Rroxscaffold_3G00269510

General transcription factor IIE subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0001364
Physical Location & Seq
Forward (+)
62384190 .. 62387921
3732 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00269510.1

Sequence Viewer

Length: 1116 bp
ATGAGCATCGAGGTTTTCAACAGGTTTGTGAGGCTTGCGGCCAGAGCGTTCTACGATGACGTCACGCCGGAAAGTGATAATAAGCAGCACAAGACTGGCCGGAGCGGCAATAGGGGAATCGCCGTCGTGGTGCTCGACGCGCTCTCGAGGCGACAATGGGTGAGAGAAGAAGATCTGGCGAAGGACTTGAAACTGCACCCCAAGCAACTTCGTCATGTTTTGCAAATGTTGATGGAGGAAAAGTTGGTGATCAGAGAACATAGGAAAGAGACAGCTAAGGGTGTGAAGATTTTCAGTGCTGCGGTTGCTGCCACAGCCAATGGGCAACAACCTAGAAAAGAAGGCGAAGAGAAAATTAAGCTGCAGACTCACTCTTACTGCTGTCTGGACTATGCTCAGATATATGATGTAGTAAGGTACAGACTGCACCTTTTGAAGAAAGAACTGAAAGATGAACTGGAGGGGAAGCACGCAGTGGAGGAATATGTATGCCATAACTGCAGGAAAAGATACAACGCATTGGATGCACTGCAACTGGTTTCTATGGAGGATGAGTACTTCCACTGTGAAAGTTGCAATGGGATACTTGTGGCCGAGAGTGACAAGCTAGATTCTCAAAACACAGCAGGCCGAGACTGCAAAGCAATGCTTCAAAATATGGAGGTACAGCTGAAGCCTTTAATGGAACAAATTTATAGAGTTAAAGATTTACCTTTTCCTGATTTTGGAAGTCTCCAAGCTTGGGAAGCCAGAGCAAGTGCTCCACGACTTGCAGAGAATAGTGAATCTAGTGCCATTGATCCCTCCATATCTTCTCATGGGCTGGGGTATGGTGGGATGCCCATGCCTTACGTTGGAGATACAAAGGTTGAAGTTGTGTTTTCTAAGAATGAGGACGAGGGTAAGGATATAAAATCTCAAGCTGATAATACAGACCTAAAAGTTGTACCACCTTGGATGATCAAGCAAGAGATGACTCTTACAAGGGAACAGTGTGGAGAGGTCAGGCAAATGGAATCCTCACAAATGCACGTCTCTAGTCATCAGGTTCGTCGGGTTGGCATGAAGTCAGAACGGGATGAGGATGAAGGAGATGATAATATTGACTGGGAATAA
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

371

Amino Acids

42.48

Weight (kDa)

5.74

Isoelectric Point (pI)

46.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIE_alpha PF02002 41 - 95 3.6e-08 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)
AatII GACGTC 1 cut(s) 63
AccBSI CCGCTC 1 cut(s) 105
AccII CGCG 1 cut(s) 140
AciI CCGC 3 cut(s) 38, 105, 302
AclWI GGATC 1 cut(s) 794
AcoI YGGCCR 3 cut(s) 39, 97, 591
AcsI RAATTY 1 cut(s) 690
AcuI CTGAAG 1 cut(s) 692
AcyI GRCGYC 1 cut(s) 60
AdeI CACNNNGTG 1 cut(s) 475
AfaI GTAC 4 cut(s) 419, 557, 666, 948
AfiI CCNNNNNNNGG 3 cut(s) 725, 742, 854
AgsI TTSAA 5 cut(s) 19, 190, 436, 653, 872
AjiI CACGTC 1 cut(s) 1033
AluBI AGCT 6 cut(s) 275, 361, 607, 670, 740, 923
AluI AGCT 6 cut(s) 275, 361, 607, 670, 740, 923
Alw21I GWGCWC 2 cut(s) 135, 763
Alw26I GTCTC 4 cut(s) 263, 627, 737, 1039
AlwI GGATC 1 cut(s) 794
Ama87I CYCGRG 1 cut(s) 145
AoxI GGCC 4 cut(s) 39, 97, 591, 628
ApeKI GCWGC 4 cut(s) 85, 299, 308, 361
ApoI RAATTY 1 cut(s) 690
Asp700I GAANNNNTTC 1 cut(s) 290
AspLEI GCGC 1 cut(s) 142
AsuHPI GGTGA 2 cut(s) 172, 259
AvaI CYCGRG 1 cut(s) 145
BaeI ACNNNNGTAYC 2 cut(s) 852, 885
Bbv12I GWGCWC 2 cut(s) 135, 763
BbvI GCAGC 4 cut(s) 97, 286, 295, 348
BccI CCATC 1 cut(s) 226
BceAI ACGGC 1 cut(s) 107
BciVI GTATCC 1 cut(s) 576
BclI TGATCA 2 cut(s) 249, 960
BcoDI GTCTC 4 cut(s) 263, 627, 737, 1039
BfaI CTAG 4 cut(s) 333, 608, 789, 1038
BfmI CTRYAG 2 cut(s) 362, 499
BfuI GTATCC 1 cut(s) 576
BglI GCCNNNNNGGC 1 cut(s) 105
BglII AGATCT 1 cut(s) 172
BisI GCNGC 6 cut(s) 39, 86, 106, 300, 309, 362
BlsI GCNGC 6 cut(s) 40, 87, 107, 301, 310, 363
BmcAI AGTACT 1 cut(s) 557
BmeT110I CYCGRG 1 cut(s) 145
BmgBI CACGTC 1 cut(s) 1033
BmsI GCATC 3 cut(s) 15, 514, 828
BpmI CTGGAG 1 cut(s) 479
Bpu10I CCTNAGC 1 cut(s) 276
BpuEI CTTGAG 1 cut(s) 903
BsaHI GRCGYC 1 cut(s) 60
BsaJI CCNNGG 1 cut(s) 953
BsaXI ACNNNNNCTCC 4 cut(s) 227, 257, 539, 569
Bsc4I CCNNNNNNNGG 3 cut(s) 725, 742, 854
Bse1I ACTGG 4 cut(s) 100, 462, 540, 1112
Bse3DI GCAATG 2 cut(s) 583, 651
BseDI CCNNGG 1 cut(s) 953
BseGI GGATG 6 cut(s) 529, 556, 843, 963, 1084, 1090
BseLI CCNNNNNNNGG 3 cut(s) 725, 742, 854
BseMI GCAATG 2 cut(s) 583, 651
BseMII CTCAG 1 cut(s) 410
BseNI ACTGG 4 cut(s) 100, 462, 540, 1112
BseXI GCAGC 4 cut(s) 97, 286, 295, 348
BseYI CCCAGC 1 cut(s) 823
BsgI GTGCAG 2 cut(s) 179, 410
Bsh1236I CGCG 1 cut(s) 140
BshFI GGCC 4 cut(s) 41, 99, 593, 630
BsiHKAI GWGCWC 2 cut(s) 135, 763
BsiHKCI CYCGRG 1 cut(s) 145
BsiSI CCGG 2 cut(s) 68, 100
BslI CCNNNNNNNGG 3 cut(s) 725, 742, 854
BsmAI GTCTC 4 cut(s) 263, 627, 737, 1039
BsmBI CGTCTC 1 cut(s) 1039
BsnI GGCC 4 cut(s) 41, 99, 593, 630
BsoBI CYCGRG 1 cut(s) 145
Bsp1286I GDGCHC 2 cut(s) 135, 763
Bsp143I GATC 4 cut(s) 172, 249, 799, 960
BspACI CCGC 3 cut(s) 38, 105, 302
BspANI GGCC 4 cut(s) 41, 99, 593, 630
BspCNI CTCAG 1 cut(s) 409
BspFNI CGCG 1 cut(s) 140
BspMAI CTGCAG 2 cut(s) 366, 503
BspPI GGATC 1 cut(s) 794
BsrBI CCGCTC 1 cut(s) 105
BsrDI GCAATG 2 cut(s) 583, 651
BsrI ACTGG 4 cut(s) 100, 462, 540, 1112
BssECI CCNNGG 1 cut(s) 953
BssMI GATC 4 cut(s) 172, 249, 799, 960
BssNI GRCGYC 1 cut(s) 60
BssT1I CCWWGG 1 cut(s) 953
Bst4CI ACNGT 2 cut(s) 566, 993
Bst6I CTCTTC 1 cut(s) 342
BstACI GRCGYC 1 cut(s) 60
BstAPI GCANNNNNTGC 1 cut(s) 524
BstC8I GCNNGC 3 cut(s) 36, 471, 628
BstDEI CTNAG 3 cut(s) 276, 396, 885
BstF5I GGATG 6 cut(s) 529, 556, 843, 963, 1084, 1090
BstFNI CGCG 1 cut(s) 140
BstHHI GCGC 1 cut(s) 142
BstKTI GATC 4 cut(s) 175, 252, 802, 963
BstMAI GTCTC 4 cut(s) 263, 627, 737, 1039
BstMBI GATC 4 cut(s) 172, 249, 799, 960
BstSFI CTRYAG 2 cut(s) 362, 499
BstUI CGCG 1 cut(s) 140
BstV1I GCAGC 4 cut(s) 97, 286, 295, 348
BstX2I RGATCY 1 cut(s) 172
BstYI RGATCY 1 cut(s) 172
BsuI GTATCC 1 cut(s) 576
BsuRI GGCC 4 cut(s) 41, 99, 593, 630
BtrI CACGTC 1 cut(s) 1033
BtsCI GGATG 6 cut(s) 529, 556, 843, 963, 1084, 1090
BtsI GCAGTG 2 cut(s) 480, 527
BtsIMutI CAGTG 5 cut(s) 301, 480, 527, 562, 998
Cac8I GCNNGC 3 cut(s) 36, 471, 628
CfoI GCGC 1 cut(s) 142
CseI GACGC 1 cut(s) 146
Csp6I GTAC 4 cut(s) 418, 556, 665, 947
CviAII CATG 4 cut(s) 215, 818, 844, 1063
CviQI GTAC 4 cut(s) 418, 556, 665, 947
DdeI CTNAG 3 cut(s) 276, 396, 885
DpnI GATC 4 cut(s) 174, 251, 801, 962
DpnII GATC 4 cut(s) 172, 249, 799, 960
DraIII CACNNNGTG 1 cut(s) 475
EaeI YGGCCR 3 cut(s) 39, 97, 591
Eam1104I CTCTTC 1 cut(s) 342
EarI CTCTTC 1 cut(s) 342
Eco130I CCWWGG 1 cut(s) 953
Eco57I CTGAAG 1 cut(s) 692
Eco88I CYCGRG 1 cut(s) 145
EcoT14I CCWWGG 1 cut(s) 953
ErhI CCWWGG 1 cut(s) 953
Esp3I CGTCTC 1 cut(s) 1039
FaeI CATG 4 cut(s) 218, 821, 847, 1066
FalI AAGNNNNNCTT 2 cut(s) 633, 665
FatI CATG 4 cut(s) 214, 817, 843, 1062
FbaI TGATCA 2 cut(s) 249, 960
Fnu4HI GCNGC 6 cut(s) 39, 86, 106, 300, 309, 362
FokI GGATG 6 cut(s) 536, 563, 850, 970, 1091, 1097
Fsp4HI GCNGC 6 cut(s) 39, 86, 106, 300, 309, 362
FspBI CTAG 4 cut(s) 333, 608, 789, 1038
GlaI GCGC 1 cut(s) 141
GluI GCNGC 6 cut(s) 39, 86, 106, 300, 309, 362
GsaI CCCAGC 1 cut(s) 827
GsuI CTGGAG 1 cut(s) 479
HaeIII GGCC 4 cut(s) 41, 99, 593, 630
HapII CCGG 2 cut(s) 68, 100
HgaI GACGC 1 cut(s) 146
HhaI GCGC 1 cut(s) 142
Hin1I GRCGYC 1 cut(s) 60
Hin1II CATG 4 cut(s) 218, 821, 847, 1066
Hin6I GCGC 1 cut(s) 140
HinP1I GCGC 1 cut(s) 140
HindIII AAGCTT 1 cut(s) 738
HinfI GANTC 6 cut(s) 117, 367, 611, 785, 976, 1016
HpaII CCGG 2 cut(s) 68, 100
HphI GGTGA 2 cut(s) 172, 259
Hpy188I TCNGA 3 cut(s) 254, 399, 1072
Hpy188III TCNNGA 3 cut(s) 145, 386, 719
Hpy99I CGWCG 3 cut(s) 128, 140, 1056
HpyAV CCTTC 3 cut(s) 175, 335, 1082
HpyCH4III ACNGT 2 cut(s) 566, 993
HpyCH4IV ACGT 3 cut(s) 60, 852, 1032
HpyF3I CTNAG 3 cut(s) 276, 396, 885
HpySE526I ACGT 3 cut(s) 60, 852, 1032
Hsp92I GRCGYC 1 cut(s) 60
Hsp92II CATG 4 cut(s) 218, 821, 847, 1066
HspAI GCGC 1 cut(s) 140
Ksp22I TGATCA 2 cut(s) 249, 960
Kzo9I GATC 4 cut(s) 172, 249, 799, 960
LmnI GCTCC 2 cut(s) 102, 766
Lsp1109I GCAGC 4 cut(s) 97, 286, 295, 348
LweI GCATC 3 cut(s) 15, 514, 828
MaeI CTAG 4 cut(s) 333, 608, 789, 1038
MaeII ACGT 3 cut(s) 60, 852, 1032
MaeIII GTNAC 2 cut(s) 61, 599
MalI GATC 4 cut(s) 174, 251, 801, 962
MbiI CCGCTC 1 cut(s) 105
MboI GATC 4 cut(s) 172, 249, 799, 960
MboII GAAGA 6 cut(s) 179, 182, 298, 359, 448, 804
MflI RGATCY 1 cut(s) 172
MhlI GDGCHC 2 cut(s) 135, 763
MluCI AATT 2 cut(s) 354, 690
MlyI GAGTC 2 cut(s) 361, 970
MmeI TCCRAC 1 cut(s) 835
MroXI GAANNNNTTC 1 cut(s) 290
MseI TTAA 3 cut(s) 357, 680, 702
MspA1I CMGCKG 1 cut(s) 670
MspI CCGG 2 cut(s) 68, 100
MvnI CGCG 1 cut(s) 140
NdeII GATC 4 cut(s) 172, 249, 799, 960
NlaIII CATG 4 cut(s) 218, 821, 847, 1066
NmeAIII GCCGAG 2 cut(s) 619, 656
NmuCI GTSAC 2 cut(s) 61, 599
PaeR7I CTCGAG 1 cut(s) 145
PcsI WCGNNNNNNNCGW 1 cut(s) 132
PdmI GAANNNNTTC 1 cut(s) 290
PfeI GAWTC 4 cut(s) 117, 611, 785, 1016
PkrI GCNGC 6 cut(s) 40, 87, 107, 301, 310, 363
PleI GAGTC 2 cut(s) 361, 970
PpsI GAGTC 2 cut(s) 361, 970
PspFI CCCAGC 1 cut(s) 823
PstI CTGCAG 2 cut(s) 366, 503
PsuI RGATCY 1 cut(s) 172
PvuII CAGCTG 1 cut(s) 670
RsaI GTAC 4 cut(s) 419, 557, 666, 948
RsaNI GTAC 4 cut(s) 418, 556, 665, 947
SaqAI TTAA 3 cut(s) 357, 680, 702
SatI GCNGC 6 cut(s) 39, 86, 106, 300, 309, 362
Sau3AI GATC 4 cut(s) 172, 249, 799, 960
ScaI AGTACT 1 cut(s) 557
SchI GAGTC 2 cut(s) 361, 970
SduI GDGCHC 2 cut(s) 135, 763
SfaNI GCATC 3 cut(s) 15, 514, 828
SfcI CTRYAG 2 cut(s) 362, 499
Sfr274I CTCGAG 1 cut(s) 145
SlaI CTCGAG 1 cut(s) 145
SmlI CTYRAG 2 cut(s) 145, 918
SmoI CTYRAG 2 cut(s) 145, 918
Sse9I AATT 2 cut(s) 354, 690
SsiI CCGC 3 cut(s) 38, 105, 302
SspI AATATT 1 cut(s) 1102
SspMI CTAG 4 cut(s) 333, 608, 789, 1038
StyI CCWWGG 1 cut(s) 953
TaaI ACNGT 2 cut(s) 566, 993
TaiI ACGT 3 cut(s) 63, 855, 1035
TaqI TCGA 3 cut(s) 9, 135, 146
TasI AATT 2 cut(s) 354, 690
TatI WGTACW 1 cut(s) 555
TauI GCSGC 2 cut(s) 41, 108
TfiI GAWTC 4 cut(s) 117, 611, 785, 1016
Tru1I TTAA 3 cut(s) 357, 680, 702
Tru9I TTAA 3 cut(s) 357, 680, 702
TscAI CASTG 5 cut(s) 301, 480, 534, 569, 998
TseFI GTSAC 2 cut(s) 61, 599
TseI GCWGC 4 cut(s) 85, 299, 308, 361
Tsp45I GTSAC 2 cut(s) 61, 599
TspDTI ATGAA 3 cut(s) 468, 1079, 1101
TspRI CASTG 5 cut(s) 301, 480, 534, 569, 998
XapI RAATTY 1 cut(s) 690
XhoI CTCGAG 1 cut(s) 145
XmnI GAANNNNTTC 1 cut(s) 290
XspI CTAG 4 cut(s) 333, 608, 789, 1038
ZraI GACGTC 1 cut(s) 61
ZrmI AGTACT 1 cut(s) 557
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.