FvH4_7g31060

RNA polymerase sigma factor sigE, chloroplastic

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
Physical Location & Seq
Forward (+)
22487702 .. 22490895
3194 bp
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UTR
Exon/CDS
Intron
FvH4_7g31060.t2

Sequence Viewer

Length: 1563 bp
ATGGGAGTTGTGACAGTTTCTAGTTCAGTTTCTAGGACTCCATTAGGATTGAGCACAAACTTGGTGTCGAGTCAGAGATCCACATTGAGAAAGCCGTTGATTGTTGCCTTTAGAACAGATAAATCCGATAAGAAAGCATTGGTTGCGCCTCAGGAGAAAGTACCTTTGCCAATAGAAACAGGAAAGAAGGTACAAAAGAGACTAGGGAAGGCTAGAAAGCTCCCCAAGAGTGTAAAAGCTGCATTGATAGAGGAGGCTCCTACTTGTGATTTGGAATTGGATTACAATGAAGCTGCTGCCAAGCTGGAAAACCTGTACAAGCGCAGCCCCGAGACTGAAGCTTCGGATGTGGAAAATGTAGATGGCTTGATGATCAAGAGAGGTCGCAAAAGGAGGAAGAAGATCAGTGAAGTTGATGACAAAGTAGAGAAGAGAACAAGCGATGACATTGTGGTTAGGAGCGTGACAAAGAAGGCTAAAAGATTGAGTCTTGATAAAAGGGTTGCATTGAAATGGAATAAGGATGAGAAAGTGGCTGCTTCAGTAGTTCGAAAGAGAAAAGATAAAAGGAGTGAGAATGAGATGATGGAGGAGCTTGTAAGGGAGTATTCGGCTTCAACTGATCTTGTCAGTTTAGATTGGAAAAAGATGAGGATTCCTCCTGTTCTTAGTTCCTCTGAGCATACTTGGTTGTTCAAGCTAATGCAACCTATGAAGGGTCTTCTTGAAGTGAAAGAGATTTTGCAAAAAGATTTGGGGAGAGAACCAAATAAGGGTGAACTAGCTGAGGCGACAAATATGACTGTGGTTCAAGTGAAAAGGCACTTGGAGGTTGGTCGAGCTGCAAGAAACAAACTCATCAAGCACAATCTCCGACTTGTGTTATTTGTCATTAACAAATACTTTCAAGACTTTGCAAATGGTCCAAAATTTCAAGACCTTTGCCAGGCAGGAGTGAAGGGACTTATCACGGCAATTGATCGCTTTGAACCACAAAGAAGATTCCGGCTTTCCACATATGGTCTTTTCTGGATCAGGCATGCCATCATACGCTCCATGACACTATCAAGCTTTACTCGTGTCTCCTTTGGCCTTGAGTCGGTCAGGGCAGAAATCCAGAAAGCTAAGCTTGAAATGTTGGTTCAGCTCAAAAGAATGCCAACAGAAGATGAGATAATTGAAAAGGTTGGAATTTCCCCTGAGAGGTATCATGAAGTAATGAGGGCCTCAAAGCCTGTCTTCTCTCTTAATTCAAGGCATTCAGTCACACAAGAAGAATTTATAAACGGGATTACTGATGTTGACGGCGTTGATGGTGATAACCGGCGGAAACCTGCTCTTCTCAGGCTTGCTATTGATGATGTGCTTGATTCCCTGAAGCCAAAGGAAAGCTTGGTGATCAGACAGAGATATGGCCTCGATGGCAAGGGCGACAGAACATTAGGGGAGATAGCCGGAAACTTAAATATTTCAAGAGAGATGGTTCGGAAGCATGAAGTTAAGGCCCTCATGAAGCTCAAGCATCCAGCCCGAGTAGACTATCTTCGCAGATACATAGTCTGA
Functional Annotation
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families

Protein Analysis

521

Amino Acids

59.37

Weight (kDa)

9.95

Isoelectric Point (pI)

43.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sigma70_r2 PF04542 286 - 352 9.1e-11 Sigma-70 region 2
Sigma70_r3 PF04539 370 - 436 1.7e-11 Sigma-70 region 3
Sigma70_r4 PF04545 455 - 508 1e-13 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)
AanI TTATAA 1 cut(s) 1283
Acc36I ACCTGC 1 cut(s) 1342
AccI GTMKAC 1 cut(s) 1536
AciI CCGC 1 cut(s) 1327
AclWI GGATC 2 cut(s) 72, 1040
AcsI RAATTY 3 cut(s) 929, 1191, 1277
AcuI CTGAAG 3 cut(s) 357, 525, 1397
AfaI GTAC 3 cut(s) 162, 192, 317
AfiI CCNNNNNNNGG 5 cut(s) 716, 773, 946, 1099, 1203
AjnI CCWGG 1 cut(s) 945
AjuI GAANNNNNNNTTGG 2 cut(s) 809, 841
Alw21I GWGCWC 1 cut(s) 56
Alw26I GTCTC 3 cut(s) 193, 326, 1087
AlwI GGATC 2 cut(s) 72, 1040
Ama87I CYCGRG 2 cut(s) 329, 1530
AoxI GGCC 4 cut(s) 1090, 1224, 1414, 1503
ApeKI GCWGC 6 cut(s) 239, 293, 296, 324, 536, 842
ApoI RAATTY 3 cut(s) 929, 1191, 1277
ArsI GACNNNNNNTTYG 4 cut(s) 50, 82, 325, 357
AspLEI GCGC 2 cut(s) 148, 324
AspS9I GGNCC 3 cut(s) 923, 1224, 1504
AsuHPI GGTGA 3 cut(s) 788, 1328, 1408
AsuII TTCGAA 1 cut(s) 550
AvaI CYCGRG 2 cut(s) 329, 1530
AvaII GGWCC 1 cut(s) 923
AxyI CCTNAGG 1 cut(s) 150
BarI GAAGNNNNNNTAC 2 cut(s) 1527, 1559
BauI CACGAG 1 cut(s) 1077
BbsI GAAGAC 2 cut(s) 713, 1231
Bbv12I GWGCWC 1 cut(s) 56
BbvCI CCTCAGC 1 cut(s) 786
BbvI GCAGC 6 cut(s) 226, 280, 283, 336, 523, 829
BccI CCATC 6 cut(s) 356, 580, 1052, 1307, 1415, 1474
BceAI ACGGC 3 cut(s) 79, 987, 1321
BciT130I CCWGG 1 cut(s) 947
BclI TGATCA 2 cut(s) 372, 1398
BcoDI GTCTC 3 cut(s) 193, 326, 1087
BfaI CTAG 5 cut(s) 21, 33, 203, 213, 782
BfuAI ACCTGC 1 cut(s) 1342
BglI GCCNNNNNGGC 1 cut(s) 1422
BisI GCNGC 6 cut(s) 240, 294, 297, 325, 537, 843
BlpI GCTNAGC 1 cut(s) 1125
BlsI GCNGC 6 cut(s) 241, 295, 298, 326, 538, 844
Bme1390I CCNGG 1 cut(s) 947
Bme18I GGWCC 1 cut(s) 923
BmeT110I CYCGRG 2 cut(s) 329, 1530
BmgT120I GGNCC 3 cut(s) 923, 1224, 1504
BmiI GGNNCC 1 cut(s) 258
BmrFI CCNGG 1 cut(s) 947
BmsI GCATC 1 cut(s) 1531
BpiI GAAGAC 2 cut(s) 713, 1231
BplI GAGNNNNNCTC 2 cut(s) 643, 675
Bpu10I CCTNAGC 1 cut(s) 786
Bpu1102I GCTNAGC 1 cut(s) 1125
Bpu14I TTCGAA 1 cut(s) 550
BpuEI CTTGAG 2 cut(s) 1115, 1502
Bsc4I CCNNNNNNNGG 5 cut(s) 716, 773, 946, 1099, 1203
Bse118I RCCGGY 1 cut(s) 1323
Bse21I CCTNAGG 1 cut(s) 150
BseBI CCWGG 1 cut(s) 947
BseGI GGATG 3 cut(s) 352, 529, 1522
BseLI CCNNNNNNNGG 5 cut(s) 716, 773, 946, 1099, 1203
BseMII CTCAG 5 cut(s) 164, 669, 777, 1191, 1357
BseRI GAGGAG 2 cut(s) 266, 605
BseXI GCAGC 6 cut(s) 226, 280, 283, 336, 523, 829
BshFI GGCC 4 cut(s) 1092, 1226, 1416, 1505
BsiHKAI GWGCWC 1 cut(s) 56
BsiHKCI CYCGRG 2 cut(s) 329, 1530
BsiSI CCGG 3 cut(s) 1006, 1324, 1455
BslFI GGGAC 1 cut(s) 975
BslI CCNNNNNNNGG 5 cut(s) 716, 773, 946, 1099, 1203
BsmAI GTCTC 3 cut(s) 193, 326, 1087
BsmFI GGGAC 1 cut(s) 975
BsmI GAATGC 2 cut(s) 1161, 1258
BsnI GGCC 4 cut(s) 1092, 1226, 1416, 1505
BsoBI CYCGRG 2 cut(s) 329, 1530
Bsp119I TTCGAA 1 cut(s) 550
Bsp1286I GDGCHC 1 cut(s) 56
Bsp1407I TGTACA 1 cut(s) 315
Bsp143I GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
Bsp1720I GCTNAGC 1 cut(s) 1125
BspACI CCGC 1 cut(s) 1327
BspANI GGCC 4 cut(s) 1092, 1226, 1416, 1505
BspCNI CTCAG 5 cut(s) 163, 670, 778, 1192, 1356
BspHI TCATGA 2 cut(s) 1210, 1509
BspLI GGNNCC 1 cut(s) 258
BspMI ACCTGC 1 cut(s) 1342
BspPI GGATC 2 cut(s) 72, 1040
BspQI GCTCTTC 1 cut(s) 1344
BspT104I TTCGAA 1 cut(s) 550
BsrFI RCCGGY 1 cut(s) 1323
BsrGI TGTACA 1 cut(s) 315
BssAI RCCGGY 1 cut(s) 1323
BssMI GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
BssSI CACGAG 1 cut(s) 1077
Bst2BI CACGAG 1 cut(s) 1077
Bst2UI CCWGG 1 cut(s) 947
Bst4CI ACNGT 2 cut(s) 16, 805
Bst6I CTCTTC 2 cut(s) 425, 1344
BstAPI GCANNNNNTGC 1 cut(s) 143
BstAUI TGTACA 1 cut(s) 315
BstBI TTCGAA 1 cut(s) 550
BstC8I GCNNGC 2 cut(s) 1041, 1350
BstDEI CTNAG 7 cut(s) 150, 668, 678, 786, 1125, 1200, 1343
BstENI CCTNNNNNAGG 1 cut(s) 944
BstF5I GGATG 3 cut(s) 352, 529, 1522
BstHHI GCGC 2 cut(s) 148, 324
BstKTI GATC 7 cut(s) 80, 375, 405, 625, 982, 1035, 1401
BstMAI GTCTC 3 cut(s) 193, 326, 1087
BstMBI GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
BstMWI GCNNNNNNNGC 2 cut(s) 143, 1422
BstNI CCWGG 1 cut(s) 947
BstNSI RCATGY 1 cut(s) 1043
BstSCI CCNGG 1 cut(s) 945
BstV1I GCAGC 6 cut(s) 226, 280, 283, 336, 523, 829
BstV2I GAAGAC 2 cut(s) 713, 1231
BstX2I RGATCY 1 cut(s) 77
BstYI RGATCY 1 cut(s) 77
Bsu36I CCTNAGG 1 cut(s) 150
BsuRI GGCC 4 cut(s) 1092, 1226, 1416, 1505
BtgZI GCGATG 1 cut(s) 456
BtsCI GGATG 3 cut(s) 352, 529, 1522
BtsIMutI CAGTG 1 cut(s) 412
BveI ACCTGC 1 cut(s) 1342
Cac8I GCNNGC 2 cut(s) 1041, 1350
CciI TCATGA 2 cut(s) 1210, 1509
CfoI GCGC 2 cut(s) 148, 324
Cfr10I RCCGGY 1 cut(s) 1323
Cfr13I GGNCC 3 cut(s) 923, 1224, 1504
Csp6I GTAC 3 cut(s) 161, 191, 316
CviAII CATG 5 cut(s) 1040, 1057, 1211, 1493, 1510
CviQI GTAC 3 cut(s) 161, 191, 316
DdeI CTNAG 7 cut(s) 150, 668, 678, 786, 1125, 1200, 1343
DpnI GATC 7 cut(s) 79, 374, 404, 624, 981, 1034, 1400
DpnII GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
Eam1104I CTCTTC 2 cut(s) 425, 1344
EarI CTCTTC 2 cut(s) 425, 1344
EciI GGCGGA 1 cut(s) 1342
Eco47I GGWCC 1 cut(s) 923
Eco57I CTGAAG 3 cut(s) 357, 525, 1397
Eco81I CCTNAGG 1 cut(s) 150
Eco88I CYCGRG 2 cut(s) 329, 1530
EcoNI CCTNNNNNAGG 1 cut(s) 944
EcoO109I RGGNCCY 2 cut(s) 1224, 1504
EcoRII CCWGG 1 cut(s) 945
FaeI CATG 5 cut(s) 1043, 1060, 1214, 1496, 1513
FalI AAGNNNNNCTT 6 cut(s) 1113, 1145, 1223, 1255, 1376, 1408
FaqI GGGAC 1 cut(s) 975
FatI CATG 5 cut(s) 1039, 1056, 1210, 1492, 1509
FauNDI CATATG 1 cut(s) 1018
FbaI TGATCA 2 cut(s) 372, 1398
FblI GTMKAC 1 cut(s) 1536
Fnu4HI GCNGC 6 cut(s) 240, 294, 297, 325, 537, 843
FokI GGATG 3 cut(s) 359, 536, 1509
Fsp4HI GCNGC 6 cut(s) 240, 294, 297, 325, 537, 843
FspBI CTAG 5 cut(s) 21, 33, 203, 213, 782
GlaI GCGC 2 cut(s) 147, 323
GluI GCNGC 6 cut(s) 240, 294, 297, 325, 537, 843
HaeIII GGCC 4 cut(s) 1092, 1226, 1416, 1505
HapII CCGG 3 cut(s) 1006, 1324, 1455
HhaI GCGC 2 cut(s) 148, 324
Hin1II CATG 5 cut(s) 1043, 1060, 1214, 1496, 1513
Hin6I GCGC 2 cut(s) 146, 322
HinP1I GCGC 2 cut(s) 146, 322
HincII GTYRAC 1 cut(s) 1303
HindII GTYRAC 1 cut(s) 1303
HindIII AAGCTT 4 cut(s) 339, 1069, 1127, 1390
HinfI GANTC 7 cut(s) 37, 70, 487, 655, 1002, 1097, 1370
HpaII CCGG 3 cut(s) 1006, 1324, 1455
HphI GGTGA 3 cut(s) 788, 1328, 1408
Hpy166II GTNNAC 3 cut(s) 779, 1303, 1537
Hpy188I TCNGA 8 cut(s) 75, 127, 346, 679, 875, 1403, 1488, 1562
Hpy8I GTNNAC 3 cut(s) 779, 1303, 1537
HpyAV CCTTC 5 cut(s) 181, 202, 466, 709, 952
HpyCH4III ACNGT 2 cut(s) 16, 805
HpyCH4V TGCA 6 cut(s) 242, 506, 706, 745, 845, 917
HpyF10VI GCNNNNNNNGC 2 cut(s) 143, 1422
HpyF3I CTNAG 7 cut(s) 150, 668, 678, 786, 1125, 1200, 1343
Hsp92II CATG 5 cut(s) 1043, 1060, 1214, 1496, 1513
HspAI GCGC 2 cut(s) 146, 322
Ksp22I TGATCA 2 cut(s) 372, 1398
Kzo9I GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
LguI GCTCTTC 1 cut(s) 1344
LmnI GCTCC 5 cut(s) 225, 262, 459, 592, 1058
Lsp1109I GCAGC 6 cut(s) 226, 280, 283, 336, 523, 829
LweI GCATC 1 cut(s) 1531
MaeI CTAG 5 cut(s) 21, 33, 203, 213, 782
MaeIII GTNAC 3 cut(s) 10, 463, 1264
MalI GATC 7 cut(s) 79, 374, 404, 624, 981, 1034, 1400
MboI GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
MfeI CAATTG 1 cut(s) 975
MflI RGATCY 1 cut(s) 77
MhlI GDGCHC 1 cut(s) 56
MluCI AATT 7 cut(s) 275, 929, 975, 1176, 1191, 1249, 1277
MlyI GAGTC 4 cut(s) 31, 79, 496, 1106
MmeI TCCRAC 2 cut(s) 898, 1168
MseI TTAA 4 cut(s) 894, 1248, 1463, 1500
MslI CAYNNNNRTG 1 cut(s) 511
MspI CCGG 3 cut(s) 1006, 1324, 1455
MspR9I CCNGG 1 cut(s) 947
MunI CAATTG 1 cut(s) 975
Mva1269I GAATGC 2 cut(s) 1161, 1258
MvaI CCWGG 1 cut(s) 947
MwoI GCNNNNNNNGC 2 cut(s) 143, 1422
NdeI CATATG 1 cut(s) 1018
NdeII GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
NlaIII CATG 5 cut(s) 1043, 1060, 1214, 1496, 1513
NlaIV GGNNCC 1 cut(s) 258
NmuCI GTSAC 3 cut(s) 10, 463, 1264
NspI RCATGY 1 cut(s) 1043
NspV TTCGAA 1 cut(s) 550
PaeI GCATGC 1 cut(s) 1043
PagI TCATGA 2 cut(s) 1210, 1509
PciSI GCTCTTC 1 cut(s) 1344
PctI GAATGC 2 cut(s) 1161, 1258
PfeI GAWTC 3 cut(s) 655, 1002, 1370
PkrI GCNGC 6 cut(s) 241, 295, 298, 326, 538, 844
PleI GAGTC 4 cut(s) 31, 78, 495, 1105
PpsI GAGTC 4 cut(s) 31, 78, 495, 1105
PsiI TTATAA 1 cut(s) 1283
Psp6I CCWGG 1 cut(s) 945
PspGI CCWGG 1 cut(s) 945
PspN4I GGNNCC 1 cut(s) 258
PspPI GGNCC 3 cut(s) 923, 1224, 1504
PsuI RGATCY 1 cut(s) 77
RsaI GTAC 3 cut(s) 162, 192, 317
RsaNI GTAC 3 cut(s) 161, 191, 316
RseI CAYNNNNRTG 1 cut(s) 511
SapI GCTCTTC 1 cut(s) 1344
SaqAI TTAA 4 cut(s) 894, 1248, 1463, 1500
SatI GCNGC 6 cut(s) 240, 294, 297, 325, 537, 843
Sau3AI GATC 7 cut(s) 77, 372, 402, 622, 979, 1032, 1398
Sau96I GGNCC 3 cut(s) 923, 1224, 1504
SchI GAGTC 4 cut(s) 31, 79, 496, 1106
ScrFI CCNGG 1 cut(s) 947
SduI GDGCHC 1 cut(s) 56
SfaNI GCATC 1 cut(s) 1531
SfuI TTCGAA 1 cut(s) 550
SinI GGWCC 1 cut(s) 923
SmiMI CAYNNNNRTG 1 cut(s) 511
SmlI CTYRAG 2 cut(s) 1094, 1517
SmoI CTYRAG 2 cut(s) 1094, 1517
SphI GCATGC 1 cut(s) 1043
Sse9I AATT 7 cut(s) 275, 929, 975, 1176, 1191, 1249, 1277
SsiI CCGC 1 cut(s) 1327
SspI AATATT 1 cut(s) 1468
SspMI CTAG 5 cut(s) 21, 33, 203, 213, 782
StyD4I CCNGG 1 cut(s) 945
TaaI ACNGT 2 cut(s) 16, 805
TaqI TCGA 4 cut(s) 68, 550, 838, 1419
TaqII GACCGA 1 cut(s) 1090
TasI AATT 7 cut(s) 275, 929, 975, 1176, 1191, 1249, 1277
TatI WGTACW 1 cut(s) 315
TfiI GAWTC 3 cut(s) 655, 1002, 1370
Tru1I TTAA 4 cut(s) 894, 1248, 1463, 1500
Tru9I TTAA 4 cut(s) 894, 1248, 1463, 1500
TscAI CASTG 1 cut(s) 412
TseFI GTSAC 3 cut(s) 10, 463, 1264
TseI GCWGC 6 cut(s) 239, 293, 296, 324, 536, 842
Tsp45I GTSAC 3 cut(s) 10, 463, 1264
TspDTI ATGAA 5 cut(s) 303, 728, 1227, 1509, 1526
TspRI CASTG 1 cut(s) 412
VpaK11BI GGWCC 1 cut(s) 923
XagI CCTNNNNNAGG 1 cut(s) 944
XapI RAATTY 3 cut(s) 929, 1191, 1277
XceI RCATGY 1 cut(s) 1043
XmiI GTMKAC 1 cut(s) 1536
XspI CTAG 5 cut(s) 21, 33, 203, 213, 782
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.