AT5G13730

RNA polymerase sigma factor

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
Physical Location & Seq
Reverse (-)
4429095 .. 4430901
1807 bp
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UTR
Exon/CDS
Intron
AT5G13730.1

Sequence Viewer

Length: 1260 bp
ATGGCGACGACGATTCCCACTACAGCTACCGCAACTATGTGTCCGTCTCCTCCTGTCCCTACAATCTCTCCCTTACTCAGAACGACTCACCAATGTCAACCATCTCCTTCTTTATCATCCCCATTTTCTATAAAGCTTAGTACGGCTCTGGTTTGCGGTGACACTACAGTGGATAGAGTGGTTGATAGCTCCGTGATGATCAAACCTGAGAAATGGGGAATTCAGTCAGAAAAGAGAAGGAAGAGGAGAAGAAGAAGAAGAGTAGGTTACGAACGTTTGGAGCCTGAAGAAGAGGAAAATGCTGGCGTAGAAGCAGAAGCAGAGACAATTAGTGTTCCTGTTGTTGGAGCTTCACGATCTGGGTTTTTGAGTCGTTTAGAGGAGGTTCAGCTTTGCTTGTACCTCAAGGAAGGAGCAAAACTTGAAAATTTGGGAACAAGTGTTGAAGAGAATGAAATGGTATCAGTTTTGTTAGCCAGTGGCAGAGGGAAGAAGAAGCGTAGTGCAAATGAAATACTATGCCGTAGAAAAGAAGCGAGAGAAAAGATTACTCGTTGTTACCGTAGGTTGGTTGTTTCTATTGCAACAGGGTACCAAGGCAAAGGTTTGAATTTGCAAGACCTTATTCAGGAAGGAAGCATAGGGCTGCTTCGTGGAGCTGAGAGATTTGATCCCGACCGAGGATACAAACTATCAACTTATGTCTACTGGTGGATCAAACAGGCCATCTTAAGGGCTATAGCGCATAAATCTAGACTTGTCAAATTGCCGGGAAGCATGTGGGAGTTAACGGCAAAAGTTGCAGAAGCTAGTAATGTGTTGACCAGAAAACTAAGAAGGCAACCAAGCTGTGAAGAGATTGCAGAGCACCTAAACCTCAATGTATCCGCGGTTAGACTAGCTGTGGAGCGTAGCAGATCCCCTGTTTCGTTGGACCGAGTCGCGTCTCAAAATGGCCGCATGACATTGCAGGAAATTGTACGGGGACCAGATGAAACAAGGCCAGAGGAGATGGTGAAAAGGGAACACATGAAGCATGAGATTGAGCAACTCTTAGGAAGTCTTACCGCTAGAGAATCTCGTGTATTGGGACTTTACTTTGGGCTCAACGGAGAGACTCCTATGTCGTTTGAAGAGATAGGTAAGTCGCTGAAGCTTTCGAGAGAGAGGGTGAGACAAATCAATGGCATTGCTTTGAAGAAGCTACGGAATGTACATAATGTGAATGATTTGAAAATATACTATTCCTCTAGTGAATAA

Protein Analysis

419

Amino Acids

47.16

Weight (kDa)

9.65

Isoelectric Point (pI)

60.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sigma70_r2 PF04542 185 - 252 2.9e-21 Sigma-70 region 2
Sigma70_r3 PF04539 262 - 338 8.7e-19 Sigma-70 region 3
Sigma70_r4 PF04545 351 - 404 2.2e-14 Sigma-70, region 4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1123
Acc65I GGTACC 1 cut(s) 591
AccB1I GGYRCC 1 cut(s) 591
AccI GTMKAC 1 cut(s) 705
AccII CGCG 2 cut(s) 890, 944
AciI CCGC 6 cut(s) 30, 156, 888, 890, 958, 1068
AclI AACGTT 1 cut(s) 274
AclWI GGATC 3 cut(s) 665, 722, 912
AcoI YGGCCR 1 cut(s) 955
AcsI RAATTY 3 cut(s) 219, 427, 610
AcuI CTGAAG 2 cut(s) 306, 1172
AfaI GTAC 5 cut(s) 142, 401, 593, 981, 1215
AfiI CCNNNNNNNGG 5 cut(s) 344, 568, 628, 680, 732
AflII CTTAAG 1 cut(s) 730
AgsI TTSAA 6 cut(s) 425, 446, 610, 1133, 1198, 1234
AleI CACNNNNGTG 1 cut(s) 167
Alw21I GWGCWC 1 cut(s) 870
Alw26I GTCTC 5 cut(s) 51, 317, 951, 1109, 1168
AlwI GGATC 3 cut(s) 665, 722, 912
AoxI GGCC 3 cut(s) 723, 955, 1001
ApeKI GCWGC 1 cut(s) 646
ApoI RAATTY 3 cut(s) 219, 427, 610
Asp718I GGTACC 1 cut(s) 591
AspLEI GCGC 1 cut(s) 745
AspS9I GGNCC 2 cut(s) 934, 986
AsuC2I CCSGG 1 cut(s) 771
AsuHPI GGTGA 4 cut(s) 80, 170, 1027, 1183
AvaII GGWCC 2 cut(s) 934, 986
BanI GGYRCC 1 cut(s) 591
BanII GRGCYC 1 cut(s) 1107
BauI CACGAG 1 cut(s) 1080
Bbv12I GWGCWC 1 cut(s) 870
BbvI GCAGC 1 cut(s) 633
BccI CCATC 3 cut(s) 109, 734, 1006
BceAI ACGGC 3 cut(s) 159, 507, 807
BciVI GTATCC 2 cut(s) 677, 895
BclI TGATCA 1 cut(s) 198
BcnI CCSGG 1 cut(s) 771
BcoDI GTCTC 5 cut(s) 51, 317, 951, 1109, 1168
BfaI CTAG 5 cut(s) 753, 810, 899, 1071, 1251
BfmI CTRYAG 3 cut(s) 21, 165, 738
BfrI CTTAAG 1 cut(s) 730
BfuI GTATCC 2 cut(s) 677, 895
BisI GCNGC 2 cut(s) 647, 958
BlsI GCNGC 2 cut(s) 648, 959
Bme1390I CCNGG 1 cut(s) 771
Bme18I GGWCC 2 cut(s) 934, 986
BmgT120I GGNCC 2 cut(s) 934, 986
BmiI GGNNCC 3 cut(s) 282, 593, 987
BmrFI CCNGG 1 cut(s) 771
BpuEI CTTGAG 1 cut(s) 389
BpuMI CCSGG 1 cut(s) 771
BsaJI CCNNGG 3 cut(s) 595, 679, 888
BsaXI ACNNNNNCTCC 2 cut(s) 52, 82
Bsc4I CCNNNNNNNGG 5 cut(s) 344, 568, 628, 680, 732
Bse1I ACTGG 2 cut(s) 477, 713
Bse3DI GCAATG 2 cut(s) 965, 1188
BseDI CCNNGG 3 cut(s) 595, 679, 888
BseGI GGATG 1 cut(s) 116
BseLI CCNNNNNNNGG 5 cut(s) 344, 568, 628, 680, 732
BseMI GCAATG 2 cut(s) 965, 1188
BseMII CTCAG 3 cut(s) 91, 198, 651
BseNI ACTGG 2 cut(s) 477, 713
BseRI GAGGAG 4 cut(s) 39, 259, 395, 1022
BseXI GCAGC 1 cut(s) 633
Bsh1236I CGCG 2 cut(s) 890, 944
Bsh1285I CGRYCG 1 cut(s) 679
BshFI GGCC 3 cut(s) 725, 957, 1003
BshNI GGYRCC 1 cut(s) 591
BsiEI CGRYCG 1 cut(s) 679
BsiHKAI GWGCWC 1 cut(s) 870
BsiSI CCGG 1 cut(s) 770
BslFI GGGAC 3 cut(s) 41, 999, 1104
BslI CCNNNNNNNGG 5 cut(s) 344, 568, 628, 680, 732
BsmAI GTCTC 5 cut(s) 51, 317, 951, 1109, 1168
BsmBI CGTCTC 2 cut(s) 51, 951
BsmFI GGGAC 3 cut(s) 41, 999, 1104
BsnI GGCC 3 cut(s) 725, 957, 1003
Bsp1286I GDGCHC 2 cut(s) 870, 1107
Bsp1407I TGTACA 1 cut(s) 1213
Bsp143I GATC 5 cut(s) 198, 356, 670, 714, 917
BspACI CCGC 6 cut(s) 30, 156, 888, 890, 958, 1068
BspANI GGCC 3 cut(s) 725, 957, 1003
BspCNI CTCAG 3 cut(s) 90, 199, 652
BspFNI CGCG 2 cut(s) 890, 944
BspLI GGNNCC 3 cut(s) 282, 593, 987
BspPI GGATC 3 cut(s) 665, 722, 912
BspT107I GGYRCC 1 cut(s) 591
BspTI CTTAAG 1 cut(s) 730
BsrDI GCAATG 2 cut(s) 965, 1188
BsrGI TGTACA 1 cut(s) 1213
BsrI ACTGG 2 cut(s) 477, 713
BssECI CCNNGG 3 cut(s) 595, 679, 888
BssMI GATC 5 cut(s) 198, 356, 670, 714, 917
BssSI CACGAG 1 cut(s) 1080
BssT1I CCWWGG 1 cut(s) 595
Bst2BI CACGAG 1 cut(s) 1080
Bst4CI ACNGT 2 cut(s) 169, 563
Bst6I CTCTTC 6 cut(s) 236, 253, 285, 441, 849, 1128
BstAFI CTTAAG 1 cut(s) 730
BstAPI GCANNNNNTGC 1 cut(s) 800
BstAUI TGTACA 1 cut(s) 1213
BstC8I GCNNGC 1 cut(s) 304
BstDEI CTNAG 6 cut(s) 77, 137, 207, 660, 833, 1054
BstDSI CCRYGG 1 cut(s) 888
BstENI CCTNNNNNAGG 1 cut(s) 626
BstF5I GGATG 1 cut(s) 116
BstFNI CGCG 2 cut(s) 890, 944
BstHHI GCGC 1 cut(s) 745
BstKTI GATC 5 cut(s) 201, 359, 673, 717, 920
BstMAI GTCTC 5 cut(s) 51, 317, 951, 1109, 1168
BstMBI GATC 5 cut(s) 198, 356, 670, 714, 917
BstMCI CGRYCG 1 cut(s) 679
BstMWI GCNNNNNNNGC 1 cut(s) 800
BstNSI RCATGY 1 cut(s) 781
BstSCI CCNGG 1 cut(s) 769
BstSFI CTRYAG 3 cut(s) 21, 165, 738
BstUI CGCG 2 cut(s) 890, 944
BstV1I GCAGC 1 cut(s) 633
BstX2I RGATCY 1 cut(s) 917
BstYI RGATCY 1 cut(s) 917
BsuI GTATCC 2 cut(s) 677, 895
BsuRI GGCC 3 cut(s) 725, 957, 1003
BtgI CCRYGG 1 cut(s) 888
BtsCI GGATG 1 cut(s) 116
BtsIMutI CAGTG 2 cut(s) 174, 484
Cac8I GCNNGC 1 cut(s) 304
CfoI GCGC 1 cut(s) 745
Cfr13I GGNCC 2 cut(s) 934, 986
Cfr42I CCGCGG 1 cut(s) 891
CseI GACGC 1 cut(s) 933
Csp6I GTAC 5 cut(s) 141, 400, 592, 980, 1214
CviAII CATG 4 cut(s) 778, 961, 1030, 1037
CviQI GTAC 5 cut(s) 141, 400, 592, 980, 1214
DdeI CTNAG 6 cut(s) 77, 137, 207, 660, 833, 1054
DpnI GATC 5 cut(s) 200, 358, 672, 716, 919
DpnII GATC 5 cut(s) 198, 356, 670, 714, 917
DrdI GACNNNNNNGTC 1 cut(s) 1123
DseDI GACNNNNNNGTC 1 cut(s) 1123
EaeI YGGCCR 1 cut(s) 955
Eam1104I CTCTTC 6 cut(s) 236, 253, 285, 441, 849, 1128
EarI CTCTTC 6 cut(s) 236, 253, 285, 441, 849, 1128
Eco130I CCWWGG 1 cut(s) 595
Eco24I GRGCYC 1 cut(s) 1107
Eco47I GGWCC 2 cut(s) 934, 986
Eco57I CTGAAG 2 cut(s) 306, 1172
EcoNI CCTNNNNNAGG 1 cut(s) 626
EcoRI GAATTC 1 cut(s) 219
EcoT14I CCWWGG 1 cut(s) 595
EcoT38I GRGCYC 1 cut(s) 1107
ErhI CCWWGG 1 cut(s) 595
Esp3I CGTCTC 2 cut(s) 51, 951
FaeI CATG 4 cut(s) 781, 964, 1033, 1040
FaqI GGGAC 3 cut(s) 41, 999, 1104
FatI CATG 4 cut(s) 777, 960, 1029, 1036
FbaI TGATCA 1 cut(s) 198
FblI GTMKAC 1 cut(s) 705
Fnu4HI GCNGC 2 cut(s) 647, 958
FokI GGATG 1 cut(s) 103
FriOI GRGCYC 1 cut(s) 1107
Fsp4HI GCNGC 2 cut(s) 647, 958
FspBI CTAG 5 cut(s) 753, 810, 899, 1071, 1251
GlaI GCGC 1 cut(s) 744
GluI GCNGC 2 cut(s) 647, 958
HaeIII GGCC 3 cut(s) 725, 957, 1003
HapII CCGG 1 cut(s) 770
HgaI GACGC 1 cut(s) 933
HhaI GCGC 1 cut(s) 745
Hin1II CATG 4 cut(s) 781, 964, 1033, 1040
Hin6I GCGC 1 cut(s) 743
HinP1I GCGC 1 cut(s) 743
HincII GTYRAC 3 cut(s) 98, 789, 822
HindII GTYRAC 3 cut(s) 98, 789, 822
HindIII AAGCTT 2 cut(s) 134, 1154
HinfI GANTC 6 cut(s) 13, 85, 370, 939, 1076, 1117
HpaI GTTAAC 1 cut(s) 789
HpaII CCGG 1 cut(s) 770
HphI GGTGA 4 cut(s) 80, 170, 1027, 1183
Hpy166II GTNNAC 4 cut(s) 98, 706, 789, 822
Hpy188I TCNGA 2 cut(s) 80, 229
Hpy188III TCNNGA 5 cut(s) 354, 629, 674, 753, 1161
Hpy8I GTNNAC 4 cut(s) 98, 706, 789, 822
Hpy99I CGWCG 2 cut(s) 10, 13
HpyAV CCTTC 5 cut(s) 117, 231, 404, 626, 831
HpyCH4III ACNGT 2 cut(s) 169, 563
HpyCH4IV ACGT 1 cut(s) 274
HpyCH4V TGCA 6 cut(s) 506, 584, 616, 803, 863, 970
HpyF10VI GCNNNNNNNGC 1 cut(s) 800
HpyF3I CTNAG 6 cut(s) 77, 137, 207, 660, 833, 1054
HpySE526I ACGT 1 cut(s) 274
Hsp92II CATG 4 cut(s) 781, 964, 1033, 1040
HspAI GCGC 1 cut(s) 743
KpnI GGTACC 1 cut(s) 595
Ksp22I TGATCA 1 cut(s) 198
KspAI GTTAAC 1 cut(s) 789
KspI CCGCGG 1 cut(s) 891
Kzo9I GATC 5 cut(s) 198, 356, 670, 714, 917
LmnI GCTCC 6 cut(s) 194, 280, 347, 413, 656, 907
Lsp1109I GCAGC 1 cut(s) 633
MaeI CTAG 5 cut(s) 753, 810, 899, 1071, 1251
MaeII ACGT 1 cut(s) 274
MaeIII GTNAC 3 cut(s) 158, 266, 557
MalI GATC 5 cut(s) 200, 358, 672, 716, 919
MboI GATC 5 cut(s) 198, 356, 670, 714, 917
MflI RGATCY 1 cut(s) 917
MhlI GDGCHC 2 cut(s) 870, 1107
MluCI AATT 6 cut(s) 219, 327, 427, 610, 764, 975
MlyI GAGTC 4 cut(s) 79, 379, 948, 1111
MmeI TCCRAC 2 cut(s) 325, 912
MseI TTAA 2 cut(s) 731, 788
MslI CAYNNNNRTG 1 cut(s) 167
MspA1I CMGCKG 1 cut(s) 890
MspCI CTTAAG 1 cut(s) 730
MspI CCGG 1 cut(s) 770
MspR9I CCNGG 1 cut(s) 771
MvnI CGCG 2 cut(s) 890, 944
MwoI GCNNNNNNNGC 1 cut(s) 800
NciI CCSGG 1 cut(s) 771
NdeII GATC 5 cut(s) 198, 356, 670, 714, 917
NlaIII CATG 4 cut(s) 781, 964, 1033, 1040
NlaIV GGNNCC 3 cut(s) 282, 593, 987
NmuCI GTSAC 1 cut(s) 158
NspI RCATGY 1 cut(s) 781
OliI CACNNNNGTG 1 cut(s) 167
PcsI WCGNNNNNNNCGW 1 cut(s) 559
PfeI GAWTC 2 cut(s) 13, 1076
PflFI GACNNNGTC 1 cut(s) 938
PkrI GCNGC 2 cut(s) 648, 959
PleI GAGTC 4 cut(s) 79, 378, 947, 1111
PpsI GAGTC 4 cut(s) 79, 378, 947, 1111
Psp1406I AACGTT 1 cut(s) 274
PspN4I GGNNCC 3 cut(s) 282, 593, 987
PspPI GGNCC 2 cut(s) 934, 986
PsuI RGATCY 1 cut(s) 917
PsyI GACNNNGTC 1 cut(s) 938
RsaI GTAC 5 cut(s) 142, 401, 593, 981, 1215
RsaNI GTAC 5 cut(s) 141, 400, 592, 980, 1214
RseI CAYNNNNRTG 1 cut(s) 167
SacII CCGCGG 1 cut(s) 891
SaqAI TTAA 2 cut(s) 731, 788
SatI GCNGC 2 cut(s) 647, 958
Sau3AI GATC 5 cut(s) 198, 356, 670, 714, 917
Sau96I GGNCC 2 cut(s) 934, 986
SchI GAGTC 4 cut(s) 79, 379, 948, 1111
ScrFI CCNGG 1 cut(s) 771
SduI GDGCHC 2 cut(s) 870, 1107
SfcI CTRYAG 3 cut(s) 21, 165, 738
Sfr303I CCGCGG 1 cut(s) 891
SgrBI CCGCGG 1 cut(s) 891
SinI GGWCC 2 cut(s) 934, 986
SmiMI CAYNNNNRTG 1 cut(s) 167
SmlI CTYRAG 2 cut(s) 404, 730
SmoI CTYRAG 2 cut(s) 404, 730
Sse9I AATT 6 cut(s) 219, 327, 427, 610, 764, 975
SsiI CCGC 6 cut(s) 30, 156, 888, 890, 958, 1068
SspMI CTAG 5 cut(s) 753, 810, 899, 1071, 1251
StyD4I CCNGG 1 cut(s) 769
StyI CCWWGG 1 cut(s) 595
TaaI ACNGT 2 cut(s) 169, 563
TaiI ACGT 1 cut(s) 277
TaqI TCGA 1 cut(s) 1160
TaqII GACCGA 2 cut(s) 693, 951
TasI AATT 6 cut(s) 219, 327, 427, 610, 764, 975
TatI WGTACW 1 cut(s) 1213
TauI GCSGC 1 cut(s) 960
TfiI GAWTC 2 cut(s) 13, 1076
Tru1I TTAA 2 cut(s) 731, 788
Tru9I TTAA 2 cut(s) 731, 788
TscAI CASTG 2 cut(s) 174, 484
TseFI GTSAC 1 cut(s) 158
TseI GCWGC 1 cut(s) 646
Tsp45I GTSAC 1 cut(s) 158
TspDTI ATGAA 4 cut(s) 468, 525, 1008, 1046
TspGWI ACGGA 4 cut(s) 33, 181, 1125, 1222
TspRI CASTG 2 cut(s) 174, 484
Tth111I GACNNNGTC 1 cut(s) 938
Vha464I CTTAAG 1 cut(s) 730
VpaK11BI GGWCC 2 cut(s) 934, 986
XagI CCTNNNNNAGG 1 cut(s) 626
XapI RAATTY 3 cut(s) 219, 427, 610
XbaI TCTAGA 1 cut(s) 752
XceI RCATGY 1 cut(s) 781
XmiI GTMKAC 1 cut(s) 705
XspI CTAG 5 cut(s) 753, 810, 899, 1071, 1251
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.