FvH4_7g34280

RNA polymerase sigma factor

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
Physical Location & Seq
Forward (+)
24189829 .. 24193780
3952 bp
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UTR
Exon/CDS
Intron
FvH4_7g34280.t1

Sequence Viewer

Length: 1539 bp
ATGATGGCCACAGCTGCTGCTGTTGTTGGGCTTAGTAGTACGGGGAAGCGTCTCTTAAGTTCTTCCTTGTCTTATTCAGATATCACAGATAAGCTCTTTTATCTCAATGATCACGGCTTCGTAAATTGTCAATTGTCTTCAACCAAGAATGTTGTCACTGCCAGAAAGTCATCTTCCAAATACAGTAATTCCAGATTTCCATCGTCTAATAGACATCATGAACAGTCCATCAGGGCATTGCAAGAGCATGCAGATACTGCCTCTGCTCCTTCATCAACCACACATCAATTGCTTGAGGAATACACCGACTTGGAAGAGGAAAGCTCCGATCTTGAATATTCAGTGGAGGCCCTTCTTCTGCTACAGAAGTCTTTGCTGGAAAAGCAGTGGAATCTTTCCTTTGAGAAAAAACTGTCGACTAGAAAAATAACTGATAACAAGATACCTGTAACTTGTTCTGGTGTCTCTGCTCGGCAGAGGAGGATGAGTACTAAGAGGAAAGCTTTCAGCAAAAATACTTCTGAGTTACAACCTAGCACCAATAAGTATTGCAGAGCAACTATTAGTCCGTCGCTGCTGCAGAATCGTACAAGCGGTTATGTGAAGGGTGTTACGAGTGATCATTTGCTGACTCACACTGAGGTCGTACGGTTATCAAAGAAAATCAAAATCGGGCTTTCAGTGGAGGAGCATAAATCAAGATTGAAGGAGAAATTGGGTTGTGAGCCGTCTGTTGAACAACTCGCAACTTCACTGAGGATATCCCGCACTGAACTACAGTCAAAGTTAATCCAATGTTCTTTGGCAAGAGAGAAGCTGACAATGAGCAATGTTCGTCTGGTCATGTCCATTGCTCAAAGATATGATAACATGGGTGCTGAAATGGCTGACCTTATCCAGGGTGGCTTAATTGGACTACTACGCGGGATTGAAAAATTTGATGCATCAAAGGGGTTCAAAATTTCTACTTATGTTTACTGGTGGATACGTCAGGGTGTTTCAAGAGCACTGGTTGAAAATTCCAGAACCTTAAGACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAGAAATGCAAAAGTTAGATTGGAAGAGAAAGGAATAACTCCATCTATTGATAGTATCGCAGAGAGCCTGAATATGTCCAAAAAGAAAGTTAGAAATGCTACTGAGGCAATCAGTAAAGTTTTTTCGCTTGATAGAGATGCATTCCCCTCTTTGAATGGCCTTCCAGGAGAAACTCATCATAGTTATATTGCTGATAATCGCCACGAGAACATCCCATGGCATGGGTTGGATGAGTTGGCACTCAAGGATGAAGTAAACAAGCTCATAAATTTGATGCTTGGGGAGCGGGAGCGTGAGATCATACGGCTTTACTATGGCCTGGATAATGAATGTCTTACATGGGAGGACATTAGCAAACGGATAGGATTGTCCAGAGAAAGAGTTAGGCAAGTCGGACTGGTTGCTCTAGAGAAACTGAAACATGGTGCGAGGAAAAAAGAGTTGGAGGCCATGCTCGTCCAACATTAA

Protein Analysis

513

Amino Acids

57.84

Weight (kDa)

9.48

Isoelectric Point (pI)

41.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sigma70_r2 PF04542 275 - 342 4.4e-17 Sigma-70 region 2
Sigma70_r3 PF04539 352 - 423 8.9e-13 Sigma-70 region 3
Sigma70_r4 PF04545 450 - 498 2.1e-10 Sigma-70, region 4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Orthologous Genes (Group: OG0013559)

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 1292
AccBSI CCGCTC 1 cut(s) 1357
AccI GTMKAC 1 cut(s) 416
AccII CGCG 1 cut(s) 924
AciI CCGC 4 cut(s) 594, 766, 924, 1357
AcoI YGGCCR 1 cut(s) 6
AcsI RAATTY 4 cut(s) 935, 960, 1018, 1339
AfaI GTAC 4 cut(s) 40, 490, 589, 648
AfiI CCNNNNNNNGG 2 cut(s) 898, 1292
AflII CTTAAG 2 cut(s) 55, 1030
AgsI TTSAA 9 cut(s) 141, 335, 706, 737, 932, 958, 1002, 1016, 1225
AjnI CCWGG 3 cut(s) 897, 1234, 1389
AjuI GAANNNNNNNTTGG 4 cut(s) 698, 730, 1496, 1528
AluBI AGCT 6 cut(s) 14, 94, 324, 503, 817, 1333
AluI AGCT 6 cut(s) 14, 94, 324, 503, 817, 1333
Alw21I GWGCWC 1 cut(s) 1009
Alw26I GTCTC 2 cut(s) 56, 469
AlwNI CAGNNNCTG 2 cut(s) 17, 257
AoxI GGCC 5 cut(s) 6, 348, 1228, 1387, 1518
ApeKI GCWGC 4 cut(s) 14, 17, 574, 577
ApoI RAATTY 4 cut(s) 935, 960, 1018, 1339
Asp700I GAANNNNTTC 1 cut(s) 503
AspS9I GGNCC 1 cut(s) 349
BalI TGGCCA 1 cut(s) 8
BauI CACGAG 1 cut(s) 1274
BbsI GAAGAC 1 cut(s) 129
Bbv12I GWGCWC 1 cut(s) 1009
BbvI GCAGC 3 cut(s) 4, 561, 564
BccI CCATC 3 cut(s) 208, 236, 1120
BceAI ACGGC 3 cut(s) 130, 712, 1391
BciT130I CCWGG 3 cut(s) 899, 1236, 1391
BciVI GTATCC 1 cut(s) 978
BclI TGATCA 2 cut(s) 109, 619
BcoDI GTCTC 2 cut(s) 56, 469
BfaI CTAG 3 cut(s) 420, 534, 1478
BfmI CTRYAG 3 cut(s) 362, 578, 776
BfrI CTTAAG 2 cut(s) 55, 1030
BfuI GTATCC 1 cut(s) 978
BisI GCNGC 4 cut(s) 15, 18, 575, 578
BlsI GCNGC 4 cut(s) 16, 19, 576, 579
BmcAI AGTACT 1 cut(s) 490
Bme1390I CCNGG 3 cut(s) 899, 1236, 1391
BmgT120I GGNCC 1 cut(s) 349
BmrFI CCNGG 3 cut(s) 899, 1236, 1391
BmsI GCATC 4 cut(s) 931, 953, 1198, 1335
BpiI GAAGAC 1 cut(s) 129
BplI GAGNNNNNCTC 2 cut(s) 308, 340
BpuEI CTTGAG 2 cut(s) 314, 1298
BsaBI GATNNNNATC 1 cut(s) 199
BsaJI CCNNGG 2 cut(s) 898, 1286
BsaXI ACNNNNNCTCC 2 cut(s) 472, 502
Bsc4I CCNNNNNNNGG 2 cut(s) 898, 1292
Bse1I ACTGG 3 cut(s) 983, 1014, 1473
Bse3DI GCAATG 3 cut(s) 236, 835, 849
Bse8I GATNNNNATC 1 cut(s) 199
BseBI CCWGG 3 cut(s) 899, 1236, 1391
BseDI CCNNGG 2 cut(s) 898, 1286
BseGI GGATG 4 cut(s) 489, 1281, 1306, 1324
BseJI GATNNNNATC 1 cut(s) 199
BseLI CCNNNNNNNGG 2 cut(s) 898, 1292
BseMI GCAATG 3 cut(s) 236, 835, 849
BseMII CTCAG 4 cut(s) 513, 630, 746, 1164
BseNI ACTGG 3 cut(s) 983, 1014, 1473
BseRI GAGGAG 2 cut(s) 493, 701
BseXI GCAGC 3 cut(s) 4, 561, 564
Bsh1236I CGCG 1 cut(s) 924
BshFI GGCC 5 cut(s) 8, 350, 1230, 1389, 1520
BsiHKAI GWGCWC 1 cut(s) 1009
BsiWI CGTACG 1 cut(s) 646
BslI CCNNNNNNNGG 2 cut(s) 898, 1292
BsmAI GTCTC 2 cut(s) 56, 469
BsmBI CGTCTC 1 cut(s) 56
BsmI GAATGC 1 cut(s) 1211
BsnI GGCC 5 cut(s) 8, 350, 1230, 1389, 1520
Bsp1286I GDGCHC 1 cut(s) 1009
Bsp143I GATC 4 cut(s) 109, 328, 619, 1368
Bsp19I CCATGG 1 cut(s) 1286
BspACI CCGC 4 cut(s) 594, 766, 924, 1357
BspANI GGCC 5 cut(s) 8, 350, 1230, 1389, 1520
BspCNI CTCAG 4 cut(s) 514, 631, 747, 1165
BspFNI CGCG 1 cut(s) 924
BspHI TCATGA 1 cut(s) 217
BspMAI CTGCAG 1 cut(s) 582
BspTI CTTAAG 2 cut(s) 55, 1030
BsrBI CCGCTC 1 cut(s) 1357
BsrDI GCAATG 3 cut(s) 236, 835, 849
BsrI ACTGG 3 cut(s) 983, 1014, 1473
BssECI CCNNGG 2 cut(s) 898, 1286
BssMI GATC 4 cut(s) 109, 328, 619, 1368
BssSI CACGAG 1 cut(s) 1274
BssT1I CCWWGG 1 cut(s) 1286
Bst2BI CACGAG 1 cut(s) 1274
Bst2UI CCWGG 3 cut(s) 899, 1236, 1391
Bst4CI ACNGT 5 cut(s) 185, 225, 414, 651, 780
Bst6I CTCTTC 2 cut(s) 309, 1089
BstAFI CTTAAG 2 cut(s) 55, 1030
BstAPI GCANNNNNTGC 1 cut(s) 257
BstC8I GCNNGC 1 cut(s) 249
BstDEI CTNAG 6 cut(s) 32, 492, 522, 639, 755, 1173
BstDSI CCRYGG 1 cut(s) 1286
BstENI CCTNNNNNAGG 1 cut(s) 896
BstF5I GGATG 4 cut(s) 489, 1281, 1306, 1324
BstFNI CGCG 1 cut(s) 924
BstKTI GATC 4 cut(s) 112, 331, 622, 1371
BstMAI GTCTC 2 cut(s) 56, 469
BstMBI GATC 4 cut(s) 109, 328, 619, 1368
BstMWI GCNNNNNNNGC 6 cut(s) 14, 257, 382, 884, 1175, 1354
BstNI CCWGG 3 cut(s) 899, 1236, 1391
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 3 cut(s) 897, 1234, 1389
BstSFI CTRYAG 3 cut(s) 362, 578, 776
BstUI CGCG 1 cut(s) 924
BstV1I GCAGC 3 cut(s) 4, 561, 564
BstV2I GAAGAC 1 cut(s) 129
BsuI GTATCC 1 cut(s) 978
BsuRI GGCC 5 cut(s) 8, 350, 1230, 1389, 1520
BtgI CCRYGG 1 cut(s) 1286
BtsCI GGATG 4 cut(s) 489, 1281, 1306, 1324
BtsI GCAGTG 2 cut(s) 156, 392
BtsIMutI CAGTG 8 cut(s) 156, 348, 392, 636, 687, 752, 768, 1007
Cac8I GCNNGC 1 cut(s) 249
CaiI CAGNNNCTG 2 cut(s) 17, 257
CciI TCATGA 1 cut(s) 217
Cfr13I GGNCC 1 cut(s) 349
CseI GACGC 1 cut(s) 38
Csp6I GTAC 4 cut(s) 39, 489, 588, 647
CviQI GTAC 4 cut(s) 39, 489, 588, 647
DdeI CTNAG 6 cut(s) 32, 492, 522, 639, 755, 1173
DpnI GATC 4 cut(s) 111, 330, 621, 1370
DpnII GATC 4 cut(s) 109, 328, 619, 1368
EaeI YGGCCR 1 cut(s) 6
Eam1104I CTCTTC 2 cut(s) 309, 1089
EarI CTCTTC 2 cut(s) 309, 1089
Eco130I CCWWGG 1 cut(s) 1286
Eco32I GATATC 2 cut(s) 82, 762
EcoNI CCTNNNNNAGG 1 cut(s) 896
EcoO109I RGGNCCY 1 cut(s) 349
EcoRII CCWGG 3 cut(s) 897, 1234, 1389
EcoRV GATATC 2 cut(s) 82, 762
EcoT14I CCWWGG 1 cut(s) 1286
EcoT22I ATGCAT 2 cut(s) 946, 1213
ErhI CCWWGG 1 cut(s) 1286
Esp3I CGTCTC 1 cut(s) 56
FalI AAGNNNNNCTT 2 cut(s) 38, 70
FauI CCCGC 3 cut(s) 773, 917, 1350
FbaI TGATCA 2 cut(s) 109, 619
FblI GTMKAC 1 cut(s) 416
Fnu4HI GCNGC 4 cut(s) 15, 18, 575, 578
FokI GGATG 4 cut(s) 496, 1268, 1313, 1331
Fsp4HI GCNGC 4 cut(s) 15, 18, 575, 578
FspBI CTAG 3 cut(s) 420, 534, 1478
GluI GCNGC 4 cut(s) 15, 18, 575, 578
HaeIII GGCC 5 cut(s) 8, 350, 1230, 1389, 1520
HgaI GACGC 1 cut(s) 38
HincII GTYRAC 1 cut(s) 417
HindII GTYRAC 1 cut(s) 417
HindIII AAGCTT 1 cut(s) 501
HinfI GANTC 3 cut(s) 391, 583, 631
Hpy166II GTNNAC 3 cut(s) 417, 976, 1327
Hpy188I TCNGA 5 cut(s) 79, 328, 523, 1073, 1466
Hpy188III TCNNGA 8 cut(s) 192, 218, 332, 699, 1002, 1023, 1443, 1478
Hpy8I GTNNAC 3 cut(s) 417, 976, 1327
Hpy99I CGWCG 1 cut(s) 574
HpyAV CCTTC 5 cut(s) 279, 362, 598, 700, 1241
HpyCH4III ACNGT 5 cut(s) 185, 225, 414, 651, 780
HpyCH4IV ACGT 1 cut(s) 988
HpyCH4V TGCA 8 cut(s) 241, 251, 552, 580, 944, 1051, 1079, 1211
HpyF10VI GCNNNNNNNGC 6 cut(s) 14, 257, 382, 884, 1175, 1354
HpyF3I CTNAG 6 cut(s) 32, 492, 522, 639, 755, 1173
HpySE526I ACGT 1 cut(s) 988
Ksp22I TGATCA 2 cut(s) 109, 619
Kzo9I GATC 4 cut(s) 109, 328, 619, 1368
LmnI GCTCC 5 cut(s) 271, 329, 688, 1354, 1360
Lsp1109I GCAGC 3 cut(s) 4, 561, 564
LweI GCATC 4 cut(s) 931, 953, 1198, 1335
MaeI CTAG 3 cut(s) 420, 534, 1478
MaeII ACGT 1 cut(s) 988
MaeIII GTNAC 4 cut(s) 154, 448, 525, 610
MalI GATC 4 cut(s) 111, 330, 621, 1370
MbiI CCGCTC 1 cut(s) 1357
MboI GATC 4 cut(s) 109, 328, 619, 1368
MboII GAAGA 6 cut(s) 54, 129, 165, 326, 347, 1106
MfeI CAATTG 2 cut(s) 131, 287
MhlI GDGCHC 1 cut(s) 1009
MlsI TGGCCA 1 cut(s) 8
MluNI TGGCCA 1 cut(s) 8
MlyI GAGTC 1 cut(s) 625
MmeI TCCRAC 3 cut(s) 1278, 1444, 1494
Mox20I TGGCCA 1 cut(s) 8
Mph1103I ATGCAT 2 cut(s) 946, 1213
MroXI GAANNNNTTC 1 cut(s) 503
MscI TGGCCA 1 cut(s) 8
MseI TTAA 6 cut(s) 56, 788, 908, 1031, 1067, 1537
MslI CAYNNNNRTG 1 cut(s) 1050
Msp20I TGGCCA 1 cut(s) 8
MspA1I CMGCKG 1 cut(s) 14
MspCI CTTAAG 2 cut(s) 55, 1030
MspR9I CCNGG 3 cut(s) 899, 1236, 1391
MunI CAATTG 2 cut(s) 131, 287
Mva1269I GAATGC 1 cut(s) 1211
MvaI CCWGG 3 cut(s) 899, 1236, 1391
MvnI CGCG 1 cut(s) 924
MwoI GCNNNNNNNGC 6 cut(s) 14, 257, 382, 884, 1175, 1354
NcoI CCATGG 1 cut(s) 1286
NdeII GATC 4 cut(s) 109, 328, 619, 1368
NmeAIII GCCGAG 1 cut(s) 451
NmuCI GTSAC 1 cut(s) 154
NsiI ATGCAT 2 cut(s) 946, 1213
NspI RCATGY 1 cut(s) 251
PaeI GCATGC 1 cut(s) 251
PagI TCATGA 1 cut(s) 217
PctI GAATGC 1 cut(s) 1211
PdmI GAANNNNTTC 1 cut(s) 503
PfeI GAWTC 2 cut(s) 391, 583
Pfl23II CGTACG 1 cut(s) 646
PflMI CCANNNNNTGG 1 cut(s) 1292
PfoI TCCNGGA 1 cut(s) 1234
PkrI GCNGC 4 cut(s) 16, 19, 576, 579
PleI GAGTC 1 cut(s) 625
PpsI GAGTC 1 cut(s) 625
Psp6I CCWGG 3 cut(s) 897, 1234, 1389
PspGI CCWGG 3 cut(s) 897, 1234, 1389
PspLI CGTACG 1 cut(s) 646
PspPI GGNCC 1 cut(s) 349
PstI CTGCAG 1 cut(s) 582
PstNI CAGNNNCTG 2 cut(s) 17, 257
PvuII CAGCTG 1 cut(s) 14
RsaI GTAC 4 cut(s) 40, 490, 589, 648
RsaNI GTAC 4 cut(s) 39, 489, 588, 647
RseI CAYNNNNRTG 1 cut(s) 1050
SalI GTCGAC 1 cut(s) 415
SaqAI TTAA 6 cut(s) 56, 788, 908, 1031, 1067, 1537
SatI GCNGC 4 cut(s) 15, 18, 575, 578
Sau3AI GATC 4 cut(s) 109, 328, 619, 1368
Sau96I GGNCC 1 cut(s) 349
ScaI AGTACT 1 cut(s) 490
SchI GAGTC 1 cut(s) 625
ScrFI CCNGG 3 cut(s) 899, 1236, 1391
SduI GDGCHC 1 cut(s) 1009
SfaNI GCATC 4 cut(s) 931, 953, 1198, 1335
SfcI CTRYAG 3 cut(s) 362, 578, 776
SmiMI CAYNNNNRTG 1 cut(s) 1050
SmlI CTYRAG 4 cut(s) 55, 293, 1030, 1313
SmoI CTYRAG 4 cut(s) 55, 293, 1030, 1313
SphI GCATGC 1 cut(s) 251
SsiI CCGC 4 cut(s) 594, 766, 924, 1357
SspI AATATT 1 cut(s) 338
SspMI CTAG 3 cut(s) 420, 534, 1478
StyD4I CCNGG 3 cut(s) 897, 1234, 1389
StyI CCWWGG 1 cut(s) 1286
TaaI ACNGT 5 cut(s) 185, 225, 414, 651, 780
TaiI ACGT 1 cut(s) 991
TaqI TCGA 1 cut(s) 416
TatI WGTACW 1 cut(s) 488
TfiI GAWTC 2 cut(s) 391, 583
Tru1I TTAA 6 cut(s) 56, 788, 908, 1031, 1067, 1537
Tru9I TTAA 6 cut(s) 56, 788, 908, 1031, 1067, 1537
TscAI CASTG 8 cut(s) 163, 348, 392, 643, 687, 759, 775, 1014
TseFI GTSAC 1 cut(s) 154
TseI GCWGC 4 cut(s) 14, 17, 574, 577
Tsp45I GTSAC 1 cut(s) 154
TspDTI ATGAA 4 cut(s) 234, 261, 1335, 1413
TspGWI ACGGA 2 cut(s) 558, 1444
TspRI CASTG 8 cut(s) 163, 348, 392, 643, 687, 759, 775, 1014
Van91I CCANNNNNTGG 1 cut(s) 1292
Vha464I CTTAAG 2 cut(s) 55, 1030
XagI CCTNNNNNAGG 1 cut(s) 896
XapI RAATTY 4 cut(s) 935, 960, 1018, 1339
XbaI TCTAGA 1 cut(s) 1477
XceI RCATGY 1 cut(s) 251
XmiI GTMKAC 1 cut(s) 416
XmnI GAANNNNTTC 1 cut(s) 503
XspI CTAG 3 cut(s) 420, 534, 1478
ZrmI AGTACT 1 cut(s) 490
Zsp2I ATGCAT 2 cut(s) 946, 1213
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.