Rroxscaffold_3G00269520

General transcription factor IIE subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0001364
Physical Location & Seq
Forward (+)
62388305 .. 62392986
4682 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00269520.1

Sequence Viewer

Length: 1371 bp
ATGAGTATCGAGCCTTTCAATAGGTTGGTGAAGCTCGCGGCGAGGGCGTTCTACGATGACATAACCACGAAAGGGGATAATCAGCCCAAGACTGGCCGGAGCGACAATCGGGGAATTGCCGTGGTTGTGCTCGACGCTCTCTCAAGGCGACAATGGGTGAGAGAAGAGGATTTGGCAAAGGACTTGAAATTGCACTCGAAGCAACTTCGTCGTACTTTGCGATTTTTTGAGGAGGAGAAACTGGTCACTCGAGACCATAGGAAGGAGACAGCTAAGGGTGCAAAGATATTTAGTGCTGCAGTTGCGGCAACAGCTGACGGGCAACAACCTACAAAAGATGGGGAAGAGAAAATTAAGTTGCACACTCACTCTTACTGCTGTCTGGACTATGCTCAGATATATGATGTAGTAAGGTACAGACTGCACCGTATGAGGAAAAAACTGAAAGATGAATTGGAGGACAAGAACACAGTTCAGGAATATGTATGCCCTAACTGTGGGAAAAGATACAATGCTTTGGATGCACTGCAACTCATTTCTTTGGAGGATGAGTACTTCCACTGCGAGAGTTGCAATGGGGAGCTTGTGGCTGAGAGTGACAAGCTAGCTTCTCAAGATGTAGGAGATGGAGATAGCAATGCAAGGAGGCAAAGGCGTGAAAAACTGAAAGACATGCTTCAAAATATGGAGGTACAGCTGAAGCCTTTAATGGAACAAATTAATAGGGTGAAAGACTTACCTGCTCCTGAATTTGGAACTCTCCAAGCTTGGGAAGCACGAGCACATGCTCAACGACGTGCAGAGAATGGAGAATCTAGTGCCATGGATCCGTCCAAATCTTCACATGGGCTAGGGTACGGTGGAACGCCCATGCCTTTTCTTGGAGATACAAAAGTTGAAGTTGATTTTGGGAATGAAGGCAAGGGTAACGATGTCAAATCAGAAGCTGATATTACAGGCCAGAAAATTTTGCCACCTTGGATGATAAAGCAAGGGATGAACCTTACAAAGGAACAGCGTGGAGAGGTAAAGCAGGAGGCAAAGATGGATGGCACTTTAGCAGCTCCAGAGTATTCAGATGACAAAAAGTCAAATGCTGAAGATAATGAGAAGGCTTTCCAGGATGAGTATTTCAAAGCCTATTACGCTGCTTTAATAAAAAGACAAGAAGAAGAAGCAGCAAAGAGTCGTCAGGTTGGCATGAAGTCAAAACGTGATCCAAATGAAGGAGATGAAGGAGAAGATAATGTTGACTGGCAAGAGGCTCCAGTTGCAGGTGATGCCAATGGAAATTACAAGGTCAATGACTTAAACGTCGAAGCCGATGCTACTGCAGAGGATGAAGATGACATAGACTGGGAGGAAAGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03022 ko05169 ko05203 map03022 map05169 map05203
Pfam Domains
Protein Families
TFIIE_alpha

Protein Analysis

456

Amino Acids

51.64

Weight (kDa)

5.1

Isoelectric Point (pI)

43.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIE_alpha PF02002 40 - 93 6.6e-06 TFIIE alpha subunit
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1265
AasI GACNNNNNNGTC 1 cut(s) 1313
Acc36I ACCTGC 2 cut(s) 748, 1265
AccII CGCG 1 cut(s) 38
AciI CCGC 2 cut(s) 38, 305
AclWI GGATC 3 cut(s) 821, 834, 1211
AcoI YGGCCR 1 cut(s) 94
AcsI RAATTY 2 cut(s) 749, 966
AcuI CTGAAG 2 cut(s) 719, 1119
AfaI GTAC 5 cut(s) 214, 416, 554, 693, 857
AgsI TTSAA 5 cut(s) 19, 187, 680, 899, 1135
AhdI GACNNNNNGTC 1 cut(s) 1087
AjiI CACGTC 1 cut(s) 797
AjnI CCWGG 1 cut(s) 1119
AjuI GAANNNNNNNTTGG 4 cut(s) 437, 469, 891, 923
Alw21I GWGCWC 2 cut(s) 132, 784
Alw26I GTCTC 2 cut(s) 246, 260
AlwI GGATC 3 cut(s) 821, 834, 1211
AlwNI CAGNNNCTG 1 cut(s) 947
Ama87I CYCGRG 1 cut(s) 249
AoxI GGCC 2 cut(s) 94, 958
ApeKI GCWGC 4 cut(s) 296, 1061, 1148, 1178
ApoI RAATTY 2 cut(s) 749, 966
AseI ATTAAT 1 cut(s) 720
Asp700I GAANNNNTTC 1 cut(s) 1115
AsuHPI GGTGA 4 cut(s) 40, 169, 739, 1289
AsuNHI GCTAGC 1 cut(s) 604
AvaI CYCGRG 1 cut(s) 249
BaeI ACNNNNGTAYC 2 cut(s) 879, 912
BamHI GGATCC 1 cut(s) 826
BauI CACGAG 1 cut(s) 777
Bbv12I GWGCWC 2 cut(s) 132, 784
BbvI GCAGC 4 cut(s) 283, 1073, 1135, 1190
BccI CCATC 4 cut(s) 332, 620, 1039, 1043
BceAI ACGGC 1 cut(s) 104
BcgI CGANNNNNNTGC 6 cut(s) 191, 225, 1307, 1313, 1341, 1347
BciT130I CCWGG 1 cut(s) 1121
BcoDI GTCTC 2 cut(s) 246, 260
BfaI CTAG 3 cut(s) 605, 816, 851
BfmI CTRYAG 2 cut(s) 297, 1332
BfuAI ACCTGC 2 cut(s) 748, 1265
BisI GCNGC 6 cut(s) 39, 297, 306, 1062, 1149, 1179
BlsI GCNGC 6 cut(s) 40, 298, 307, 1063, 1150, 1180
BmcAI AGTACT 1 cut(s) 554
Bme1390I CCNGG 1 cut(s) 1121
BmeRI GACNNNNNGTC 1 cut(s) 1087
BmeT110I CYCGRG 1 cut(s) 249
BmgBI CACGTC 1 cut(s) 797
BmiI GGNNCC 2 cut(s) 828, 1266
BmrFI CCNGG 1 cut(s) 1121
BmrI ACTGGG 1 cut(s) 1366
BmsI GCATC 3 cut(s) 511, 1270, 1315
BmtI GCTAGC 1 cut(s) 608
BmuI ACTGGG 1 cut(s) 1366
BpmI CTGGAG 2 cut(s) 1050, 1251
Bpu10I CCTNAGC 1 cut(s) 273
BpuEI CTTGAG 2 cut(s) 127, 597
BsaI GGTCTC 1 cut(s) 246
BsaJI CCNNGG 3 cut(s) 120, 822, 977
BsaXI ACNNNNNCTCC 2 cut(s) 536, 566
Bse1I ACTGG 5 cut(s) 97, 246, 1259, 1268, 1361
Bse3DI GCAATG 2 cut(s) 580, 643
BseBI CCWGG 1 cut(s) 1121
BseDI CCNNGG 3 cut(s) 120, 822, 977
BseGI GGATG 7 cut(s) 526, 553, 987, 1002, 1054, 1129, 1345
BseMI GCAATG 2 cut(s) 580, 643
BseMII CTCAG 2 cut(s) 407, 582
BseNI ACTGG 5 cut(s) 97, 246, 1259, 1268, 1361
BseRI GAGGAG 2 cut(s) 245, 248
BseXI GCAGC 4 cut(s) 283, 1073, 1135, 1190
BsgI GTGCAG 2 cut(s) 407, 819
Bsh1236I CGCG 1 cut(s) 38
BshFI GGCC 2 cut(s) 96, 960
BsiHKAI GWGCWC 2 cut(s) 132, 784
BsiHKCI CYCGRG 1 cut(s) 249
BsiSI CCGG 1 cut(s) 97
BsmAI GTCTC 2 cut(s) 246, 260
BsnI GGCC 2 cut(s) 96, 960
Bso31I GGTCTC 1 cut(s) 246
BsoBI CYCGRG 1 cut(s) 249
Bsp1286I GDGCHC 2 cut(s) 132, 784
Bsp143I GATC 2 cut(s) 826, 1216
Bsp19I CCATGG 1 cut(s) 822
BspACI CCGC 2 cut(s) 38, 305
BspANI GGCC 2 cut(s) 96, 960
BspCNI CTCAG 2 cut(s) 406, 583
BspFNI CGCG 1 cut(s) 38
BspLI GGNNCC 2 cut(s) 828, 1266
BspMAI CTGCAG 2 cut(s) 301, 1336
BspMI ACCTGC 2 cut(s) 748, 1265
BspOI GCTAGC 1 cut(s) 608
BspPI GGATC 3 cut(s) 821, 834, 1211
BspTNI GGTCTC 1 cut(s) 246
BsrDI GCAATG 2 cut(s) 580, 643
BsrI ACTGG 5 cut(s) 97, 246, 1259, 1268, 1361
BssECI CCNNGG 3 cut(s) 120, 822, 977
BssMI GATC 2 cut(s) 826, 1216
BssSI CACGAG 1 cut(s) 777
BssT1I CCWWGG 2 cut(s) 822, 977
Bst2BI CACGAG 1 cut(s) 777
Bst2UI CCWGG 1 cut(s) 1121
Bst4CI ACNGT 4 cut(s) 428, 472, 497, 860
Bst6I CTCTTC 2 cut(s) 159, 339
BstAPI GCANNNNNTGC 1 cut(s) 1280
BstC8I GCNNGC 2 cut(s) 36, 606
BstDEI CTNAG 3 cut(s) 273, 393, 591
BstDSI CCRYGG 2 cut(s) 120, 822
BstENI CCTNNNNNAGG 1 cut(s) 1007
BstF5I GGATG 7 cut(s) 526, 553, 987, 1002, 1054, 1129, 1345
BstFNI CGCG 1 cut(s) 38
BstKTI GATC 2 cut(s) 829, 1219
BstMAI GTCTC 2 cut(s) 246, 260
BstMBI GATC 2 cut(s) 826, 1216
BstNI CCWGG 1 cut(s) 1121
BstNSI RCATGY 2 cut(s) 676, 788
BstSCI CCNGG 1 cut(s) 1119
BstSFI CTRYAG 2 cut(s) 297, 1332
BstUI CGCG 1 cut(s) 38
BstV1I GCAGC 4 cut(s) 283, 1073, 1135, 1190
BstX2I RGATCY 1 cut(s) 826
BstYI RGATCY 1 cut(s) 826
BsuRI GGCC 2 cut(s) 96, 960
BtgI CCRYGG 2 cut(s) 120, 822
BtrI CACGTC 1 cut(s) 797
BtsCI GGATG 7 cut(s) 526, 553, 987, 1002, 1054, 1129, 1345
BtsI GCAGTG 2 cut(s) 524, 559
BtsIMutI CAGTG 2 cut(s) 524, 559
BveI ACCTGC 2 cut(s) 748, 1265
Cac8I GCNNGC 2 cut(s) 36, 606
CaiI CAGNNNCTG 1 cut(s) 947
CseI GACGC 1 cut(s) 143
Csp6I GTAC 5 cut(s) 213, 415, 553, 692, 856
CviAII CATG 6 cut(s) 673, 785, 823, 845, 871, 1201
CviQI GTAC 5 cut(s) 213, 415, 553, 692, 856
DdeI CTNAG 3 cut(s) 273, 393, 591
DpnI GATC 2 cut(s) 828, 1218
DpnII GATC 2 cut(s) 826, 1216
DrdI GACNNNNNNGTC 1 cut(s) 1313
DriI GACNNNNNGTC 1 cut(s) 1087
DseDI GACNNNNNNGTC 1 cut(s) 1313
EaeI YGGCCR 1 cut(s) 94
Eam1104I CTCTTC 2 cut(s) 159, 339
Eam1105I GACNNNNNGTC 1 cut(s) 1087
EarI CTCTTC 2 cut(s) 159, 339
Eco130I CCWWGG 2 cut(s) 822, 977
Eco31I GGTCTC 1 cut(s) 246
Eco57I CTGAAG 2 cut(s) 719, 1119
Eco88I CYCGRG 1 cut(s) 249
EcoNI CCTNNNNNAGG 1 cut(s) 1007
EcoRII CCWGG 1 cut(s) 1119
EcoT14I CCWWGG 2 cut(s) 822, 977
ErhI CCWWGG 2 cut(s) 822, 977
FaeI CATG 6 cut(s) 676, 788, 826, 848, 874, 1204
FalI AAGNNNNNCTT 2 cut(s) 660, 692
FatI CATG 6 cut(s) 672, 784, 822, 844, 870, 1200
Fnu4HI GCNGC 6 cut(s) 39, 297, 306, 1062, 1149, 1179
FokI GGATG 7 cut(s) 533, 560, 994, 1009, 1061, 1136, 1352
Fsp4HI GCNGC 6 cut(s) 39, 297, 306, 1062, 1149, 1179
FspBI CTAG 3 cut(s) 605, 816, 851
GluI GCNGC 6 cut(s) 39, 297, 306, 1062, 1149, 1179
GsuI CTGGAG 2 cut(s) 1050, 1251
HaeIII GGCC 2 cut(s) 96, 960
HapII CCGG 1 cut(s) 97
HgaI GACGC 1 cut(s) 143
Hin1II CATG 6 cut(s) 676, 788, 826, 848, 874, 1204
HincII GTYRAC 1 cut(s) 1252
HindII GTYRAC 1 cut(s) 1252
HindIII AAGCTT 1 cut(s) 765
HinfI GANTC 2 cut(s) 812, 1186
HpaII CCGG 1 cut(s) 97
HphI GGTGA 4 cut(s) 40, 169, 739, 1289
Hpy166II GTNNAC 1 cut(s) 1252
Hpy188I TCNGA 3 cut(s) 396, 943, 1078
Hpy188III TCNNGA 6 cut(s) 251, 383, 476, 614, 746, 1067
Hpy8I GTNNAC 1 cut(s) 1252
Hpy99I CGWCG 4 cut(s) 137, 213, 798, 1319
HpyAV CCTTC 5 cut(s) 256, 911, 1105, 1220, 1229
HpyCH4III ACNGT 4 cut(s) 428, 472, 497, 860
HpyCH4IV ACGT 3 cut(s) 796, 1213, 1314
HpyF3I CTNAG 3 cut(s) 273, 393, 591
HpySE526I ACGT 3 cut(s) 796, 1213, 1314
Hsp92II CATG 6 cut(s) 676, 788, 826, 848, 874, 1204
Kzo9I GATC 2 cut(s) 826, 1216
LmnI GCTCC 5 cut(s) 99, 580, 748, 1069, 1270
Lsp1109I GCAGC 4 cut(s) 283, 1073, 1135, 1190
LweI GCATC 3 cut(s) 511, 1270, 1315
MaeI CTAG 3 cut(s) 605, 816, 851
MaeII ACGT 3 cut(s) 796, 1213, 1314
MaeIII GTNAC 3 cut(s) 244, 596, 926
MalI GATC 2 cut(s) 828, 1218
MboI GATC 2 cut(s) 826, 1216
MboII GAAGA 8 cut(s) 176, 356, 831, 1112, 1181, 1184, 1253, 1355
MflI RGATCY 1 cut(s) 826
MhlI GDGCHC 2 cut(s) 132, 784
MluCI AATT 8 cut(s) 114, 188, 351, 452, 717, 749, 966, 1291
MlyI GAGTC 1 cut(s) 1195
MroXI GAANNNNTTC 1 cut(s) 1115
MseI TTAA 5 cut(s) 354, 707, 720, 1154, 1310
MspA1I CMGCKG 2 cut(s) 314, 697
MspI CCGG 1 cut(s) 97
MspR9I CCNGG 1 cut(s) 1121
MvaI CCWGG 1 cut(s) 1121
MvnI CGCG 1 cut(s) 38
NcoI CCATGG 1 cut(s) 822
NdeII GATC 2 cut(s) 826, 1216
NheI GCTAGC 1 cut(s) 604
NlaIII CATG 6 cut(s) 676, 788, 826, 848, 874, 1204
NlaIV GGNNCC 2 cut(s) 828, 1266
NmuCI GTSAC 2 cut(s) 244, 596
NspI RCATGY 2 cut(s) 676, 788
PaeR7I CTCGAG 1 cut(s) 249
PaqCI CACCTGC 1 cut(s) 1265
PcsI WCGNNNNNNNCGW 2 cut(s) 217, 1320
PdmI GAANNNNTTC 1 cut(s) 1115
PfeI GAWTC 1 cut(s) 812
PfoI TCCNGGA 1 cut(s) 1119
PkrI GCNGC 6 cut(s) 40, 298, 307, 1063, 1150, 1180
PleI GAGTC 1 cut(s) 1194
PpsI GAGTC 1 cut(s) 1194
PshBI ATTAAT 1 cut(s) 720
Psp6I CCWGG 1 cut(s) 1119
PspGI CCWGG 1 cut(s) 1119
PspN4I GGNNCC 2 cut(s) 828, 1266
PstI CTGCAG 2 cut(s) 301, 1336
PstNI CAGNNNCTG 1 cut(s) 947
PsuI RGATCY 1 cut(s) 826
PvuII CAGCTG 2 cut(s) 314, 697
RsaI GTAC 5 cut(s) 214, 416, 554, 693, 857
RsaNI GTAC 5 cut(s) 213, 415, 553, 692, 856
SaqAI TTAA 5 cut(s) 354, 707, 720, 1154, 1310
SatI GCNGC 6 cut(s) 39, 297, 306, 1062, 1149, 1179
Sau3AI GATC 2 cut(s) 826, 1216
ScaI AGTACT 1 cut(s) 554
SchI GAGTC 1 cut(s) 1195
ScrFI CCNGG 1 cut(s) 1121
SduI GDGCHC 2 cut(s) 132, 784
SfaNI GCATC 3 cut(s) 511, 1270, 1315
SfcI CTRYAG 2 cut(s) 297, 1332
Sfr274I CTCGAG 1 cut(s) 249
SlaI CTCGAG 1 cut(s) 249
SmlI CTYRAG 3 cut(s) 142, 249, 612
SmoI CTYRAG 3 cut(s) 142, 249, 612
Sse9I AATT 8 cut(s) 114, 188, 351, 452, 717, 749, 966, 1291
SsiI CCGC 2 cut(s) 38, 305
SspMI CTAG 3 cut(s) 605, 816, 851
StyD4I CCNGG 1 cut(s) 1119
StyI CCWWGG 2 cut(s) 822, 977
TaaI ACNGT 4 cut(s) 428, 472, 497, 860
TaiI ACGT 3 cut(s) 799, 1216, 1317
TaqI TCGA 5 cut(s) 9, 132, 197, 250, 1317
TasI AATT 8 cut(s) 114, 188, 351, 452, 717, 749, 966, 1291
TatI WGTACW 1 cut(s) 552
TauI GCSGC 2 cut(s) 41, 308
TfiI GAWTC 1 cut(s) 812
Tru1I TTAA 5 cut(s) 354, 707, 720, 1154, 1310
Tru9I TTAA 5 cut(s) 354, 707, 720, 1154, 1310
TscAI CASTG 2 cut(s) 531, 566
TseFI GTSAC 2 cut(s) 244, 596
TseI GCWGC 4 cut(s) 296, 1061, 1148, 1178
Tsp45I GTSAC 2 cut(s) 244, 596
TspDTI ATGAA 7 cut(s) 465, 930, 1013, 1217, 1239, 1248, 1356
TspGWI ACGGA 1 cut(s) 819
TspRI CASTG 2 cut(s) 531, 566
VspI ATTAAT 1 cut(s) 720
XagI CCTNNNNNAGG 1 cut(s) 1007
XapI RAATTY 2 cut(s) 749, 966
XceI RCATGY 2 cut(s) 676, 788
XhoI CTCGAG 1 cut(s) 249
XmnI GAANNNNTTC 1 cut(s) 1115
XspI CTAG 3 cut(s) 605, 816, 851
ZrmI AGTACT 1 cut(s) 554
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.