FvH4_4g02510

DNA-directed RNA polymerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0016814
Physical Location & Seq
Reverse (-)
2292953 .. 2294250
1298 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g02510.t2

Sequence Viewer

Length: 531 bp
ATGTATCTCAAAGCAGAGTTGAGCCGGAGTGTTGTACTTCCTCCCAAAAGCCTGAACAAAGATGGAGTGAAGCTCCAAACGGAAGTGTCTCGCCGCTTGCTGGATGATTTTGCTACAGAAAGGGCAACAAAAGATCTGGGATACTTTCTGGCTGTGACGACTGTGGAGAGCATAGGAGAAGGAATGGTGAGGCCGGACACCGGTGAAGTTAAGTATCCGGTTGTTTTCAACTGCATCACCTTCAAGCTTTTCGTCGGAGAGATCATAGATGGGGTTGTTTACAAGGTAATGAGGCACGGAGTTTTTCTTCGATGCGGTCCTGTTGAAAATGTGTTTCTCTCTGCTAACAAGATACCGGAATATCATTTTATCCCTAGAGATGATGACTCTGTGTTCTTAAACCCTGAGAAGCCGCTCTCTAGGATTGGGAAAGATGTCACAATTCGTTGCATTGTCCTTGCGACTCGATGGTCTGAAGAAGAAAGGGAACTCTACGCACTGGTTGATTTGCCGAGTGAGATATCTAGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rbc25 SHS2_Rpb7-N

Protein Analysis

177

Amino Acids

19.91

Weight (kDa)

5.52

Isoelectric Point (pI)

42.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SHS2_Rpb7-N PF03876 11 - 68 7.3e-06 SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397
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: OG0016814)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g02510 FvH4_4g02510
rosa_chinensis RchiOBHm_Chr4g0389991
rosa_laevigata RLG00000009941
rosa_multiflora Rmu_sc0003687.1_g000012 Rmu_sc0004336.1_g000019
rosa_rugosa Rorug03G0327700 Rorug03G0327700
rosa_samantha Rh4AG030900 Rh4BG024300 Rh4CG033600 Rh4DG024600
rosa_wichuraiana Rw4G002350 Rw4G002400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 469
AccBSI CCGCTC 1 cut(s) 415
AciI CCGC 3 cut(s) 94, 315, 413
AcuI CTGAAG 1 cut(s) 495
AfaI GTAC 1 cut(s) 36
AfiI CCNNNNNNNGG 2 cut(s) 100, 200
AgeI ACCGGT 1 cut(s) 200
AgsI TTSAA 3 cut(s) 229, 244, 326
AluBI AGCT 3 cut(s) 73, 247, 528
AluI AGCT 3 cut(s) 73, 247, 528
Alw26I GTCTC 1 cut(s) 93
AoxI GGCC 1 cut(s) 191
AsiGI ACCGGT 1 cut(s) 200
AspS9I GGNCC 1 cut(s) 317
AsuHPI GGTGA 3 cut(s) 199, 215, 229
AvaII GGWCC 1 cut(s) 317
BccI CCATC 3 cut(s) 56, 263, 462
BciVI GTATCC 2 cut(s) 134, 225
BcoDI GTCTC 1 cut(s) 93
BfaI CTAG 4 cut(s) 375, 420, 525, 529
BfmI CTRYAG 1 cut(s) 114
BfuI GTATCC 2 cut(s) 134, 225
BglII AGATCT 1 cut(s) 133
BisI GCNGC 2 cut(s) 94, 413
BlsI GCNGC 2 cut(s) 95, 414
Bme18I GGWCC 1 cut(s) 317
BmgT120I GGNCC 1 cut(s) 317
BmsI GCATC 2 cut(s) 243, 302
BplI GAGNNNNNCTC 2 cut(s) 57, 89
BsaWI WCCGGW 3 cut(s) 200, 217, 355
Bsc4I CCNNNNNNNGG 2 cut(s) 100, 200
Bse118I RCCGGY 1 cut(s) 200
Bse1I ACTGG 1 cut(s) 504
BseGI GGATG 1 cut(s) 109
BseLI CCNNNNNNNGG 2 cut(s) 100, 200
BseMII CTCAG 1 cut(s) 396
BseNI ACTGG 1 cut(s) 504
BshFI GGCC 1 cut(s) 193
BshTI ACCGGT 1 cut(s) 200
BsiSI CCGG 5 cut(s) 25, 194, 201, 218, 356
BslI CCNNNNNNNGG 2 cut(s) 100, 200
BsmAI GTCTC 1 cut(s) 93
BsnI GGCC 1 cut(s) 193
Bsp143I GATC 2 cut(s) 133, 261
BspACI CCGC 3 cut(s) 94, 315, 413
BspANI GGCC 1 cut(s) 193
BspCNI CTCAG 1 cut(s) 397
BsrBI CCGCTC 1 cut(s) 415
BsrFI RCCGGY 1 cut(s) 200
BsrI ACTGG 1 cut(s) 504
BssAI RCCGGY 1 cut(s) 200
BssMI GATC 2 cut(s) 133, 261
Bst4CI ACNGT 1 cut(s) 163
BstC8I GCNNGC 1 cut(s) 98
BstDEI CTNAG 1 cut(s) 405
BstF5I GGATG 1 cut(s) 109
BstKTI GATC 2 cut(s) 136, 264
BstMAI GTCTC 1 cut(s) 93
BstMBI GATC 2 cut(s) 133, 261
BstSFI CTRYAG 1 cut(s) 114
BstX2I RGATCY 1 cut(s) 133
BstYI RGATCY 1 cut(s) 133
BsuI GTATCC 2 cut(s) 134, 225
BsuRI GGCC 1 cut(s) 193
BtsCI GGATG 1 cut(s) 109
BtsIMutI CAGTG 1 cut(s) 497
Cac8I GCNNGC 1 cut(s) 98
Cfr10I RCCGGY 1 cut(s) 200
Cfr13I GGNCC 1 cut(s) 317
Csp6I GTAC 1 cut(s) 35
CspAI ACCGGT 1 cut(s) 200
CviJI RGCY 8 cut(s) 24, 51, 73, 152, 193, 247, 412, 528
CviKI_1 RGCY 8 cut(s) 24, 51, 73, 152, 193, 247, 412, 528
CviQI GTAC 1 cut(s) 35
DdeI CTNAG 1 cut(s) 405
DpnI GATC 2 cut(s) 135, 263
DpnII GATC 2 cut(s) 133, 261
DrdI GACNNNNNNGTC 1 cut(s) 469
DseDI GACNNNNNNGTC 1 cut(s) 469
Eco32I GATATC 1 cut(s) 522
Eco47I GGWCC 1 cut(s) 317
Eco57I CTGAAG 1 cut(s) 495
EcoRV GATATC 1 cut(s) 522
FaiI YATR 2 cut(s) 173, 266
Fnu4HI GCNGC 2 cut(s) 94, 413
FokI GGATG 1 cut(s) 116
Fsp4HI GCNGC 2 cut(s) 94, 413
FspBI CTAG 4 cut(s) 375, 420, 525, 529
GluI GCNGC 2 cut(s) 94, 413
HaeIII GGCC 1 cut(s) 193
HapII CCGG 5 cut(s) 25, 194, 201, 218, 356
HindIII AAGCTT 1 cut(s) 245
HinfI GANTC 2 cut(s) 386, 463
HpaII CCGG 5 cut(s) 25, 194, 201, 218, 356
HphI GGTGA 3 cut(s) 199, 215, 229
Hpy166II GTNNAC 1 cut(s) 280
Hpy188I TCNGA 2 cut(s) 257, 475
Hpy8I GTNNAC 1 cut(s) 280
Hpy99I CGWCG 1 cut(s) 257
HpyAV CCTTC 2 cut(s) 173, 250
HpyCH4III ACNGT 1 cut(s) 163
HpyCH4V TGCA 2 cut(s) 234, 450
HpyF3I CTNAG 1 cut(s) 405
Kzo9I GATC 2 cut(s) 133, 261
LmnI GCTCC 1 cut(s) 78
LweI GCATC 2 cut(s) 243, 302
MaeI CTAG 4 cut(s) 375, 420, 525, 529
MaeIII GTNAC 2 cut(s) 154, 436
MalI GATC 2 cut(s) 135, 263
MbiI CCGCTC 1 cut(s) 415
MboI GATC 2 cut(s) 133, 261
MboII GAAGA 3 cut(s) 299, 488, 491
MflI RGATCY 1 cut(s) 133
MluCI AATT 1 cut(s) 441
MlyI GAGTC 2 cut(s) 380, 457
MmeI TCCRAC 1 cut(s) 235
MnlI CCTC 3 cut(s) 51, 183, 285
MseI TTAA 2 cut(s) 210, 398
MspI CCGG 5 cut(s) 25, 194, 201, 218, 356
NdeII GATC 2 cut(s) 133, 261
NmuCI GTSAC 2 cut(s) 154, 436
PinAI ACCGGT 1 cut(s) 200
PkrI GCNGC 2 cut(s) 95, 414
PleI GAGTC 2 cut(s) 380, 457
PpsI GAGTC 2 cut(s) 380, 457
PspPI GGNCC 1 cut(s) 317
PsuI RGATCY 1 cut(s) 133
RsaI GTAC 1 cut(s) 36
RsaNI GTAC 1 cut(s) 35
SaqAI TTAA 2 cut(s) 210, 398
SatI GCNGC 2 cut(s) 94, 413
Sau3AI GATC 2 cut(s) 133, 261
Sau96I GGNCC 1 cut(s) 317
SchI GAGTC 2 cut(s) 380, 457
SetI ASST 5 cut(s) 75, 242, 249, 288, 530
SfaNI GCATC 2 cut(s) 243, 302
SfcI CTRYAG 1 cut(s) 114
SgrAI CRCCGGYG 1 cut(s) 200
SinI GGWCC 1 cut(s) 317
Sse9I AATT 1 cut(s) 441
SsiI CCGC 3 cut(s) 94, 315, 413
SspMI CTAG 4 cut(s) 375, 420, 525, 529
TaaI ACNGT 1 cut(s) 163
TaqI TCGA 2 cut(s) 310, 466
TasI AATT 1 cut(s) 441
TatI WGTACW 1 cut(s) 34
TauI GCSGC 2 cut(s) 96, 415
Tru1I TTAA 2 cut(s) 210, 398
Tru9I TTAA 2 cut(s) 210, 398
TscAI CASTG 1 cut(s) 504
TseFI GTSAC 2 cut(s) 154, 436
Tsp45I GTSAC 2 cut(s) 154, 436
TspGWI ACGGA 2 cut(s) 95, 312
TspRI CASTG 1 cut(s) 504
VpaK11BI GGWCC 1 cut(s) 317
XspI CTAG 4 cut(s) 375, 420, 525, 529
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.