FvH4_6g26980

DNA-directed RNA polymerases I and III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0004203
Physical Location & Seq
Reverse (-)
20643116 .. 20645716
2601 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g26980.t1

Sequence Viewer

Length: 441 bp
AAAAAAAAAAAAAAAAAGACGACATGCCGTCAGCTCCATCTTGAAATACAAATACAAAAACGCAGAGGCAGCCCATCATCCATAGCTCTCCTTCACTTCAAATCCTCCCTCAACATCGCCTGGAGCAAATTTCGTGAAGAAATGGAACTTGGGACCCTTTCTGATCCCAGCCAATCCACATTCTCTTTGATTGATGAGTACCATACATTTGCAAATGCAATCAGATTTACTTTGAATCAGGATCCAAGGACGAGATTCTGTGGCTACAGCATTCCTCATCCATCAGATAACCTTGTTAATATTAGAATCCAGACTACAGAGGAATCAAAAGTTCTAGATGGTGGGGGAGTTGCAGCTGTAATATACAAAGCACATATCCCCACATCAACTGCGATCCAGCAAAAGATGTATTCAGAGATGCATGTCAGGATCTCATGGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169
Pfam Domains
Protein Families
RNA_pol_L_2

Protein Analysis

147

Amino Acids

16.71

Weight (kDa)

9.69

Isoelectric Point (pI)

57.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_L_2 PF13656 59 - 112 2.8e-17 RNA polymerase Rpb3/Rpb11 dimerisation 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 5 cut(s) 158, 236, 249, 388, 437
AcsI RAATTY 1 cut(s) 128
AfaI GTAC 1 cut(s) 200
AgsI TTSAA 3 cut(s) 44, 100, 235
AhdI GACNNNNNGTC 1 cut(s) 27
AjnI CCWGG 1 cut(s) 119
AjuI GAANNNNNNNTTGG 2 cut(s) 132, 164
AluBI AGCT 3 cut(s) 34, 86, 356
AluI AGCT 3 cut(s) 34, 86, 356
AlwI GGATC 5 cut(s) 158, 236, 249, 388, 437
ApeKI GCWGC 2 cut(s) 69, 353
ApoI RAATTY 1 cut(s) 128
AspS9I GGNCC 1 cut(s) 153
AvaII GGWCC 1 cut(s) 153
BamHI GGATCC 1 cut(s) 241
BbvI GCAGC 2 cut(s) 81, 365
BccI CCATC 4 cut(s) 45, 82, 289, 332
BceAI ACGGC 1 cut(s) 12
BciT130I CCWGG 1 cut(s) 121
BfaI CTAG 1 cut(s) 335
BfmI CTRYAG 2 cut(s) 265, 315
BisI GCNGC 2 cut(s) 70, 354
BlsI GCNGC 2 cut(s) 71, 355
Bme1390I CCNGG 1 cut(s) 121
Bme18I GGWCC 1 cut(s) 153
BmeRI GACNNNNNGTC 1 cut(s) 27
BmgT120I GGNCC 1 cut(s) 153
BmiI GGNNCC 3 cut(s) 154, 155, 243
BmrFI CCNGG 1 cut(s) 121
BmsI GCATC 1 cut(s) 408
BpmI CTGGAG 1 cut(s) 142
BsaJI CCNNGG 1 cut(s) 245
BseBI CCWGG 1 cut(s) 121
BseDI CCNNGG 1 cut(s) 245
BseGI GGATG 2 cut(s) 77, 277
BseXI GCAGC 2 cut(s) 81, 365
BseYI CCCAGC 1 cut(s) 167
BslFI GGGAC 1 cut(s) 166
BsmFI GGGAC 1 cut(s) 166
BsmI GAATGC 1 cut(s) 270
Bsp143I GATC 4 cut(s) 163, 241, 393, 429
BspLI GGNNCC 3 cut(s) 154, 155, 243
BspPI GGATC 5 cut(s) 158, 236, 249, 388, 437
BssECI CCNNGG 1 cut(s) 245
BssMI GATC 4 cut(s) 163, 241, 393, 429
BssT1I CCWWGG 1 cut(s) 245
Bst2UI CCWGG 1 cut(s) 121
BstF5I GGATG 2 cut(s) 77, 277
BstKTI GATC 4 cut(s) 166, 244, 396, 432
BstMBI GATC 4 cut(s) 163, 241, 393, 429
BstMWI GCNNNNNNNGC 1 cut(s) 69
BstNI CCWGG 1 cut(s) 121
BstNSI RCATGY 2 cut(s) 27, 425
BstSCI CCNGG 1 cut(s) 119
BstSFI CTRYAG 2 cut(s) 265, 315
BstV1I GCAGC 2 cut(s) 81, 365
BstX2I RGATCY 2 cut(s) 241, 429
BstYI RGATCY 2 cut(s) 241, 429
BtgZI GCGATG 1 cut(s) 100
BtsCI GGATG 2 cut(s) 77, 277
Cfr13I GGNCC 1 cut(s) 153
Csp6I GTAC 1 cut(s) 199
CviAII CATG 3 cut(s) 24, 422, 435
CviJI RGCY 6 cut(s) 34, 72, 86, 171, 264, 356
CviKI_1 RGCY 6 cut(s) 34, 72, 86, 171, 264, 356
CviQI GTAC 1 cut(s) 199
DpnI GATC 4 cut(s) 165, 243, 395, 431
DpnII GATC 4 cut(s) 163, 241, 393, 429
DriI GACNNNNNGTC 1 cut(s) 27
Eam1105I GACNNNNNGTC 1 cut(s) 27
Eco130I CCWWGG 1 cut(s) 245
Eco47I GGWCC 1 cut(s) 153
EcoO109I RGGNCCY 1 cut(s) 153
EcoRII CCWGG 1 cut(s) 119
EcoT14I CCWWGG 1 cut(s) 245
EcoT22I ATGCAT 1 cut(s) 423
ErhI CCWWGG 1 cut(s) 245
FaeI CATG 3 cut(s) 27, 425, 438
FaiI YATR 7 cut(s) 25, 83, 204, 364, 375, 423, 436
FaqI GGGAC 1 cut(s) 166
FatI CATG 3 cut(s) 23, 421, 434
Fnu4HI GCNGC 2 cut(s) 70, 354
FokI GGATG 2 cut(s) 64, 264
Fsp4HI GCNGC 2 cut(s) 70, 354
FspBI CTAG 1 cut(s) 335
GluI GCNGC 2 cut(s) 70, 354
GsaI CCCAGC 1 cut(s) 171
GsuI CTGGAG 1 cut(s) 142
Hin1II CATG 3 cut(s) 27, 425, 438
HinfI GANTC 4 cut(s) 235, 255, 306, 323
Hpy188I TCNGA 4 cut(s) 163, 224, 286, 415
Hpy188III TCNNGA 6 cut(s) 41, 134, 239, 310, 335, 427
HpyAV CCTTC 1 cut(s) 101
HpyCH4V TGCA 4 cut(s) 212, 218, 353, 421
HpyF10VI GCNNNNNNNGC 1 cut(s) 69
Hsp92II CATG 3 cut(s) 27, 425, 438
KflI GGGWCCC 1 cut(s) 153
Kzo9I GATC 4 cut(s) 163, 241, 393, 429
LmnI GCTCC 2 cut(s) 39, 123
LpnPI CCDG 7 cut(s) 106, 133, 181, 224, 323, 410, 412
Lsp1109I GCAGC 2 cut(s) 81, 365
LweI GCATC 1 cut(s) 408
MaeI CTAG 1 cut(s) 335
MalI GATC 4 cut(s) 165, 243, 395, 431
MboI GATC 4 cut(s) 163, 241, 393, 429
MboII GAAGA 1 cut(s) 149
MflI RGATCY 2 cut(s) 241, 429
MluCI AATT 1 cut(s) 128
MnlI CCTC 5 cut(s) 59, 115, 119, 285, 313
Mph1103I ATGCAT 1 cut(s) 423
MseI TTAA 1 cut(s) 297
MspA1I CMGCKG 1 cut(s) 356
MspR9I CCNGG 1 cut(s) 121
Mva1269I GAATGC 1 cut(s) 270
MvaI CCWGG 1 cut(s) 121
MwoI GCNNNNNNNGC 1 cut(s) 69
NdeII GATC 4 cut(s) 163, 241, 393, 429
NlaIII CATG 3 cut(s) 27, 425, 438
NlaIV GGNNCC 3 cut(s) 154, 155, 243
NsiI ATGCAT 1 cut(s) 423
NspI RCATGY 2 cut(s) 27, 425
PctI GAATGC 1 cut(s) 270
PfeI GAWTC 4 cut(s) 235, 255, 306, 323
PkrI GCNGC 2 cut(s) 71, 355
PpuMI RGGWCCY 1 cut(s) 153
Psp5II RGGWCCY 1 cut(s) 153
Psp6I CCWGG 1 cut(s) 119
PspFI CCCAGC 1 cut(s) 167
PspGI CCWGG 1 cut(s) 119
PspN4I GGNNCC 3 cut(s) 154, 155, 243
PspPI GGNCC 1 cut(s) 153
PspPPI RGGWCCY 1 cut(s) 153
PsuI RGATCY 2 cut(s) 241, 429
PvuII CAGCTG 1 cut(s) 356
RsaI GTAC 1 cut(s) 200
RsaNI GTAC 1 cut(s) 199
SaqAI TTAA 1 cut(s) 297
SatI GCNGC 2 cut(s) 70, 354
Sau3AI GATC 4 cut(s) 163, 241, 393, 429
Sau96I GGNCC 1 cut(s) 153
ScrFI CCNGG 1 cut(s) 121
SetI ASST 4 cut(s) 36, 88, 294, 358
SfaNI GCATC 1 cut(s) 408
SfcI CTRYAG 2 cut(s) 265, 315
SinI GGWCC 1 cut(s) 153
Sse9I AATT 1 cut(s) 128
SspI AATATT 1 cut(s) 301
SspMI CTAG 1 cut(s) 335
StyD4I CCNGG 1 cut(s) 119
StyI CCWWGG 1 cut(s) 245
TasI AATT 1 cut(s) 128
TfiI GAWTC 4 cut(s) 235, 255, 306, 323
Tru1I TTAA 1 cut(s) 297
Tru9I TTAA 1 cut(s) 297
TseI GCWGC 2 cut(s) 69, 353
VpaK11BI GGWCC 1 cut(s) 153
XapI RAATTY 1 cut(s) 128
XbaI TCTAGA 1 cut(s) 334
XceI RCATGY 2 cut(s) 27, 425
XspI CTAG 1 cut(s) 335
Zsp2I ATGCAT 1 cut(s) 423
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.