGC 3 cut(s) 358, 558, 667
BccI CCATC 2 cut(s) 382, 410
BciT130I CCWGG 2 cut(s) 116, 137
BciVI GTATCC 1 cut(s) 429
BclI TGATCA 2 cut(s) 250, 463
BcnI CCSGG 1 cut(s) 85
BcoDI GTCTC 3 cut(s) 109, 176, 666
BfaI CTAG 1 cut(s) 506
BfuAI ACCTGC 1 cut(s) 308
BfuI GTATCC 1 cut(s) 429
BglII AGATCT 1 cut(s) 502
BisI GCNGC 3 cut(s) 347, 547, 681
BlsI GCNGC 3 cut(s) 348, 548, 682
Bme1390I CCNGG 3 cut(s) 85, 116, 137
Bme18I GGWCC 4 cut(s) 88, 133, 339, 371
BmgT120I GGNCC 4 cut(s) 88, 133, 339, 371
BmiI GGNNCC 1 cut(s) 89
BmrFI CCNGG 3 cut(s) 85, 116, 137
BoxI GACNNNNGTC 1 cut(s) 233
BpiI GAAGAC 1 cut(s) 139
BplI GAGNNNNNCTC 3 cut(s) 36, 89, 121
BpmI CTGGAG 1 cut(s) 435
BpuMI CCSGG 1 cut(s) 85
BsaHI GRCGYC 1 cut(s) 81
BsaI GGTCTC 2 cut(s) 109, 666
BsaJI CCNNGG 3 cut(s) 71, 84, 523
Bsc4I CCNNNNNNNGG 4 cut(s) 83, 90, 636, 690
Bse118I RCCGGY 1 cut(s) 25
Bse1I ACTGG 2 cut(s) 272, 452
Bse3DI GCAATG 2 cut(s) 444, 673
BseBI CCWGG 2 cut(s) 116, 137
BseDI CCNNGG 3 cut(s) 71, 84, 523
BseLI CCNNNNNNNGG 4 cut(s) 83, 90, 636, 690
BseMI GCAATG 2 cut(s) 444, 673
BseMII CTCAG 1 cut(s) 48
BseNI ACTGG 2 cut(s) 272, 452
BseRI GAGGAG 3 cut(s) 47, 207, 210
BseSI GKGCMC 1 cut(s) 127
BseXI GCAGC 3 cut(s) 358, 558, 667
Bsh1236I CGCG 1 cut(s) 240
BshFI GGCC 2 cut(s) 76, 522
BsiHKAI GWGCWC 1 cut(s) 127
BsiSI CCGG 4 cut(s) 26, 77, 84, 91
BslI CCNNNNNNNGG 4 cut(s) 83, 90, 636, 690
BsmAI GTCTC 3 cut(s) 109, 176, 666
BsmI GAATGC 1 cut(s) 326
BsnI GGCC 2 cut(s) 76, 522
Bso31I GGTCTC 2 cut(s) 109, 666
Bsp1286I GDGCHC 1 cut(s) 127
Bsp143I GATC 5 cut(s) 195, 250, 334, 463, 502
Bsp19I CCATGG 2 cut(s) 71, 523
BspACI CCGC 7 cut(s) 23, 94, 177, 238, 264, 309, 431
BspANI GGCC 2 cut(s) 76, 522
BspCNI CTCAG 1 cut(s) 49
BspFNI CGCG 1 cut(s) 240
BspLI GGNNCC 1 cut(s) 89
BspMI ACCTGC 1 cut(s) 308
BspPI GGATC 1 cut(s) 190
BspTNI GGTCTC 2 cut(s) 109, 666
BsrDI GCAATG 2 cut(s) 444, 673
BsrFI RCCGGY 1 cut(s) 25
BsrI ACTGG 2 cut(s) 272, 452
BssAI RCCGGY 1 cut(s) 25
BssECI CCNNGG 3 cut(s) 71, 84, 523
BssMI GATC 5 cut(s) 195, 250, 334, 463, 502
BssNI GRCGYC 1 cut(s) 81
BssT1I CCWWGG 2 cut(s) 71, 523
Bst2UI CCWGG 2 cut(s) 116, 137
Bst4CI ACNGT 1 cut(s) 366
Bst6I CTCTTC 1 cut(s) 650
BstACI GRCGYC 1 cut(s) 81
BstC8I GCNNGC 1 cut(s) 435
BstDEI CTNAG 1 cut(s) 57
BstDSI CCRYGG 2 cut(s) 71, 523
BstFNI CGCG 1 cut(s) 240
BstHHI GCGC 1 cut(s) 242
BstKTI GATC 5 cut(s) 198, 253, 337, 466, 505
BstMAI GTCTC 3 cut(s) 109, 176, 666
BstMBI GATC 5 cut(s) 195, 250, 334, 463, 502
BstMWI GCNNNNNNNGC 2 cut(s) 239, 323
BstNI CCWGG 2 cut(s) 116, 137
BstPAI GACNNNNGTC 1 cut(s) 233
BstSCI CCNGG 3 cut(s) 83, 114, 135
BstSLI GKGCMC 1 cut(s) 127
BstUI CGCG 1 cut(s) 240
BstV1I GCAGC 3 cut(s) 358, 558, 667
BstV2I GAAGAC 1 cut(s) 139
BstX2I RGATCY 1 cut(s) 502
BstYI RGATCY 1 cut(s) 502
BsuI GTATCC 1 cut(s) 429
BsuRI GGCC 2 cut(s) 76, 522
BtgI CCRYGG 2 cut(s) 71, 523
BtsIMutI CAGTG 2 cut(s) 337, 459
BveI ACCTGC 1 cut(s) 308
Cac8I GCNNGC 1 cut(s) 435
CfoI GCGC 1 cut(s) 242
Cfr10I RCCGGY 1 cut(s) 25
Cfr13I GGNCC 4 cut(s) 88, 133, 339, 371
CpoI CGGWCCG 1 cut(s) 339
CseI GACGC 1 cut(s) 89
Csp6I GTAC 2 cut(s) 54, 301
CspI CGGWCCG 1 cut(s) 339
CviAII CATG 3 cut(s) 72, 128, 524
CviQI GTAC 2 cut(s) 54, 301
DdeI CTNAG 1 cut(s) 57
DpnI GATC 5 cut(s) 197, 252, 336, 465, 504
DpnII GATC 5 cut(s) 195, 250, 334, 463, 502
DrdI GACNNNNNNGTC 1 cut(s) 86
DseDI GACNNNNNNGTC 1 cut(s) 86
EaeI YGGCCR 1 cut(s) 74
Eam1104I CTCTTC 1 cut(s) 650
EarI CTCTTC 1 cut(s) 650
EciI GGCGGA 1 cut(s) 12
Eco130I CCWWGG 2 cut(s) 71, 523
Eco31I GGTCTC 2 cut(s) 109, 666
Eco32I GATATC 1 cut(s) 163
Eco47I GGWCC 4 cut(s) 88, 133, 339, 371
Eco57I CTGAAG 1 cut(s) 281
EcoO109I RGGNCCY 1 cut(s) 133
EcoRII CCWGG 2 cut(s) 114, 135
EcoRV GATATC 1 cut(s) 163
EcoT14I CCWWGG 2 cut(s) 71, 523
ErhI CCWWGG 2 cut(s) 71, 523
FaeI CATG 3 cut(s) 75, 131, 527
FatI CATG 3 cut(s) 71, 127, 523
FauI CCCGC 1 cut(s) 87
FbaI TGATCA 2 cut(s) 250, 463
Fnu4HI GCNGC 3 cut(s) 347, 547, 681
Fsp4HI GCNGC 3 cut(s) 347, 547, 681
FspBI CTAG 1 cut(s) 506
GlaI GCGC 1 cut(s) 241
GluI GCNGC 3 cut(s) 347, 547, 681
GsuI CTGGAG 1 cut(s) 435
HaeIII GGCC 2 cut(s) 76, 522
HapII CCGG 4 cut(s) 26, 77, 84, 91
HgaI GACGC 1 cut(s) 89
HhaI GCGC 1 cut(s) 242
Hin1I GRCGYC 1 cut(s) 81
Hin1II CATG 3 cut(s) 75, 131, 527
Hin6I GCGC 1 cut(s) 240
HinP1I GCGC 1 cut(s) 240
HinfI GANTC 2 cut(s) 48, 626
HpaII CCGG 4 cut(s) 26, 77, 84, 91
HphI GGTGA 2 cut(s) 369, 491
Hpy166II GTNNAC 1 cut(s) 125
Hpy188I TCNGA 2 cut(s) 339, 650
Hpy188III TCNNGA 1 cut(s) 506
Hpy8I GTNNAC 1 cut(s) 125
HpyAV CCTTC 1 cut(s) 234
HpyCH4III ACNGT 1 cut(s) 366
HpyCH4IV ACGT 1 cut(s) 121
HpyCH4V TGCA 3 cut(s) 125, 317, 457
HpyF10VI GCNNNNNNNGC 2 cut(s) 239, 323
HpyF3I CTNAG 1 cut(s) 57
HpySE526I ACGT 1 cut(s) 121
Hsp92I GRCGYC 1 cut(s) 81
Hsp92II CATG 3 cut(s) 75, 131, 527
HspAI GCGC 1 cut(s) 240
Ksp22I TGATCA 2 cut(s) 250, 463
Kzo9I GATC 5 cut(s) 195, 250, 334, 463, 502
LmnI GCTCC 4 cut(s) 45, 97, 311, 454
Lsp1109I GCAGC 3 cut(s) 358, 558, 667
MaeI CTAG 1 cut(s) 506
MaeII ACGT 1 cut(s) 121
MaeIII GTNAC 5 cut(s) 66, 200, 274, 440, 487
MalI GATC 5 cut(s) 197, 252, 336, 465, 504
MboI GATC 5 cut(s) 195, 250, 334, 463, 502
MboII GAAGA 4 cut(s) 17, 139, 378, 637
MflI RGATCY 1 cut(s) 502
MhlI GDGCHC 1 cut(s) 127
MluCI AATT 1 cut(s) 540
MlyI GAGTC 1 cut(s) 635
MmeI TCCRAC 1 cut(s) 446
MseI TTAA 5 cut(s) 141, 357, 539, 563, 591
MspA1I CMGCKG 2 cut(s) 233, 433
MspI CCGG 4 cut(s) 26, 77, 84, 91
MspR9I CCNGG 3 cut(s) 85, 116, 137
Mva1269I GAATGC 1 cut(s) 326
MvaI CCWGG 2 cut(s) 116, 137
MvnI CGCG 1 cut(s) 240
MwoI GCNNNNNNNGC 2 cut(s) 239, 323
NciI CCSGG 1 cut(s) 85
NcoI CCATGG 2 cut(s) 71, 523
NdeII GATC 5 cut(s) 195, 250, 334, 463, 502
NlaIII CATG 3 cut(s) 75, 131, 527
NlaIV GGNNCC 1 cut(s) 89
NmeAIII GCCGAG 1 cut(s) 153
PctI GAATGC 1 cut(s) 326
PfeI GAWTC 1 cut(s) 48
PflMI CCANNNNNTGG 1 cut(s) 636
PkrI GCNGC 3 cut(s) 348, 548, 682
PleI GAGTC 1 cut(s) 634
PpsI GAGTC 1 cut(s) 634
PpuMI RGGWCCY 1 cut(s) 133
PshAI GACNNNNGTC 1 cut(s) 233
PshBI ATTAAT 1 cut(s) 357
Psp5II RGGWCCY 1 cut(s) 133
Psp6I CCWGG 2 cut(s) 114, 135
PspGI CCWGG 2 cut(s) 114, 135
PspN4I GGNNCC 1 cut(s) 89
PspPI GGNCC 4 cut(s) 88, 133, 339, 371
PspPPI RGGWCCY 1 cut(s) 133
PsuI RGATCY 1 cut(s) 502
PvuII CAGCTG 1 cut(s) 233
RsaI GTAC 2 cut(s) 55, 302
RsaNI GTAC 2 cut(s) 54, 301
Rsr2I CGGWCCG 1 cut(s) 339
RsrII CGGWCCG 1 cut(s) 339
SaqAI TTAA 5 cut(s) 141, 357, 539, 563, 591
SatI GCNGC 3 cut(s) 347, 547, 681
Sau3AI GATC 5 cut(s) 195, 250, 334, 463, 502
Sau96I GGNCC 4 cut(s) 88, 133, 339, 371
SchI GAGTC 1 cut(s) 635
ScrFI CCNGG 3 cut(s) 85, 116, 137
SduI GDGCHC 1 cut(s) 127
SgrAI CRCCGGYG 1 cut(s) 25
SinI GGWCC 4 cut(s) 88, 133, 339, 371
Sse9I AATT 1 cut(s) 540
SsiI CCGC 7 cut(s) 23, 94, 177, 238, 264, 309, 431
SspMI CTAG 1 cut(s) 506
StyD4I CCNGG 3 cut(s) 83, 114, 135
StyI CCWWGG 2 cut(s) 71, 523
TaaI ACNGT 1 cut(s) 366
TaiI ACGT 1 cut(s) 124
TaqI TCGA 1 cut(s) 227
TaqII GACCGA 1 cut(s) 356
TasI AATT 1 cut(s) 540
TatI WGTACW 2 cut(s) 53, 300
TfiI GAWTC 1 cut(s) 48
Tru1I TTAA 5 cut(s) 141, 357, 539, 563, 591
Tru9I TTAA 5 cut(s) 141, 357, 539, 563, 591
TscAI CASTG 2 cut(s) 337, 459
TseI GCWGC 3 cut(s) 346, 546, 680
TspDTI ATGAA 1 cut(s) 172
TspGWI ACGGA 2 cut(s) 32, 188
TspRI CASTG 2 cut(s) 337, 459
Van91I CCANNNNNTGG 1 cut(s) 636
VneI GTGCAC 1 cut(s) 123
VpaK11BI GGWCC 4 cut(s) 88, 133, 339, 371
VspI ATTAAT 1 cut(s) 357
XbaI TCTAGA 1 cut(s) 505
XspI CTAG 1 cut(s) 506
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.