RLG00000026025

RNA polymerase sigma factor

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
Physical Location & Seq
Reverse (-)
75231 .. 78509
3279 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000026025

Sequence Viewer

Length: 1539 bp
ATGGCCACAGCTGCTGCTGCTGCTGTTGGGCTTAGTAGTACGGGGAAGAGGCTCTTTAGTTCTTCCTTGTATTATTCAGATATCACAGATAAGCTCTTTTATCTCAATGATCACGGCTTTGTAAATTGTCAATTGTCTTCAACAAAGAATGTTGTCACTGCCAGAAAGTCGTCTTCCAATTACAGTAATTCCAGATTTCCATCTTCAAGTAGACATCATGATCAGTCCATCAGGGCTTTAAAAGAGCATGCAGATACCGCCTCTGCTCCTTCATCAACCACACATCAATTGCTAGAAGATTACAACGACTTGGAGGAGGAAAGCTCCGATCTTGAATATTCAGTGGAGGCGCTTCTTCTGCTACAGAAGTCTATGCTGGAAAAGCAGTGGAACCTTTCCTTCGAGAAAAAACTGTCAAGAAGAAAAATAACTGATAAGAAGATACCGGTCACTTGTTCTGGGGTATCTGCTCGGCAGAGGAGGATGAGTACTAAGAGGAAAACTTTCAGCAAAAATACTTTAGAAATGCAACCTAGCATCAACAAGCATCTCAGAGCAAGTATCAGTCCGAGGCTGCTGCAGAATCGTATCAAGGGTTATGTGAAGGGCGTTACGAGTGAGCATTTGCTGACTCACTCTGAGGTCGTATGCCTGTCAAAGAAAATTAAGATCGGGCTTTCAGTGGAGGAACATAAATCAAGACTGAAGGAGAAACTGGGTTGTGAGCCCTCTGACGAACAACTTGCAACTTCATTGAGGATTTCCCGCACTGAACTACAGTCAAAGTTAATCCAATGTTCTTTGGCAAGAGAGAGGCTGACAATGAGCAATGTTCGTCTGGTCATGTCCATTGCCCAAAGATATGATAACATGGGTGCTGAAATGGCTGACCTTGTCCAGGGTGGCTTAATTGGACTACTACGCGGGATTGAGAAATTTGATTCATCAAAGGGGTTCAAAATTTCTACTTATGTTTACTGGTGGATACGTCAGGGTGTTTCAAGAGCACTGGTTGAAAATTCAAGAACCTTGAGACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAGAAATGCAAAAGTTAGATTGGAAGAGAAAGGAATAACTCCATCTATTGATAGGATTGCAGAAAGCCTGAATATGTCCAAAAAGAAAGTTAGGAATGCTACTGAGGCAATCAGTAAGGTTTTTTCGCTTGATAGAGATGCATTCCCCTCTTTGAATGGCCTTCCAGGAGAAACTCATCATAGTTACATTGCTGATAATCGCCATGAGAACATCCCATGGCATGGGGTGGATGAGTTGGCACTCAAGGATGAAGTAAACAAGCTCATAAATATGATGCTTGTGGAGCGTGAGCGAGAGATCATACGGCTTTACTATGGTCTGGATAATGAATGTCTTACATGGGAGGACATTAGTAAACGTATAGGATTGTCCAGAGAAAGAGTTAGGCAAGTCGGACTGGTTGCTCTAGAGAAACTGAAACATGGTGCGAGGAAAAAAGAGATGGAGGCCATGCTAGTCCAACATTAA

Protein Analysis

513

Amino Acids

58.19

Weight (kDa)

9.59

Isoelectric Point (pI)

41.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sigma70_r2 PF04542 275 - 342 2.8e-17 Sigma-70 region 2
Sigma70_r3 PF04539 352 - 423 4.6e-13 Sigma-70 region 3
Sigma70_r4 PF04545 450 - 498 3.9e-10 Sigma-70, region 4
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

Orthologous Genes (Group: OG0013559)

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 1292
AccI GTMKAC 1 cut(s) 211
AccII CGCG 1 cut(s) 924
AciI CCGC 3 cut(s) 258, 766, 924
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 3 cut(s) 935, 960, 1018
AcuI CTGAAG 1 cut(s) 725
AfaI GTAC 2 cut(s) 40, 490
AfiI CCNNNNNNNGG 2 cut(s) 898, 1292
AgeI ACCGGT 1 cut(s) 445
AgsI TTSAA 8 cut(s) 141, 207, 335, 958, 1002, 1016, 1023, 1225
AjnI CCWGG 2 cut(s) 897, 1234
AluBI AGCT 4 cut(s) 11, 94, 324, 1333
AluI AGCT 4 cut(s) 11, 94, 324, 1333
Alw21I GWGCWC 1 cut(s) 1009
Alw26I GTCTC 1 cut(s) 1027
AlwNI CAGNNNCTG 1 cut(s) 14
AoxI GGCC 3 cut(s) 3, 1228, 1518
ApeKI GCWGC 6 cut(s) 11, 14, 17, 20, 574, 577
ApoI RAATTY 3 cut(s) 935, 960, 1018
AsiGI ACCGGT 1 cut(s) 445
Asp700I GAANNNNTTC 1 cut(s) 503
AspLEI GCGC 1 cut(s) 352
BalI TGGCCA 1 cut(s) 5
BanII GRGCYC 1 cut(s) 729
BbsI GAAGAC 2 cut(s) 129, 165
Bbv12I GWGCWC 1 cut(s) 1009
BbvI GCAGC 4 cut(s) 4, 7, 561, 564
BccI CCATC 4 cut(s) 208, 236, 1120, 1507
BceAI ACGGC 2 cut(s) 130, 1391
BcgI CGANNNNNNTGC 4 cut(s) 559, 593, 725, 759
BciT130I CCWGG 2 cut(s) 899, 1236
BciVI GTATCC 1 cut(s) 978
BclI TGATCA 2 cut(s) 109, 220
BcoDI GTCTC 1 cut(s) 1027
BfaI CTAG 4 cut(s) 293, 534, 1478, 1526
BfmI CTRYAG 3 cut(s) 362, 578, 776
BfoI RGCGCY 1 cut(s) 353
BfuI GTATCC 1 cut(s) 978
BisI GCNGC 6 cut(s) 12, 15, 18, 21, 575, 578
BlsI GCNGC 6 cut(s) 13, 16, 19, 22, 576, 579
BmcAI AGTACT 1 cut(s) 490
Bme1390I CCNGG 2 cut(s) 899, 1236
BmiI GGNNCC 1 cut(s) 392
BmrFI CCNGG 2 cut(s) 899, 1236
BmrI ACTGGG 1 cut(s) 725
BmsI GCATC 4 cut(s) 546, 556, 1198, 1335
BmuI ACTGGG 1 cut(s) 725
BpiI GAAGAC 2 cut(s) 129, 165
BplI GAGNNNNNCTC 2 cut(s) 308, 340
BpuEI CTTGAG 2 cut(s) 1051, 1298
BsaBI GATNNNNATC 1 cut(s) 199
BsaJI CCNNGG 3 cut(s) 569, 898, 1286
BsaWI WCCGGW 1 cut(s) 445
BsaXI ACNNNNNCTCC 2 cut(s) 472, 502
Bsc4I CCNNNNNNNGG 2 cut(s) 898, 1292
Bse118I RCCGGY 1 cut(s) 445
Bse1I ACTGG 4 cut(s) 720, 983, 1014, 1473
Bse3DI GCAATG 3 cut(s) 835, 849, 1257
Bse8I GATNNNNATC 1 cut(s) 199
BseBI CCWGG 2 cut(s) 899, 1236
BseDI CCNNGG 3 cut(s) 569, 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) 835, 849, 1257
BseMII CTCAG 3 cut(s) 565, 630, 1164
BseNI ACTGG 4 cut(s) 720, 983, 1014, 1473
BseRI GAGGAG 2 cut(s) 329, 493
BseXI GCAGC 4 cut(s) 4, 7, 561, 564
Bsh1236I CGCG 1 cut(s) 924
BshFI GGCC 3 cut(s) 5, 1230, 1520
BshTI ACCGGT 1 cut(s) 445
BsiHKAI GWGCWC 1 cut(s) 1009
BsiSI CCGG 1 cut(s) 446
BslI CCNNNNNNNGG 2 cut(s) 898, 1292
BsmAI GTCTC 1 cut(s) 1027
BsmI GAATGC 2 cut(s) 1171, 1211
BsnI GGCC 3 cut(s) 5, 1230, 1520
Bsp1286I GDGCHC 2 cut(s) 729, 1009
Bsp143I GATC 5 cut(s) 109, 220, 328, 669, 1368
Bsp19I CCATGG 1 cut(s) 1286
BspACI CCGC 3 cut(s) 258, 766, 924
BspANI GGCC 3 cut(s) 5, 1230, 1520
BspCNI CTCAG 3 cut(s) 564, 631, 1165
BspFNI CGCG 1 cut(s) 924
BspHI TCATGA 1 cut(s) 217
BspLI GGNNCC 1 cut(s) 392
BspMAI CTGCAG 1 cut(s) 582
BsrDI GCAATG 3 cut(s) 835, 849, 1257
BsrFI RCCGGY 1 cut(s) 445
BsrI ACTGG 4 cut(s) 720, 983, 1014, 1473
BssAI RCCGGY 1 cut(s) 445
BssECI CCNNGG 3 cut(s) 569, 898, 1286
BssMI GATC 5 cut(s) 109, 220, 328, 669, 1368
BssT1I CCWWGG 1 cut(s) 1286
Bst2UI CCWGG 2 cut(s) 899, 1236
Bst4CI ACNGT 3 cut(s) 185, 414, 780
Bst6I CTCTTC 2 cut(s) 41, 1089
BstC8I GCNNGC 1 cut(s) 249
BstDEI CTNAG 5 cut(s) 32, 492, 551, 639, 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
BstH2I RGCGCY 1 cut(s) 353
BstHHI GCGC 1 cut(s) 352
BstKTI GATC 5 cut(s) 112, 223, 331, 672, 1371
BstMAI GTCTC 1 cut(s) 1027
BstMBI GATC 5 cut(s) 109, 220, 328, 669, 1368
BstMWI GCNNNNNNNGC 9 cut(s) 11, 17, 20, 257, 358, 382, 884, 1175, 1354
BstNI CCWGG 2 cut(s) 899, 1236
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 2 cut(s) 897, 1234
BstSFI CTRYAG 3 cut(s) 362, 578, 776
BstUI CGCG 1 cut(s) 924
BstV1I GCAGC 4 cut(s) 4, 7, 561, 564
BstV2I GAAGAC 2 cut(s) 129, 165
BsuI GTATCC 1 cut(s) 978
BsuRI GGCC 3 cut(s) 5, 1230, 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 6 cut(s) 156, 348, 392, 687, 768, 1007
Cac8I GCNNGC 1 cut(s) 249
CaiI CAGNNNCTG 1 cut(s) 14
CciI TCATGA 1 cut(s) 217
CfoI GCGC 1 cut(s) 352
Cfr10I RCCGGY 1 cut(s) 445
Csp6I GTAC 2 cut(s) 39, 489
CspAI ACCGGT 1 cut(s) 445
CviQI GTAC 2 cut(s) 39, 489
DdeI CTNAG 5 cut(s) 32, 492, 551, 639, 1173
DpnI GATC 5 cut(s) 111, 222, 330, 671, 1370
DpnII GATC 5 cut(s) 109, 220, 328, 669, 1368
DraI TTTAAA 1 cut(s) 240
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 2 cut(s) 41, 1089
EarI CTCTTC 2 cut(s) 41, 1089
Eco130I CCWWGG 1 cut(s) 1286
Eco24I GRGCYC 1 cut(s) 729
Eco32I GATATC 1 cut(s) 82
Eco57I CTGAAG 1 cut(s) 725
EcoNI CCTNNNNNAGG 1 cut(s) 896
EcoRII CCWGG 2 cut(s) 897, 1234
EcoRV GATATC 1 cut(s) 82
EcoT14I CCWWGG 1 cut(s) 1286
EcoT22I ATGCAT 1 cut(s) 1213
EcoT38I GRGCYC 1 cut(s) 729
ErhI CCWWGG 1 cut(s) 1286
FalI AAGNNNNNCTT 2 cut(s) 38, 70
FauI CCCGC 2 cut(s) 773, 917
FbaI TGATCA 2 cut(s) 109, 220
FblI GTMKAC 1 cut(s) 211
Fnu4HI GCNGC 6 cut(s) 12, 15, 18, 21, 575, 578
FokI GGATG 4 cut(s) 496, 1268, 1313, 1331
FriOI GRGCYC 1 cut(s) 729
Fsp4HI GCNGC 6 cut(s) 12, 15, 18, 21, 575, 578
FspBI CTAG 4 cut(s) 293, 534, 1478, 1526
GlaI GCGC 1 cut(s) 351
GluI GCNGC 6 cut(s) 12, 15, 18, 21, 575, 578
HaeII RGCGCY 1 cut(s) 353
HaeIII GGCC 3 cut(s) 5, 1230, 1520
HapII CCGG 1 cut(s) 446
HhaI GCGC 1 cut(s) 352
Hin6I GCGC 1 cut(s) 350
HinP1I GCGC 1 cut(s) 350
HinfI GANTC 3 cut(s) 583, 631, 941
HpaII CCGG 1 cut(s) 446
Hpy166II GTNNAC 4 cut(s) 212, 976, 1327, 1427
Hpy188I TCNGA 8 cut(s) 79, 328, 554, 570, 640, 733, 1073, 1466
Hpy8I GTNNAC 4 cut(s) 212, 976, 1327, 1427
HpyAV CCTTC 5 cut(s) 279, 409, 598, 700, 1241
HpyCH4III ACNGT 3 cut(s) 185, 414, 780
HpyCH4IV ACGT 2 cut(s) 988, 1429
HpyCH4V TGCA 8 cut(s) 251, 529, 580, 746, 1051, 1079, 1130, 1211
HpyF10VI GCNNNNNNNGC 9 cut(s) 11, 17, 20, 257, 358, 382, 884, 1175, 1354
HpyF3I CTNAG 5 cut(s) 32, 492, 551, 639, 1173
HpySE526I ACGT 2 cut(s) 988, 1429
HspAI GCGC 1 cut(s) 350
Ksp22I TGATCA 2 cut(s) 109, 220
Kzo9I GATC 5 cut(s) 109, 220, 328, 669, 1368
LmnI GCTCC 3 cut(s) 271, 329, 1354
Lsp1109I GCAGC 4 cut(s) 4, 7, 561, 564
LweI GCATC 4 cut(s) 546, 556, 1198, 1335
MaeI CTAG 4 cut(s) 293, 534, 1478, 1526
MaeII ACGT 2 cut(s) 988, 1429
MaeIII GTNAC 4 cut(s) 154, 448, 610, 1253
MalI GATC 5 cut(s) 111, 222, 330, 671, 1370
MboI GATC 5 cut(s) 109, 220, 328, 669, 1368
MfeI CAATTG 2 cut(s) 131, 287
MhlI GDGCHC 2 cut(s) 729, 1009
MlsI TGGCCA 1 cut(s) 5
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 1 cut(s) 625
MmeI TCCRAC 1 cut(s) 1444
Mox20I TGGCCA 1 cut(s) 5
Mph1103I ATGCAT 1 cut(s) 1213
MroXI GAANNNNTTC 1 cut(s) 503
MscI TGGCCA 1 cut(s) 5
MseI TTAA 6 cut(s) 239, 666, 788, 908, 1067, 1537
MslI CAYNNNNRTG 2 cut(s) 1050, 1340
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 1 cut(s) 11
MspI CCGG 1 cut(s) 446
MspR9I CCNGG 2 cut(s) 899, 1236
MunI CAATTG 2 cut(s) 131, 287
Mva1269I GAATGC 2 cut(s) 1171, 1211
MvaI CCWGG 2 cut(s) 899, 1236
MvnI CGCG 1 cut(s) 924
MwoI GCNNNNNNNGC 9 cut(s) 11, 17, 20, 257, 358, 382, 884, 1175, 1354
NcoI CCATGG 1 cut(s) 1286
NdeII GATC 5 cut(s) 109, 220, 328, 669, 1368
NlaIV GGNNCC 1 cut(s) 392
NmeAIII GCCGAG 1 cut(s) 451
NmuCI GTSAC 2 cut(s) 154, 448
NsiI ATGCAT 1 cut(s) 1213
NspI RCATGY 1 cut(s) 251
PaeI GCATGC 1 cut(s) 251
PagI TCATGA 1 cut(s) 217
PctI GAATGC 2 cut(s) 1171, 1211
PdmI GAANNNNTTC 1 cut(s) 503
PfeI GAWTC 2 cut(s) 583, 941
PflFI GACNNNGTC 1 cut(s) 893
PflMI CCANNNNNTGG 1 cut(s) 1292
PfoI TCCNGGA 1 cut(s) 1234
PinAI ACCGGT 1 cut(s) 445
PkrI GCNGC 6 cut(s) 13, 16, 19, 22, 576, 579
PleI GAGTC 1 cut(s) 625
PpsI GAGTC 1 cut(s) 625
Psp6I CCWGG 2 cut(s) 897, 1234
PspGI CCWGG 2 cut(s) 897, 1234
PspN4I GGNNCC 1 cut(s) 392
PstI CTGCAG 1 cut(s) 582
PstNI CAGNNNCTG 1 cut(s) 14
PsyI GACNNNGTC 1 cut(s) 893
PvuII CAGCTG 1 cut(s) 11
RsaI GTAC 2 cut(s) 40, 490
RsaNI GTAC 2 cut(s) 39, 489
RseI CAYNNNNRTG 2 cut(s) 1050, 1340
SaqAI TTAA 6 cut(s) 239, 666, 788, 908, 1067, 1537
SatI GCNGC 6 cut(s) 12, 15, 18, 21, 575, 578
Sau3AI GATC 5 cut(s) 109, 220, 328, 669, 1368
ScaI AGTACT 1 cut(s) 490
SchI GAGTC 1 cut(s) 625
ScrFI CCNGG 2 cut(s) 899, 1236
SduI GDGCHC 2 cut(s) 729, 1009
SfaNI GCATC 4 cut(s) 546, 556, 1198, 1335
SfcI CTRYAG 3 cut(s) 362, 578, 776
SmiMI CAYNNNNRTG 2 cut(s) 1050, 1340
SmlI CTYRAG 2 cut(s) 1030, 1313
SmoI CTYRAG 2 cut(s) 1030, 1313
SphI GCATGC 1 cut(s) 251
SsiI CCGC 3 cut(s) 258, 766, 924
SspI AATATT 1 cut(s) 338
SspMI CTAG 4 cut(s) 293, 534, 1478, 1526
StyD4I CCNGG 2 cut(s) 897, 1234
StyI CCWWGG 1 cut(s) 1286
TaaI ACNGT 3 cut(s) 185, 414, 780
TaiI ACGT 2 cut(s) 991, 1432
TaqI TCGA 1 cut(s) 402
TatI WGTACW 1 cut(s) 488
TfiI GAWTC 2 cut(s) 583, 941
Tru1I TTAA 6 cut(s) 239, 666, 788, 908, 1067, 1537
Tru9I TTAA 6 cut(s) 239, 666, 788, 908, 1067, 1537
TscAI CASTG 6 cut(s) 163, 348, 392, 687, 775, 1014
TseFI GTSAC 2 cut(s) 154, 448
TseI GCWGC 6 cut(s) 11, 14, 17, 20, 574, 577
Tsp45I GTSAC 2 cut(s) 154, 448
TspDTI ATGAA 5 cut(s) 261, 741, 933, 1335, 1413
TspRI CASTG 6 cut(s) 163, 348, 392, 687, 775, 1014
Tth111I GACNNNGTC 1 cut(s) 893
Van91I CCANNNNNTGG 1 cut(s) 1292
XagI CCTNNNNNAGG 1 cut(s) 896
XapI RAATTY 3 cut(s) 935, 960, 1018
XbaI TCTAGA 1 cut(s) 1477
XceI RCATGY 1 cut(s) 251
XmiI GTMKAC 1 cut(s) 211
XmnI GAANNNNTTC 1 cut(s) 503
XspI CTAG 4 cut(s) 293, 534, 1478, 1526
ZrmI AGTACT 1 cut(s) 490
Zsp2I ATGCAT 1 cut(s) 1213
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.