FvH4_5g27570

transcription initiation from RNA polymerase III promoter

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0001390
Physical Location & Seq
Forward (+)
18805155 .. 18806541
1387 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g27570.t1

Sequence Viewer

Length: 438 bp
ATGAAGATACTAAAGGCTGATGTTGGAGCACTCAACAATTTTGAAGTGCTCGAATTCCTAAAATCTAAAGGGGCTTCCAACATTGATATAGCACGGCTGGCAAAAATTAAACCATCTGAGTATAAGGTTTTCGATTATCTGGTTAATACTCCTGCTGGTACTCACACAAGAGAGAGCGTCCAAGAGTTCAAGGAGAAGTGTAGACAATCTGACATTGGGAATGATAAGATCCTCAATATTATTAACACTAGGCCAGCTTCAGTGGTCGAAATATATGCGATCCTCGAGGAGAATGCTAAAGAGCTAGTAGAGCTGGTTGCAGAGGTATTGACTCCTCCGACTGCACCATCCCTTAAACCAGAAGCAGGTAATGATGAGATTGATGCAGAGACCATGAGCGTGGAACCAATTGAACAAAATGATGGCAGTAAAGACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000428 GO:0001635 GO:0001653 GO:0001669 GO:0003674 GO:0003824 GO:0003899 GO:0004888 GO:0004930 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0005886 GO:0006139 GO:0006351 GO:0006352 GO:0006383 GO:0006384 GO:0006399 GO:0006725 GO:0006807 GO:0007154 GO:0007165 GO:0007186 GO:0007218 GO:0007568 GO:0008150 GO:0008152 GO:0008277 GO:0008528 GO:0009058 GO:0009059 GO:0009304 GO:0009360 GO:0009966 GO:0009967 GO:0009987 GO:0010467 GO:0010646 GO:0010647 GO:0012505 GO:0016020 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0023051 GO:0023052 GO:0023056 GO:0030141 GO:0030424 GO:0030425 GO:0030880 GO:0031410 GO:0031974 GO:0031981 GO:0031982 GO:0032502 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0034660 GO:0036477 GO:0038023 GO:0042575 GO:0042797 GO:0042995 GO:0043005 GO:0043025 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044297 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044463 GO:0044464 GO:0045745 GO:0046483 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0055029 GO:0060089 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0071944 GO:0090304 GO:0097223 GO:0097447 GO:0097458 GO:0097642 GO:0097659 GO:0097708 GO:0097747 GO:0098781 GO:0099503 GO:0120025 GO:0120038 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RNA_pol_Rpb4

Protein Analysis

146

Amino Acids

15.99

Weight (kDa)

4.71

Isoelectric Point (pI)

40.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 10 - 102 1.7e-08 RNA polymerase Rpb4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 284
Acc36I ACCTGC 1 cut(s) 356
AccI GTMKAC 1 cut(s) 202
AclWI GGATC 2 cut(s) 223, 274
AcsI RAATTY 1 cut(s) 53
AcuI CTGAAG 1 cut(s) 243
AfaI GTAC 1 cut(s) 160
AfiI CCNNNNNNNGG 1 cut(s) 365
AgsI TTSAA 3 cut(s) 44, 190, 413
AluBI AGCT 3 cut(s) 257, 304, 313
AluI AGCT 3 cut(s) 257, 304, 313
Alw21I GWGCWC 2 cut(s) 31, 51
Alw26I GTCTC 1 cut(s) 383
AlwI GGATC 2 cut(s) 223, 274
Ama87I CYCGRG 1 cut(s) 284
AoxI GGCC 1 cut(s) 251
ApoI RAATTY 1 cut(s) 53
AvaI CYCGRG 1 cut(s) 284
Bbv12I GWGCWC 2 cut(s) 31, 51
BccI CCATC 3 cut(s) 121, 355, 416
BceAI ACGGC 1 cut(s) 110
BcgI CGANNNNNNTGC 4 cut(s) 257, 275, 291, 309
BcoDI GTCTC 1 cut(s) 383
BfaI CTAG 2 cut(s) 249, 305
BfuAI ACCTGC 1 cut(s) 356
BmeT110I CYCGRG 1 cut(s) 284
BmiI GGNNCC 1 cut(s) 405
BmsI GCATC 1 cut(s) 373
BsaI GGTCTC 1 cut(s) 383
Bsc4I CCNNNNNNNGG 1 cut(s) 365
BseGI GGATG 1 cut(s) 347
BseLI CCNNNNNNNGG 1 cut(s) 365
BseMII CTCAG 1 cut(s) 108
BseRI GAGGAG 2 cut(s) 302, 324
BsgI GTGCAG 1 cut(s) 327
BshFI GGCC 1 cut(s) 253
BsiHKAI GWGCWC 2 cut(s) 31, 51
BsiHKCI CYCGRG 1 cut(s) 284
BslI CCNNNNNNNGG 1 cut(s) 365
BsmAI GTCTC 1 cut(s) 383
BsmI GAATGC 1 cut(s) 298
BsnI GGCC 1 cut(s) 253
Bso31I GGTCTC 1 cut(s) 383
BsoBI CYCGRG 1 cut(s) 284
Bsp1286I GDGCHC 2 cut(s) 31, 51
Bsp143I GATC 2 cut(s) 228, 279
BspANI GGCC 1 cut(s) 253
BspCNI CTCAG 1 cut(s) 109
BspLI GGNNCC 1 cut(s) 405
BspMI ACCTGC 1 cut(s) 356
BspPI GGATC 2 cut(s) 223, 274
BspTNI GGTCTC 1 cut(s) 383
BssMI GATC 2 cut(s) 228, 279
BstC8I GCNNGC 2 cut(s) 99, 255
BstDEI CTNAG 1 cut(s) 117
BstF5I GGATG 1 cut(s) 347
BstKTI GATC 2 cut(s) 231, 282
BstMAI GTCTC 1 cut(s) 383
BstMBI GATC 2 cut(s) 228, 279
BstMWI GCNNNNNNNGC 2 cut(s) 98, 310
BstX2I RGATCY 1 cut(s) 228
BstXI CCANNNNNNTGG 1 cut(s) 400
BstYI RGATCY 1 cut(s) 228
BsuRI GGCC 1 cut(s) 253
BtsCI GGATG 1 cut(s) 347
BtsIMutI CAGTG 1 cut(s) 267
BveI ACCTGC 1 cut(s) 356
Cac8I GCNNGC 2 cut(s) 99, 255
CseI GACGC 1 cut(s) 166
Csp6I GTAC 1 cut(s) 159
CviAII CATG 1 cut(s) 394
CviJI RGCY 7 cut(s) 17, 74, 97, 253, 257, 304, 313
CviKI_1 RGCY 7 cut(s) 17, 74, 97, 253, 257, 304, 313
CviQI GTAC 1 cut(s) 159
DdeI CTNAG 1 cut(s) 117
DpnI GATC 2 cut(s) 230, 281
DpnII GATC 2 cut(s) 228, 279
Eco31I GGTCTC 1 cut(s) 383
Eco57I CTGAAG 1 cut(s) 243
Eco88I CYCGRG 1 cut(s) 284
EcoRI GAATTC 1 cut(s) 53
FaeI CATG 1 cut(s) 397
FaiI YATR 5 cut(s) 89, 123, 274, 276, 395
FatI CATG 1 cut(s) 393
FblI GTMKAC 1 cut(s) 202
FokI GGATG 1 cut(s) 334
FspBI CTAG 2 cut(s) 249, 305
HaeIII GGCC 1 cut(s) 253
HgaI GACGC 1 cut(s) 166
Hin1II CATG 1 cut(s) 397
HinfI GANTC 1 cut(s) 331
Hpy166II GTNNAC 1 cut(s) 203
Hpy188I TCNGA 3 cut(s) 118, 211, 339
Hpy8I GTNNAC 1 cut(s) 203
HpyCH4V TGCA 3 cut(s) 320, 344, 386
HpyF10VI GCNNNNNNNGC 2 cut(s) 98, 310
HpyF3I CTNAG 1 cut(s) 117
Hsp92II CATG 1 cut(s) 397
Kzo9I GATC 2 cut(s) 228, 279
LmnI GCTCC 1 cut(s) 26
LpnPI CCDG 8 cut(s) 83, 125, 141, 165, 267, 299, 351, 372
LweI GCATC 1 cut(s) 373
MaeI CTAG 2 cut(s) 249, 305
MalI GATC 2 cut(s) 230, 281
MboI GATC 2 cut(s) 228, 279
MboII GAAGA 1 cut(s) 16
MfeI CAATTG 1 cut(s) 408
MflI RGATCY 1 cut(s) 228
MhlI GDGCHC 2 cut(s) 31, 51
MluCI AATT 4 cut(s) 37, 53, 105, 408
MlyI GAGTC 1 cut(s) 325
MmeI TCCRAC 3 cut(s) 4, 102, 362
MnlI CCTC 5 cut(s) 242, 280, 293, 316, 345
MseI TTAA 4 cut(s) 108, 144, 243, 354
MslI CAYNNNNRTG 1 cut(s) 398
MunI CAATTG 1 cut(s) 408
Mva1269I GAATGC 1 cut(s) 298
MwoI GCNNNNNNNGC 2 cut(s) 98, 310
NdeII GATC 2 cut(s) 228, 279
NlaIII CATG 1 cut(s) 397
NlaIV GGNNCC 1 cut(s) 405
PaeR7I CTCGAG 1 cut(s) 284
PctI GAATGC 1 cut(s) 298
PleI GAGTC 1 cut(s) 325
PpsI GAGTC 1 cut(s) 325
PspN4I GGNNCC 1 cut(s) 405
PspXI VCTCGAGB 1 cut(s) 284
PsuI RGATCY 1 cut(s) 228
RsaI GTAC 1 cut(s) 160
RsaNI GTAC 1 cut(s) 159
RseI CAYNNNNRTG 1 cut(s) 398
SaqAI TTAA 4 cut(s) 108, 144, 243, 354
Sau3AI GATC 2 cut(s) 228, 279
SchI GAGTC 1 cut(s) 325
SduI GDGCHC 2 cut(s) 31, 51
SetI ASST 6 cut(s) 129, 259, 306, 315, 327, 370
SfaNI GCATC 1 cut(s) 373
Sfr274I CTCGAG 1 cut(s) 284
SlaI CTCGAG 1 cut(s) 284
SmiMI CAYNNNNRTG 1 cut(s) 398
SmlI CTYRAG 1 cut(s) 284
SmoI CTYRAG 1 cut(s) 284
Sse9I AATT 4 cut(s) 37, 53, 105, 408
SspI AATATT 1 cut(s) 238
SspMI CTAG 2 cut(s) 249, 305
TaqI TCGA 4 cut(s) 51, 132, 267, 285
TasI AATT 4 cut(s) 37, 53, 105, 408
Tru1I TTAA 4 cut(s) 108, 144, 243, 354
Tru9I TTAA 4 cut(s) 108, 144, 243, 354
TscAI CASTG 1 cut(s) 267
TspDTI ATGAA 1 cut(s) 17
TspRI CASTG 1 cut(s) 267
XapI RAATTY 1 cut(s) 53
XhoI CTCGAG 1 cut(s) 284
XmiI GTMKAC 1 cut(s) 202
XspI CTAG 2 cut(s) 249, 305
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.