Rroxscaffold_1G00045860

General transcription factor 3C polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0004376
Physical Location & Seq
Reverse (-)
64995138 .. 64997286
2149 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00045860.1

Sequence Viewer

Length: 426 bp
ATGGAGGGAGATACAGTGCGCAGTGAACATCAGGAGGAAGAAGAAGAAGAATATGTATTGCTTGATCTTGATTCTGTTTACTCCCAGCTTCAGATTCCACCAAACGCACCATATGTACTTTCAGGTTTGGATACAATGCAACCGGTATTGATTCTAGATGGCAAATTTAAGTTGATCGGTCAGTGGGATGAGACAATTGGGACATGTCTTTTATTCAAAGAGGAAGTTGTCCCTGTTGTTCACGAAGAAACAGGACCATCAGAAGCAAACCTTTTTGCTGGCAAATGCATTGTTGATCAAAAGCAATCTTCAAGCAAGCAAGTAAAACCAGTTGGCCGCACTCATAGGATTCTAAAATTCAGATTGGCACCAGATTTTGACTCTCCTAATACTGCATCTGCACAGACTGAGCAAGTAAATTTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
TFIIIC_sub6

Protein Analysis

141

Amino Acids

15.77

Weight (kDa)

4.53

Isoelectric Point (pI)

56.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIIC_sub6 PF10419 13 - 122 1.1e-17 TFIIIC subunit triple barrel domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 20
AccB1I GGYRCC 1 cut(s) 367
AciI CCGC 1 cut(s) 337
AcoI YGGCCR 1 cut(s) 334
AcsI RAATTY 3 cut(s) 164, 356, 418
AcuI CTGAAG 1 cut(s) 74
AfaI GTAC 1 cut(s) 117
AflIII ACRYGT 1 cut(s) 203
AgeI ACCGGT 1 cut(s) 142
AgsI TTSAA 2 cut(s) 217, 312
AluBI AGCT 1 cut(s) 88
AluI AGCT 1 cut(s) 88
Alw26I GTCTC 1 cut(s) 185
AoxI GGCC 1 cut(s) 334
ApoI RAATTY 3 cut(s) 164, 356, 418
AsiGI ACCGGT 1 cut(s) 142
AspLEI GCGC 1 cut(s) 21
AspS9I GGNCC 1 cut(s) 254
AvaII GGWCC 1 cut(s) 254
BanI GGYRCC 1 cut(s) 367
BccI CCATC 2 cut(s) 152, 265
BciVI GTATCC 1 cut(s) 124
BclI TGATCA 1 cut(s) 295
BcoDI GTCTC 1 cut(s) 185
BfaI CTAG 1 cut(s) 155
BfuI GTATCC 1 cut(s) 124
BisI GCNGC 1 cut(s) 337
BlsI GCNGC 1 cut(s) 338
Bme18I GGWCC 1 cut(s) 254
BmgT120I GGNCC 1 cut(s) 254
BmiI GGNNCC 1 cut(s) 369
BmsI GCATC 1 cut(s) 404
BsaWI WCCGGW 1 cut(s) 142
BsaXI ACNNNNNCTCC 1 cut(s) 30
Bse118I RCCGGY 1 cut(s) 142
Bse1I ACTGG 1 cut(s) 329
BseGI GGATG 1 cut(s) 193
BseMII CTCAG 1 cut(s) 399
BseNI ACTGG 1 cut(s) 329
BseYI CCCAGC 1 cut(s) 84
BsgI GTGCAG 1 cut(s) 384
BshFI GGCC 1 cut(s) 336
BshNI GGYRCC 1 cut(s) 367
BshTI ACCGGT 1 cut(s) 142
BsiSI CCGG 1 cut(s) 143
BslFI GGGAC 2 cut(s) 214, 215
BsmAI GTCTC 1 cut(s) 185
BsmFI GGGAC 2 cut(s) 214, 215
BsnI GGCC 1 cut(s) 336
Bsp143I GATC 3 cut(s) 64, 174, 295
BspACI CCGC 1 cut(s) 337
BspANI GGCC 1 cut(s) 336
BspCNI CTCAG 1 cut(s) 400
BspLI GGNNCC 1 cut(s) 369
BspT107I GGYRCC 1 cut(s) 367
BsrFI RCCGGY 1 cut(s) 142
BsrI ACTGG 1 cut(s) 329
BssAI RCCGGY 1 cut(s) 142
BssMI GATC 3 cut(s) 64, 174, 295
Bst4CI ACNGT 1 cut(s) 16
BstC8I GCNNGC 2 cut(s) 280, 317
BstDEI CTNAG 1 cut(s) 408
BstF5I GGATG 1 cut(s) 193
BstHHI GCGC 1 cut(s) 21
BstKTI GATC 3 cut(s) 67, 177, 298
BstMAI GTCTC 1 cut(s) 185
BstMBI GATC 3 cut(s) 64, 174, 295
BstNSI RCATGY 1 cut(s) 207
BsuI GTATCC 1 cut(s) 124
BsuRI GGCC 1 cut(s) 336
BtsCI GGATG 1 cut(s) 193
BtsI GCAGTG 1 cut(s) 28
BtsIMutI CAGTG 3 cut(s) 21, 28, 188
Cac8I GCNNGC 2 cut(s) 280, 317
CfoI GCGC 1 cut(s) 21
Cfr10I RCCGGY 1 cut(s) 142
Cfr13I GGNCC 1 cut(s) 254
Csp6I GTAC 1 cut(s) 116
CspAI ACCGGT 1 cut(s) 142
CviAII CATG 1 cut(s) 204
CviJI RGCY 2 cut(s) 88, 336
CviKI_1 RGCY 2 cut(s) 88, 336
CviQI GTAC 1 cut(s) 116
DdeI CTNAG 1 cut(s) 408
DpnI GATC 3 cut(s) 66, 176, 297
DpnII GATC 3 cut(s) 64, 174, 295
EaeI YGGCCR 1 cut(s) 334
Eco47I GGWCC 1 cut(s) 254
Eco57I CTGAAG 1 cut(s) 74
EcoT22I ATGCAT 1 cut(s) 290
FaeI CATG 1 cut(s) 207
FaiI YATR 5 cut(s) 54, 112, 114, 205, 345
FalI AAGNNNNNCTT 2 cut(s) 255, 287
FaqI GGGAC 2 cut(s) 214, 215
FatI CATG 1 cut(s) 203
FauNDI CATATG 1 cut(s) 112
FbaI TGATCA 1 cut(s) 295
Fnu4HI GCNGC 1 cut(s) 337
FokI GGATG 1 cut(s) 200
Fsp4HI GCNGC 1 cut(s) 337
FspBI CTAG 1 cut(s) 155
FspI TGCGCA 1 cut(s) 20
GlaI GCGC 1 cut(s) 20
GluI GCNGC 1 cut(s) 337
GsaI CCCAGC 1 cut(s) 88
HaeIII GGCC 1 cut(s) 336
HapII CCGG 1 cut(s) 143
HhaI GCGC 1 cut(s) 21
Hin1II CATG 1 cut(s) 207
Hin6I GCGC 1 cut(s) 19
HinP1I GCGC 1 cut(s) 19
HinfI GANTC 5 cut(s) 71, 94, 151, 349, 380
HpaII CCGG 1 cut(s) 143
Hpy166II GTNNAC 3 cut(s) 26, 79, 241
Hpy188I TCNGA 3 cut(s) 93, 262, 362
Hpy188III TCNNGA 4 cut(s) 32, 68, 155, 242
Hpy8I GTNNAC 3 cut(s) 26, 79, 241
HpyCH4III ACNGT 1 cut(s) 16
HpyCH4V TGCA 4 cut(s) 139, 288, 395, 401
HpyF3I CTNAG 1 cut(s) 408
Hsp92II CATG 1 cut(s) 207
HspAI GCGC 1 cut(s) 19
Ksp22I TGATCA 1 cut(s) 295
Kzo9I GATC 3 cut(s) 64, 174, 295
LpnPI CCDG 9 cut(s) 17, 98, 108, 156, 237, 246, 264, 342, 384
LweI GCATC 1 cut(s) 404
MaeI CTAG 1 cut(s) 155
MalI GATC 3 cut(s) 66, 176, 297
MboI GATC 3 cut(s) 64, 174, 295
MboII GAAGA 6 cut(s) 50, 53, 56, 59, 257, 300
MfeI CAATTG 1 cut(s) 195
MluCI AATT 4 cut(s) 164, 195, 356, 418
MlyI GAGTC 1 cut(s) 374
MnlI CCTC 2 cut(s) 28, 214
Mph1103I ATGCAT 1 cut(s) 290
MseI TTAA 1 cut(s) 168
MspI CCGG 1 cut(s) 143
MunI CAATTG 1 cut(s) 195
NdeI CATATG 1 cut(s) 112
NdeII GATC 3 cut(s) 64, 174, 295
NlaIII CATG 1 cut(s) 207
NlaIV GGNNCC 1 cut(s) 369
NsbI TGCGCA 1 cut(s) 20
NsiI ATGCAT 1 cut(s) 290
NspI RCATGY 1 cut(s) 207
PciI ACATGT 1 cut(s) 203
PfeI GAWTC 4 cut(s) 71, 94, 151, 349
PinAI ACCGGT 1 cut(s) 142
PkrI GCNGC 1 cut(s) 338
PleI GAGTC 1 cut(s) 374
PpsI GAGTC 1 cut(s) 374
PscI ACATGT 1 cut(s) 203
PspFI CCCAGC 1 cut(s) 84
PspN4I GGNNCC 1 cut(s) 369
PspPI GGNCC 1 cut(s) 254
RsaI GTAC 1 cut(s) 117
RsaNI GTAC 1 cut(s) 116
SaqAI TTAA 1 cut(s) 168
SatI GCNGC 1 cut(s) 337
Sau3AI GATC 3 cut(s) 64, 174, 295
Sau96I GGNCC 1 cut(s) 254
SchI GAGTC 1 cut(s) 374
SetI ASST 3 cut(s) 90, 127, 273
SfaNI GCATC 1 cut(s) 404
SinI GGWCC 1 cut(s) 254
Sse9I AATT 4 cut(s) 164, 195, 356, 418
SsiI CCGC 1 cut(s) 337
SspMI CTAG 1 cut(s) 155
TaaI ACNGT 1 cut(s) 16
TaqII GACCGA 1 cut(s) 167
TasI AATT 4 cut(s) 164, 195, 356, 418
TatI WGTACW 1 cut(s) 115
TauI GCSGC 1 cut(s) 339
TfiI GAWTC 4 cut(s) 71, 94, 151, 349
Tru1I TTAA 1 cut(s) 168
Tru9I TTAA 1 cut(s) 168
TscAI CASTG 3 cut(s) 21, 28, 188
TspRI CASTG 3 cut(s) 21, 28, 188
VpaK11BI GGWCC 1 cut(s) 254
XapI RAATTY 3 cut(s) 164, 356, 418
XbaI TCTAGA 1 cut(s) 154
XceI RCATGY 1 cut(s) 207
XspI CTAG 1 cut(s) 155
Zsp2I ATGCAT 1 cut(s) 290
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.