RchiOBHm_Chr4g0418181
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_chinensis
4
OG0015736
Physical Location & Seq
Forward (+)
43616221 .. 43620219
3999 bp
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UTR
Exon/CDS
Intron
PRQ38817

Sequence Viewer

Length: 357 bp
ATGGGAAGACAGTCAAGCTGCAGATTTTCTCCATCAAAAGCCGTCTGCATTTCTCCATATCAGAGACTGTCTGCTGATGTTCCTGTACAACTTCATGGGAGGTTTCAAGGTGAGAGTATCACTAGGTCCTCAGTTATAGAGGAACCTGGAGACCATGGAGAAGCACACTTAGTAGCTCTGGGTGAATTAGAATTCCGTAAACAATTTCTAATATTAAGTGATGCTGGAGGAATGAAGTTGAAAGATCTGATAGCGGCAGAGGACATTAGGCATTGGAAATATTTGCCAATGGTAACGTTTGAGAGCAAAATTTGGGAATATCTAGGTCGAAAATGCATCAGCCCTGAAGACTGTTGA
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

118

Amino Acids

13.33

Weight (kDa)

6.41

Isoelectric Point (pI)

56.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RdRP_helical PF26252 56 - 114 3e-06 RNA dependent RNA polymerase, helical domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 254
AclI AACGTT 1 cut(s) 296
AcsI RAATTY 2 cut(s) 191, 309
AfaI GTAC 1 cut(s) 87
AgsI TTSAA 2 cut(s) 107, 241
AjnI CCWGG 1 cut(s) 145
AluBI AGCT 2 cut(s) 18, 176
AluI AGCT 2 cut(s) 18, 176
Alw26I GTCTC 2 cut(s) 58, 144
AlwNI CAGNNNCTG 1 cut(s) 67
ApeKI GCWGC 1 cut(s) 18
ApoI RAATTY 2 cut(s) 191, 309
AspS9I GGNCC 1 cut(s) 126
AsuHPI GGTGA 2 cut(s) 122, 194
AvaII GGWCC 1 cut(s) 126
BbsI GAAGAC 1 cut(s) 13
BbvI GCAGC 1 cut(s) 5
BccI CCATC 1 cut(s) 40
BceAI ACGGC 1 cut(s) 26
BciT130I CCWGG 1 cut(s) 147
BcoDI GTCTC 2 cut(s) 58, 144
BfaI CTAG 2 cut(s) 123, 323
BfmI CTRYAG 1 cut(s) 19
BglII AGATCT 1 cut(s) 244
BisI GCNGC 2 cut(s) 19, 255
BlsI GCNGC 2 cut(s) 20, 256
Bme1390I CCNGG 1 cut(s) 147
Bme18I GGWCC 1 cut(s) 126
BmgT120I GGNCC 1 cut(s) 126
BmiI GGNNCC 1 cut(s) 144
BmrFI CCNGG 1 cut(s) 147
BmsI GCATC 2 cut(s) 211, 345
BpiI GAAGAC 1 cut(s) 13
BpmI CTGGAG 2 cut(s) 168, 246
BsaI GGTCTC 1 cut(s) 144
BsaJI CCNNGG 1 cut(s) 154
BseBI CCWGG 1 cut(s) 147
BseDI CCNNGG 1 cut(s) 154
BseMII CTCAG 1 cut(s) 144
BseXI GCAGC 1 cut(s) 5
BsmAI GTCTC 2 cut(s) 58, 144
Bso31I GGTCTC 1 cut(s) 144
Bsp1407I TGTACA 1 cut(s) 85
Bsp143I GATC 1 cut(s) 244
Bsp19I CCATGG 1 cut(s) 154
BspACI CCGC 1 cut(s) 254
BspCNI CTCAG 1 cut(s) 143
BspLI GGNNCC 1 cut(s) 144
BspMAI CTGCAG 1 cut(s) 23
BspTNI GGTCTC 1 cut(s) 144
BsrGI TGTACA 1 cut(s) 85
BssECI CCNNGG 1 cut(s) 154
BssMI GATC 1 cut(s) 244
BssT1I CCWWGG 1 cut(s) 154
Bst2UI CCWGG 1 cut(s) 147
Bst4CI ACNGT 3 cut(s) 12, 69, 353
BstAUI TGTACA 1 cut(s) 85
BstDEI CTNAG 2 cut(s) 130, 169
BstDSI CCRYGG 1 cut(s) 154
BstKTI GATC 1 cut(s) 247
BstMAI GTCTC 2 cut(s) 58, 144
BstMBI GATC 1 cut(s) 244
BstNI CCWGG 1 cut(s) 147
BstSCI CCNGG 1 cut(s) 145
BstSFI CTRYAG 1 cut(s) 19
BstV1I GCAGC 1 cut(s) 5
BstV2I GAAGAC 1 cut(s) 13
BstX2I RGATCY 1 cut(s) 244
BstYI RGATCY 1 cut(s) 244
BtgI CCRYGG 1 cut(s) 154
CaiI CAGNNNCTG 1 cut(s) 67
Cfr13I GGNCC 1 cut(s) 126
Csp6I GTAC 1 cut(s) 86
CviAII CATG 2 cut(s) 95, 155
CviJI RGCY 4 cut(s) 18, 41, 176, 342
CviKI_1 RGCY 4 cut(s) 18, 41, 176, 342
CviQI GTAC 1 cut(s) 86
DdeI CTNAG 2 cut(s) 130, 169
DpnI GATC 1 cut(s) 246
DpnII GATC 1 cut(s) 244
Eco130I CCWWGG 1 cut(s) 154
Eco31I GGTCTC 1 cut(s) 144
Eco47I GGWCC 1 cut(s) 126
EcoO109I RGGNCCY 1 cut(s) 126
EcoRI GAATTC 1 cut(s) 191
EcoRII CCWGG 1 cut(s) 145
EcoT14I CCWWGG 1 cut(s) 154
EcoT22I ATGCAT 1 cut(s) 338
ErhI CCWWGG 1 cut(s) 154
FaeI CATG 2 cut(s) 98, 158
FaiI YATR 4 cut(s) 58, 96, 137, 156
FatI CATG 2 cut(s) 94, 154
Fnu4HI GCNGC 2 cut(s) 19, 255
Fsp4HI GCNGC 2 cut(s) 19, 255
FspBI CTAG 2 cut(s) 123, 323
GluI GCNGC 2 cut(s) 19, 255
GsuI CTGGAG 2 cut(s) 168, 246
Hin1II CATG 2 cut(s) 98, 158
HphI GGTGA 2 cut(s) 122, 194
Hpy166II GTNNAC 1 cut(s) 200
Hpy188I TCNGA 2 cut(s) 63, 249
Hpy8I GTNNAC 1 cut(s) 200
HpyCH4III ACNGT 3 cut(s) 12, 69, 353
HpyCH4IV ACGT 1 cut(s) 296
HpyCH4V TGCA 3 cut(s) 21, 48, 336
HpyF3I CTNAG 2 cut(s) 130, 169
HpySE526I ACGT 1 cut(s) 296
Hsp92II CATG 2 cut(s) 98, 158
Kzo9I GATC 1 cut(s) 244
LpnPI CCDG 5 cut(s) 96, 132, 159, 164, 210
Lsp1109I GCAGC 1 cut(s) 5
LweI GCATC 2 cut(s) 211, 345
MaeI CTAG 2 cut(s) 123, 323
MaeII ACGT 1 cut(s) 296
MaeIII GTNAC 1 cut(s) 292
MalI GATC 1 cut(s) 246
MboI GATC 1 cut(s) 244
MboII GAAGA 1 cut(s) 18
MflI RGATCY 1 cut(s) 244
MluCI AATT 4 cut(s) 185, 191, 203, 309
MnlI CCTC 5 cut(s) 93, 133, 139, 221, 253
Mph1103I ATGCAT 1 cut(s) 338
MseI TTAA 1 cut(s) 215
MspR9I CCNGG 1 cut(s) 147
MvaI CCWGG 1 cut(s) 147
NcoI CCATGG 1 cut(s) 154
NdeII GATC 1 cut(s) 244
NlaIII CATG 2 cut(s) 98, 158
NlaIV GGNNCC 1 cut(s) 144
NsiI ATGCAT 1 cut(s) 338
PkrI GCNGC 2 cut(s) 20, 256
PpuMI RGGWCCY 1 cut(s) 126
Psp1406I AACGTT 1 cut(s) 296
Psp5II RGGWCCY 1 cut(s) 126
Psp6I CCWGG 1 cut(s) 145
PspGI CCWGG 1 cut(s) 145
PspN4I GGNNCC 1 cut(s) 144
PspPI GGNCC 1 cut(s) 126
PspPPI RGGWCCY 1 cut(s) 126
PstI CTGCAG 1 cut(s) 23
PstNI CAGNNNCTG 1 cut(s) 67
PsuI RGATCY 1 cut(s) 244
RsaI GTAC 1 cut(s) 87
RsaNI GTAC 1 cut(s) 86
SaqAI TTAA 1 cut(s) 215
SatI GCNGC 2 cut(s) 19, 255
Sau3AI GATC 1 cut(s) 244
Sau96I GGNCC 1 cut(s) 126
ScrFI CCNGG 1 cut(s) 147
SetI ASST 8 cut(s) 20, 104, 112, 128, 148, 178, 299, 328
SfaNI GCATC 2 cut(s) 211, 345
SfcI CTRYAG 1 cut(s) 19
SinI GGWCC 1 cut(s) 126
Sse9I AATT 4 cut(s) 185, 191, 203, 309
SsiI CCGC 1 cut(s) 254
SspI AATATT 2 cut(s) 213, 281
SspMI CTAG 2 cut(s) 123, 323
StyD4I CCNGG 1 cut(s) 145
StyI CCWWGG 1 cut(s) 154
TaaI ACNGT 3 cut(s) 12, 69, 353
TaiI ACGT 1 cut(s) 299
TaqI TCGA 1 cut(s) 328
TasI AATT 4 cut(s) 185, 191, 203, 309
TatI WGTACW 1 cut(s) 85
TauI GCSGC 1 cut(s) 257
Tru1I TTAA 1 cut(s) 215
Tru9I TTAA 1 cut(s) 215
TseI GCWGC 1 cut(s) 18
TspDTI ATGAA 2 cut(s) 83, 248
TspGWI ACGGA 1 cut(s) 185
VpaK11BI GGWCC 1 cut(s) 126
XapI RAATTY 2 cut(s) 191, 309
XspI CTAG 2 cut(s) 123, 323
Zsp2I ATGCAT 1 cut(s) 338
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.