FvH4_2g05450

DNA-directed RNA polymerases II, IV and V subunit 3-like

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
Physical Location & Seq
Forward (+)
4477735 .. 4481586
3852 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g05450.t1

Sequence Viewer

Length: 957 bp
ATGGAGGGGAAGTCATACCAGAGGTTCCCTCGGGTCAAAATCCGTGAAATGAGGCACGACTACCTCAAGTTCGAGCTCCGCGACACCGACGCGAGCGTCGCCAACGCGCTCCGGCGCGTGATGATCGCCGAGGTCCCCACCGTCGCCATCGACCTCGTCGAGATCGAAATCAACTCCTCCGTCCTCAACGACGAGTTCATCGCCCACCGCCTCGGCCTCATCCCCTTGACCAGCGACCGCGCAATGAGCATGCGCTTCTCACGTGACTGCGACGCTTGCGACGGCGACGGCCAGTGCGAGTACTGCTCCGTCGAGTTCCACCTCCGCGCCCGCTGCCACTCCGACCAAACCCTCGACGTCACCAGCAAGGAGCTCCTCAGCTCCGACCACACCGTCGTCCCCGTCGATTTCTCCGATGCCTCCGGTTACGAAGCCTCCGAACAGAGGGGAATTATCATTGTGAAGCTGCGAAGGGGGCAAGAACTGAGACTGAGGGCTATTGCTAGAAAAGGGATTGGGAAAGATCACGCTAAGTGGTCACCTGCGGCTACTGTCACTTTCATGTATGAACCTGACATTCGTATCAATGAGGAGATGATGGACACATTGTCACTCGAGGACAAGGCAGCTTGGGTTGATAGCAGTCCTACCAAAGTCTTTGAGATTGATCCTAATACTGGCAAGGTCGTGGTGGTTGATCCTGAAGCATACACGTATGATGATGAAGTGATCAAGAAAGCAGAAGCTATGGGGAAGCCTGGGCTTGTGGACATCACTGCCAAAGAAGACAGTTTTATATTCACAGTGGAATCTACTGGTGCAATTAAAGCTTCTCAGCTGCTACTCAATGCCATAGAAATCCTGAAACAGAAGCTTGATGCTGTGCGCCTTTCTGAGGATACTGTTGAAGCCGATGATCAATTTGGTGAGTTAGGTGCACATATGCGAGGAGGATGA

Protein Analysis

319

Amino Acids

35.57

Weight (kDa)

4.91

Isoelectric Point (pI)

32.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_L PF01193 23 - 292 1.1e-21 RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac PF01000 55 - 178 8.5e-19 RNA polymerase Rpb3/RpoA insert domain
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 550
AasI GACNNNNNNGTC 2 cut(s) 95, 392
AatII GACGTC 1 cut(s) 360
Acc36I ACCTGC 1 cut(s) 550
AccII CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
AciI CCGC 6 cut(s) 79, 208, 238, 325, 331, 545
AclWI GGATC 2 cut(s) 662, 692
AcoI YGGCCR 1 cut(s) 289
AcuI CTGAAG 1 cut(s) 723
AcvI CACGTG 1 cut(s) 263
AcyI GRCGYC 1 cut(s) 357
AfaI GTAC 1 cut(s) 302
AfiI CCNNNNNNNGG 3 cut(s) 444, 677, 895
AflIII ACRYGT 1 cut(s) 711
AgsI TTSAA 1 cut(s) 908
AhdI GACNNNNNGTC 1 cut(s) 607
AjnI CCWGG 1 cut(s) 757
AluBI AGCT 9 cut(s) 76, 373, 381, 466, 629, 746, 830, 838, 874
AluI AGCT 9 cut(s) 76, 373, 381, 466, 629, 746, 830, 838, 874
Alw21I GWGCWC 3 cut(s) 78, 375, 940
Alw26I GTCTC 1 cut(s) 481
Alw44I GTGCAC 1 cut(s) 936
AlwI GGATC 2 cut(s) 662, 692
Ama87I CYCGRG 2 cut(s) 30, 614
AoxI GGCC 2 cut(s) 214, 289
ApaLI GTGCAC 1 cut(s) 936
ApeKI GCWGC 4 cut(s) 333, 466, 626, 838
AspLEI GCGC 6 cut(s) 109, 117, 242, 255, 329, 888
AspS9I GGNCC 1 cut(s) 133
AsuHPI GGTGA 3 cut(s) 352, 531, 938
AvaI CYCGRG 2 cut(s) 30, 614
AvaII GGWCC 1 cut(s) 133
BaeGI GKGCMC 1 cut(s) 940
BaeI ACNNNNGTAYC 2 cut(s) 565, 598
BanII GRGCYC 2 cut(s) 78, 375
BbrPI CACGTG 1 cut(s) 263
BbsI GAAGAC 1 cut(s) 792
Bbv12I GWGCWC 3 cut(s) 78, 375, 940
BbvCI CCTCAGC 1 cut(s) 377
BbvI GCAGC 4 cut(s) 320, 453, 638, 825
BccI CCATC 2 cut(s) 155, 592
BceAI ACGGC 2 cut(s) 298, 304
BciT130I CCWGG 1 cut(s) 759
BciVI GTATCC 1 cut(s) 892
BclI TGATCA 2 cut(s) 729, 916
BcoDI GTCTC 1 cut(s) 481
BfaI CTAG 1 cut(s) 504
BfuAI ACCTGC 1 cut(s) 550
BfuI GTATCC 1 cut(s) 892
BisI GCNGC 5 cut(s) 334, 467, 546, 627, 839
BlsI GCNGC 5 cut(s) 335, 468, 547, 628, 840
BmcAI AGTACT 1 cut(s) 302
Bme1390I CCNGG 1 cut(s) 759
Bme18I GGWCC 1 cut(s) 133
BmeRI GACNNNNNGTC 1 cut(s) 607
BmeT110I CYCGRG 2 cut(s) 30, 614
BmgT120I GGNCC 1 cut(s) 133
BmiI GGNNCC 2 cut(s) 26, 135
BmrFI CCNGG 1 cut(s) 759
BmsI GCATC 2 cut(s) 406, 868
BpiI GAAGAC 1 cut(s) 792
BplI GAGNNNNNCTC 4 cut(s) 13, 45, 290, 322
Bpu10I CCTNAGC 1 cut(s) 377
BpuEI CTTGAG 1 cut(s) 50
BsaAI YACGTR 2 cut(s) 263, 714
BsaBI GATNNNNATC 1 cut(s) 167
BsaHI GRCGYC 1 cut(s) 357
BsaJI CCNNGG 4 cut(s) 29, 129, 211, 758
BsaWI WCCGGW 1 cut(s) 422
BsaXI ACNNNNNCTCC 3 cut(s) 26, 419, 449
Bsc4I CCNNNNNNNGG 3 cut(s) 444, 677, 895
Bse1I ACTGG 3 cut(s) 292, 682, 820
Bse3DI GCAATG 1 cut(s) 249
Bse8I GATNNNNATC 1 cut(s) 167
BseBI CCWGG 1 cut(s) 759
BseDI CCNNGG 4 cut(s) 29, 129, 211, 758
BseGI GGATG 1 cut(s) 219
BseJI GATNNNNATC 1 cut(s) 167
BseLI CCNNNNNNNGG 3 cut(s) 444, 677, 895
BseMI GCAATG 1 cut(s) 249
BseMII CTCAG 5 cut(s) 391, 476, 482, 848, 885
BseNI ACTGG 3 cut(s) 292, 682, 820
BseRI GAGGAG 3 cut(s) 166, 365, 605
BseSI GKGCMC 1 cut(s) 940
BseXI GCAGC 4 cut(s) 320, 453, 638, 825
Bsh1236I CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
Bsh1285I CGRYCG 1 cut(s) 238
BshFI GGCC 2 cut(s) 216, 291
BsiEI CGRYCG 1 cut(s) 238
BsiHKAI GWGCWC 3 cut(s) 78, 375, 940
BsiHKCI CYCGRG 2 cut(s) 30, 614
BsiSI CCGG 2 cut(s) 112, 423
BslFI GGGAC 2 cut(s) 119, 383
BslI CCNNNNNNNGG 3 cut(s) 444, 677, 895
BsmAI GTCTC 1 cut(s) 481
BsmFI GGGAC 2 cut(s) 119, 383
BsnI GGCC 2 cut(s) 216, 291
BsoBI CYCGRG 2 cut(s) 30, 614
Bsp1286I GDGCHC 3 cut(s) 78, 375, 940
Bsp143I GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
BspACI CCGC 6 cut(s) 79, 208, 238, 325, 331, 545
BspANI GGCC 2 cut(s) 216, 291
BspCNI CTCAG 5 cut(s) 390, 477, 483, 847, 886
BspFNI CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
BspLI GGNNCC 2 cut(s) 26, 135
BspMI ACCTGC 1 cut(s) 550
BspPI GGATC 2 cut(s) 662, 692
BsrDI GCAATG 1 cut(s) 249
BsrI ACTGG 3 cut(s) 292, 682, 820
BssECI CCNNGG 4 cut(s) 29, 129, 211, 758
BssMI GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
BssNI GRCGYC 1 cut(s) 357
Bst2UI CCWGG 1 cut(s) 759
Bst4CI ACNGT 6 cut(s) 142, 394, 553, 791, 805, 904
BstACI GRCGYC 1 cut(s) 357
BstBAI YACGTR 2 cut(s) 263, 714
BstC8I GCNNGC 4 cut(s) 94, 251, 277, 331
BstDEI CTNAG 6 cut(s) 377, 485, 491, 531, 834, 894
BstEII GGTNACC 1 cut(s) 537
BstENI CCTNNNNNAGG 1 cut(s) 893
BstF5I GGATG 1 cut(s) 219
BstFNI CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
BstHHI GCGC 6 cut(s) 109, 117, 242, 255, 329, 888
BstKTI GATC 7 cut(s) 126, 165, 526, 670, 700, 732, 919
BstMAI GTCTC 1 cut(s) 481
BstMBI GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
BstMCI CGRYCG 1 cut(s) 238
BstMWI GCNNNNNNNGC 7 cut(s) 98, 246, 276, 303, 333, 475, 827
BstNI CCWGG 1 cut(s) 759
BstNSI RCATGY 1 cut(s) 253
BstPI GGTNACC 1 cut(s) 537
BstSCI CCNGG 1 cut(s) 757
BstSLI GKGCMC 1 cut(s) 940
BstUI CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
BstV1I GCAGC 4 cut(s) 320, 453, 638, 825
BstV2I GAAGAC 1 cut(s) 792
BsuI GTATCC 1 cut(s) 892
BsuRI GGCC 2 cut(s) 216, 291
BtgZI GCGATG 1 cut(s) 184
BtsCI GGATG 1 cut(s) 219
BtsI GCAGTG 1 cut(s) 774
BtsIMutI CAGTG 3 cut(s) 299, 774, 810
BveI ACCTGC 1 cut(s) 550
Cac8I GCNNGC 4 cut(s) 94, 251, 277, 331
CfoI GCGC 6 cut(s) 109, 117, 242, 255, 329, 888
Cfr13I GGNCC 1 cut(s) 133
CseI GACGC 3 cut(s) 85, 98, 281
Csp6I GTAC 1 cut(s) 301
CviAII CATG 2 cut(s) 250, 562
CviQI GTAC 1 cut(s) 301
DdeI CTNAG 6 cut(s) 377, 485, 491, 531, 834, 894
DpnI GATC 7 cut(s) 125, 164, 525, 669, 699, 731, 918
DpnII GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
DrdI GACNNNNNNGTC 2 cut(s) 95, 392
DriI GACNNNNNGTC 1 cut(s) 607
DseDI GACNNNNNNGTC 2 cut(s) 95, 392
EaeI YGGCCR 1 cut(s) 289
Eam1105I GACNNNNNGTC 1 cut(s) 607
Ecl136II GAGCTC 2 cut(s) 76, 373
Eco24I GRGCYC 2 cut(s) 78, 375
Eco47I GGWCC 1 cut(s) 133
Eco53kI GAGCTC 2 cut(s) 76, 373
Eco57I CTGAAG 1 cut(s) 723
Eco72I CACGTG 1 cut(s) 263
Eco88I CYCGRG 2 cut(s) 30, 614
Eco91I GGTNACC 1 cut(s) 537
EcoICRI GAGCTC 2 cut(s) 76, 373
EcoNI CCTNNNNNAGG 1 cut(s) 893
EcoO109I RGGNCCY 1 cut(s) 133
EcoO65I GGTNACC 1 cut(s) 537
EcoRII CCWGG 1 cut(s) 757
EcoT38I GRGCYC 2 cut(s) 78, 375
FaeI CATG 2 cut(s) 253, 565
FaqI GGGAC 2 cut(s) 119, 383
FatI CATG 2 cut(s) 249, 561
FauI CCCGC 1 cut(s) 338
FauNDI CATATG 1 cut(s) 942
FbaI TGATCA 2 cut(s) 729, 916
Fnu4HI GCNGC 5 cut(s) 334, 467, 546, 627, 839
FokI GGATG 1 cut(s) 206
FriOI GRGCYC 2 cut(s) 78, 375
Fsp4HI GCNGC 5 cut(s) 334, 467, 546, 627, 839
FspBI CTAG 1 cut(s) 504
GlaI GCGC 6 cut(s) 108, 116, 241, 254, 328, 887
GluI GCNGC 5 cut(s) 334, 467, 546, 627, 839
HaeIII GGCC 2 cut(s) 216, 291
HapII CCGG 2 cut(s) 112, 423
HgaI GACGC 3 cut(s) 85, 98, 281
HhaI GCGC 6 cut(s) 109, 117, 242, 255, 329, 888
Hin1I GRCGYC 1 cut(s) 357
Hin1II CATG 2 cut(s) 253, 565
Hin6I GCGC 6 cut(s) 107, 115, 240, 253, 327, 886
HinP1I GCGC 6 cut(s) 107, 115, 240, 253, 327, 886
HindIII AAGCTT 2 cut(s) 828, 872
HinfI GANTC 1 cut(s) 809
HpaII CCGG 2 cut(s) 112, 423
HphI GGTGA 3 cut(s) 352, 531, 938
Hpy166II GTNNAC 2 cut(s) 769, 938
Hpy188I TCNGA 5 cut(s) 343, 385, 415, 439, 895
Hpy188III TCNNGA 4 cut(s) 160, 701, 733, 862
Hpy8I GTNNAC 2 cut(s) 769, 938
HpyAV CCTTC 1 cut(s) 465
HpyCH4III ACNGT 6 cut(s) 142, 394, 553, 791, 805, 904
HpyCH4IV ACGT 3 cut(s) 262, 357, 713
HpyCH4V TGCA 2 cut(s) 821, 938
HpyF10VI GCNNNNNNNGC 7 cut(s) 98, 246, 276, 303, 333, 475, 827
HpyF3I CTNAG 6 cut(s) 377, 485, 491, 531, 834, 894
HpySE526I ACGT 3 cut(s) 262, 357, 713
Hsp92I GRCGYC 1 cut(s) 357
Hsp92II CATG 2 cut(s) 253, 565
HspAI GCGC 6 cut(s) 107, 115, 240, 253, 327, 886
Ksp22I TGATCA 2 cut(s) 729, 916
Kzo9I GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
LmnI GCTCC 6 cut(s) 81, 114, 311, 370, 378, 386
Lsp1109I GCAGC 4 cut(s) 320, 453, 638, 825
LweI GCATC 2 cut(s) 406, 868
MaeI CTAG 1 cut(s) 504
MaeII ACGT 3 cut(s) 262, 357, 713
MaeIII GTNAC 6 cut(s) 263, 358, 425, 537, 553, 609
MalI GATC 7 cut(s) 125, 164, 525, 669, 699, 731, 918
MboI GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
MboII GAAGA 1 cut(s) 797
MhlI GDGCHC 3 cut(s) 78, 375, 940
MluCI AATT 3 cut(s) 450, 822, 920
MmeI TCCRAC 2 cut(s) 366, 408
MseI TTAA 1 cut(s) 825
MslI CAYNNNNRTG 1 cut(s) 560
MspA1I CMGCKG 2 cut(s) 333, 838
MspI CCGG 2 cut(s) 112, 423
MspR9I CCNGG 1 cut(s) 759
MvaI CCWGG 1 cut(s) 759
MvnI CGCG 6 cut(s) 81, 92, 107, 117, 240, 327
MwoI GCNNNNNNNGC 7 cut(s) 98, 246, 276, 303, 333, 475, 827
NdeI CATATG 1 cut(s) 942
NdeII GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
NlaIII CATG 2 cut(s) 253, 565
NlaIV GGNNCC 2 cut(s) 26, 135
NmeAIII GCCGAG 2 cut(s) 154, 192
NmuCI GTSAC 5 cut(s) 263, 358, 537, 553, 609
NspI RCATGY 1 cut(s) 253
PaeI GCATGC 1 cut(s) 253
PaeR7I CTCGAG 1 cut(s) 614
PaqCI CACCTGC 1 cut(s) 550
PcsI WCGNNNNNNNCGW 7 cut(s) 78, 156, 162, 294, 402, 411, 435
PfeI GAWTC 1 cut(s) 809
PflFI GACNNNGTC 1 cut(s) 155
PkrI GCNGC 5 cut(s) 335, 468, 547, 628, 840
PmaCI CACGTG 1 cut(s) 263
PmlI CACGTG 1 cut(s) 263
Ppu21I YACGTR 2 cut(s) 263, 714
PpuMI RGGWCCY 1 cut(s) 133
Psp124BI GAGCTC 2 cut(s) 78, 375
Psp5II RGGWCCY 1 cut(s) 133
Psp6I CCWGG 1 cut(s) 757
PspCI CACGTG 1 cut(s) 263
PspEI GGTNACC 1 cut(s) 537
PspGI CCWGG 1 cut(s) 757
PspN4I GGNNCC 2 cut(s) 26, 135
PspPI GGNCC 1 cut(s) 133
PspPPI RGGWCCY 1 cut(s) 133
PspXI VCTCGAGB 1 cut(s) 614
PsyI GACNNNGTC 1 cut(s) 155
PvuII CAGCTG 1 cut(s) 838
RsaI GTAC 1 cut(s) 302
RsaNI GTAC 1 cut(s) 301
RseI CAYNNNNRTG 1 cut(s) 560
SacI GAGCTC 2 cut(s) 78, 375
SaqAI TTAA 1 cut(s) 825
SatI GCNGC 5 cut(s) 334, 467, 546, 627, 839
Sau3AI GATC 7 cut(s) 123, 162, 523, 667, 697, 729, 916
Sau96I GGNCC 1 cut(s) 133
ScaI AGTACT 1 cut(s) 302
ScrFI CCNGG 1 cut(s) 759
SduI GDGCHC 3 cut(s) 78, 375, 940
SfaNI GCATC 2 cut(s) 406, 868
Sfr274I CTCGAG 1 cut(s) 614
SinI GGWCC 1 cut(s) 133
SlaI CTCGAG 1 cut(s) 614
SmiMI CAYNNNNRTG 1 cut(s) 560
SmlI CTYRAG 2 cut(s) 65, 614
SmoI CTYRAG 2 cut(s) 65, 614
SphI GCATGC 1 cut(s) 253
Sse9I AATT 3 cut(s) 450, 822, 920
SsiI CCGC 6 cut(s) 79, 208, 238, 325, 331, 545
SspMI CTAG 1 cut(s) 504
SstI GAGCTC 2 cut(s) 78, 375
StyD4I CCNGG 1 cut(s) 757
TaaI ACNGT 6 cut(s) 142, 394, 553, 791, 805, 904
TaiI ACGT 3 cut(s) 265, 360, 716
TaqI TCGA 8 cut(s) 72, 150, 159, 165, 312, 354, 405, 615
TasI AATT 3 cut(s) 450, 822, 920
TatI WGTACW 1 cut(s) 300
TauI GCSGC 1 cut(s) 548
TfiI GAWTC 1 cut(s) 809
Tru1I TTAA 1 cut(s) 825
Tru9I TTAA 1 cut(s) 825
TscAI CASTG 3 cut(s) 299, 781, 810
TseFI GTSAC 5 cut(s) 263, 358, 537, 553, 609
TseI GCWGC 4 cut(s) 333, 466, 626, 838
Tsp45I GTSAC 5 cut(s) 263, 358, 537, 553, 609
TspDTI ATGAA 4 cut(s) 187, 550, 582, 738
TspGWI ACGGA 3 cut(s) 32, 169, 298
TspRI CASTG 3 cut(s) 299, 781, 810
Tth111I GACNNNGTC 1 cut(s) 155
VneI GTGCAC 1 cut(s) 936
VpaK11BI GGWCC 1 cut(s) 133
XagI CCTNNNNNAGG 1 cut(s) 893
XceI RCATGY 1 cut(s) 253
XhoI CTCGAG 1 cut(s) 614
XspI CTAG 1 cut(s) 504
ZraI GACGTC 1 cut(s) 358
ZrmI AGTACT 1 cut(s) 302
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.