Rmu_ssc0000189.1_g000012

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000189.1
OG0015770
Physical Location & Seq
Forward (+)
96121 .. 98624
2504 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 567 bp
atgtgtctgactgagactttggatgagatggttcagaacgggactctcagtcctgagcttgccattcaggttctggttcagttcgaaaaaggagacccggccataactcctccgtccagccatctctcggcggcgcaccaccggcgttcgactcctcttctcagtgccaacatgcctatggctgctgggttcatttttgaagtcgtggaacaccgattgatggctagtggagctcaattcattgaattgagtaaagtggtgagctcggataccgaactgaataagaggaattggatgggctctgctcgacgatcacagagcatagtagctgcaagttatgcttgttcaagatctctgtgggtctatgaaggagtcattgatgatcgttatggtgaatgtttcattgctgagaacaaatctcttcaaaagatgttgtttaagggttttcccgatgcttgtgattcattgatggttctgaggaatggtgcactggacataaagatagagcctttagtaagcacatttagttgcttcaaattggagacacttctccttgcactcttttaa
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000428 GO:0003674 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051090 GO:0051091 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0065009 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03022 ko05203 map03022 map05203
Pfam Domains
Protein Families
TFIIA_gamma_C TFIIA_gamma_N

Protein Analysis

188

Amino Acids

20.81

Weight (kDa)

5.57

Isoelectric Point (pI)

59.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIA_gamma_N PF02268 1 - 30 2.1e-08 Transcription initiation factor IIA, gamma subunit, helical 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)
AciI CCGC 1 cut(s) 131
AcoI YGGCCR 1 cut(s) 99
AfiI CCNNNNNNNGG 2 cut(s) 127, 220
AgsI TTSAA 5 cut(s) 200, 245, 348, 425, 535
AhdI GACNNNNNGTC 1 cut(s) 48
AluBI AGCT 4 cut(s) 58, 233, 264, 329
AluI AGCT 4 cut(s) 58, 233, 264, 329
Alw21I GWGCWC 3 cut(s) 235, 266, 490
Alw26I GTCTC 3 cut(s) 8, 87, 536
Alw44I GTGCAC 1 cut(s) 486
AlwNI CAGNNNCTG 1 cut(s) 73
AoxI GGCC 1 cut(s) 99
ApaLI GTGCAC 1 cut(s) 486
ApeKI GCWGC 2 cut(s) 182, 329
ArsI GACNNNNNNTTYG 1 cut(s) 33
AspLEI GCGC 1 cut(s) 136
AsuC2I CCSGG 1 cut(s) 98
AsuHPI GGTGA 2 cut(s) 271, 404
AsuII TTCGAA 1 cut(s) 84
BaeGI GKGCMC 1 cut(s) 490
BanII GRGCYC 3 cut(s) 235, 266, 302
Bbv12I GWGCWC 3 cut(s) 235, 266, 490
BbvI GCAGC 2 cut(s) 169, 316
BccI CCATC 5 cut(s) 22, 129, 214, 289, 463
BciVI GTATCC 1 cut(s) 262
BcnI CCSGG 1 cut(s) 98
BcoDI GTCTC 3 cut(s) 8, 87, 536
BfaI CTAG 1 cut(s) 225
BfuI GTATCC 1 cut(s) 262
BglII AGATCT 1 cut(s) 350
BisI GCNGC 3 cut(s) 132, 183, 330
BlsI GCNGC 3 cut(s) 133, 184, 331
Bme1390I CCNGG 1 cut(s) 98
BmeRI GACNNNNNGTC 1 cut(s) 48
BmrFI CCNGG 1 cut(s) 98
BmsI GCATC 1 cut(s) 442
Bpu10I CCTNAGC 1 cut(s) 54
Bpu14I TTCGAA 1 cut(s) 84
BpuMI CCSGG 1 cut(s) 98
BsaI GGTCTC 1 cut(s) 87
Bsc4I CCNNNNNNNGG 2 cut(s) 127, 220
Bse118I RCCGGY 1 cut(s) 141
Bse1I ACTGG 1 cut(s) 495
Bse3DI GCAATG 1 cut(s) 402
BseGI GGATG 2 cut(s) 28, 300
BseLI CCNNNNNNNGG 2 cut(s) 127, 220
BseMI GCAATG 1 cut(s) 402
BseMII CTCAG 5 cut(s) 45, 61, 175, 399, 467
BseNI ACTGG 1 cut(s) 495
BseRI GAGGAG 2 cut(s) 99, 144
BseSI GKGCMC 1 cut(s) 490
BseXI GCAGC 2 cut(s) 169, 316
BseYI CCCAGC 1 cut(s) 185
BshFI GGCC 1 cut(s) 101
BsiHKAI GWGCWC 3 cut(s) 235, 266, 490
BsiSI CCGG 2 cut(s) 98, 142
BslFI GGGAC 1 cut(s) 55
BslI CCNNNNNNNGG 2 cut(s) 127, 220
BsmAI GTCTC 3 cut(s) 8, 87, 536
BsmFI GGGAC 1 cut(s) 55
BsnI GGCC 1 cut(s) 101
Bso31I GGTCTC 1 cut(s) 87
Bsp119I TTCGAA 1 cut(s) 84
Bsp1286I GDGCHC 4 cut(s) 235, 266, 302, 490
Bsp143I GATC 3 cut(s) 311, 350, 382
BspACI CCGC 1 cut(s) 131
BspANI GGCC 1 cut(s) 101
BspCNI CTCAG 6 cut(s) 4, 46, 60, 174, 400, 468
BspT104I TTCGAA 1 cut(s) 84
BspTNI GGTCTC 1 cut(s) 87
BsrDI GCAATG 1 cut(s) 402
BsrFI RCCGGY 1 cut(s) 141
BsrI ACTGG 1 cut(s) 495
BssAI RCCGGY 1 cut(s) 141
BssMI GATC 3 cut(s) 311, 350, 382
Bst6I CTCTTC 2 cut(s) 162, 426
BstAPI GCANNNNNTGC 1 cut(s) 338
BstBI TTCGAA 1 cut(s) 84
BstC8I GCNNGC 1 cut(s) 60
BstDEI CTNAG 6 cut(s) 12, 47, 54, 161, 408, 476
BstF5I GGATG 2 cut(s) 28, 300
BstHHI GCGC 1 cut(s) 136
BstKTI GATC 3 cut(s) 314, 353, 385
BstMAI GTCTC 3 cut(s) 8, 87, 536
BstMBI GATC 3 cut(s) 311, 350, 382
BstMWI GCNNNNNNNGC 3 cut(s) 142, 230, 338
BstNSI RCATGY 1 cut(s) 175
BstSCI CCNGG 1 cut(s) 96
BstSLI GKGCMC 1 cut(s) 490
BstV1I GCAGC 2 cut(s) 169, 316
BstX2I RGATCY 1 cut(s) 350
BstYI RGATCY 1 cut(s) 350
BsuI GTATCC 1 cut(s) 262
BsuRI GGCC 1 cut(s) 101
BtsCI GGATG 2 cut(s) 28, 300
BtsIMutI CAGTG 2 cut(s) 169, 488
Cac8I GCNNGC 1 cut(s) 60
CaiI CAGNNNCTG 1 cut(s) 73
CfoI GCGC 1 cut(s) 136
Cfr10I RCCGGY 1 cut(s) 141
CviAII CATG 1 cut(s) 172
DdeI CTNAG 6 cut(s) 12, 47, 54, 161, 408, 476
DpnI GATC 3 cut(s) 313, 352, 384
DpnII GATC 3 cut(s) 311, 350, 382
DriI GACNNNNNGTC 1 cut(s) 48
EaeI YGGCCR 1 cut(s) 99
Eam1104I CTCTTC 2 cut(s) 162, 426
Eam1105I GACNNNNNGTC 1 cut(s) 48
EarI CTCTTC 2 cut(s) 162, 426
Ecl136II GAGCTC 2 cut(s) 233, 264
Eco24I GRGCYC 3 cut(s) 235, 266, 302
Eco31I GGTCTC 1 cut(s) 87
Eco53kI GAGCTC 2 cut(s) 233, 264
EcoICRI GAGCTC 2 cut(s) 233, 264
EcoT38I GRGCYC 3 cut(s) 235, 266, 302
FaeI CATG 1 cut(s) 175
FaiI YATR 8 cut(s) 104, 173, 179, 323, 339, 366, 390, 497
FalI AAGNNNNNCTT 2 cut(s) 325, 357
FaqI GGGAC 1 cut(s) 55
FatI CATG 1 cut(s) 171
Fnu4HI GCNGC 3 cut(s) 132, 183, 330
FokI GGATG 2 cut(s) 35, 307
FriOI GRGCYC 3 cut(s) 235, 266, 302
Fsp4HI GCNGC 3 cut(s) 132, 183, 330
FspBI CTAG 1 cut(s) 225
GlaI GCGC 1 cut(s) 135
GluI GCNGC 3 cut(s) 132, 183, 330
GsaI CCCAGC 1 cut(s) 189
HaeIII GGCC 1 cut(s) 101
HapII CCGG 2 cut(s) 98, 142
HhaI GCGC 1 cut(s) 136
Hin1II CATG 1 cut(s) 175
Hin6I GCGC 1 cut(s) 134
HinP1I GCGC 1 cut(s) 134
HinfI GANTC 4 cut(s) 43, 151, 372, 461
HpaII CCGG 2 cut(s) 98, 142
HphI GGTGA 2 cut(s) 271, 404
Hpy166II GTNNAC 1 cut(s) 488
Hpy188I TCNGA 4 cut(s) 9, 36, 268, 477
Hpy188III TCNNGA 3 cut(s) 53, 348, 449
Hpy8I GTNNAC 1 cut(s) 488
Hpy99I CGWCG 1 cut(s) 312
HpyAV CCTTC 1 cut(s) 362
HpyCH4V TGCA 3 cut(s) 332, 488, 557
HpyF10VI GCNNNNNNNGC 3 cut(s) 142, 230, 338
HpyF3I CTNAG 6 cut(s) 12, 47, 54, 161, 408, 476
Hsp92II CATG 1 cut(s) 175
HspAI GCGC 1 cut(s) 134
Kzo9I GATC 3 cut(s) 311, 350, 382
LmnI GCTCC 1 cut(s) 230
LpnPI CCDG 8 cut(s) 53, 59, 66, 111, 130, 155, 171, 476
Lsp1109I GCAGC 2 cut(s) 169, 316
LweI GCATC 1 cut(s) 442
MaeI CTAG 1 cut(s) 225
MalI GATC 3 cut(s) 313, 352, 384
MboI GATC 3 cut(s) 311, 350, 382
MboII GAAGA 2 cut(s) 149, 413
MflI RGATCY 1 cut(s) 350
MhlI GDGCHC 4 cut(s) 235, 266, 302, 490
MluCI AATT 4 cut(s) 236, 245, 289, 536
MlyI GAGTC 3 cut(s) 37, 145, 381
MnlI CCTC 4 cut(s) 120, 165, 279, 471
MseI TTAA 2 cut(s) 438, 565
MslI CAYNNNNRTG 1 cut(s) 176
MspI CCGG 2 cut(s) 98, 142
MspR9I CCNGG 1 cut(s) 98
MwoI GCNNNNNNNGC 3 cut(s) 142, 230, 338
NciI CCSGG 1 cut(s) 98
NdeII GATC 3 cut(s) 311, 350, 382
NlaIII CATG 1 cut(s) 175
NmeAIII GCCGAG 1 cut(s) 107
NspI RCATGY 1 cut(s) 175
NspV TTCGAA 1 cut(s) 84
PfeI GAWTC 1 cut(s) 461
PkrI GCNGC 3 cut(s) 133, 184, 331
PleI GAGTC 3 cut(s) 37, 145, 380
PpsI GAGTC 3 cut(s) 37, 145, 380
Psp124BI GAGCTC 2 cut(s) 235, 266
PspFI CCCAGC 1 cut(s) 185
PstNI CAGNNNCTG 1 cut(s) 73
PsuI RGATCY 1 cut(s) 350
RseI CAYNNNNRTG 1 cut(s) 176
SacI GAGCTC 2 cut(s) 235, 266
SaqAI TTAA 2 cut(s) 438, 565
SatI GCNGC 3 cut(s) 132, 183, 330
Sau3AI GATC 3 cut(s) 311, 350, 382
SchI GAGTC 3 cut(s) 37, 145, 381
ScrFI CCNGG 1 cut(s) 98
SduI GDGCHC 4 cut(s) 235, 266, 302, 490
SetI ASST 5 cut(s) 60, 72, 235, 266, 331
SfaNI GCATC 1 cut(s) 442
SfuI TTCGAA 1 cut(s) 84
SgrAI CRCCGGYG 1 cut(s) 141
SmiMI CAYNNNNRTG 1 cut(s) 176
Sse9I AATT 4 cut(s) 236, 245, 289, 536
SsiI CCGC 1 cut(s) 131
SspMI CTAG 1 cut(s) 225
SstI GAGCTC 2 cut(s) 235, 266
StyD4I CCNGG 1 cut(s) 96
TaqI TCGA 3 cut(s) 84, 149, 307
TasI AATT 4 cut(s) 236, 245, 289, 536
TauI GCSGC 1 cut(s) 134
TfiI GAWTC 1 cut(s) 461
Tru1I TTAA 2 cut(s) 438, 565
Tru9I TTAA 2 cut(s) 438, 565
TscAI CASTG 2 cut(s) 169, 495
TseI GCWGC 2 cut(s) 182, 329
TspDTI ATGAA 5 cut(s) 181, 229, 381, 391, 453
TspGWI ACGGA 1 cut(s) 102
TspRI CASTG 2 cut(s) 169, 495
VneI GTGCAC 1 cut(s) 486
XceI RCATGY 1 cut(s) 175
XcmI CCANNNNNNNNNTGG 2 cut(s) 70, 175
XspI CTAG 1 cut(s) 225
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.