Rh5AG098600

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_samantha
Chr5A
OG0008441
Physical Location & Seq
Forward (+)
9141924 .. 9142406
483 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG098600.1

Sequence Viewer

Length: 348 bp
ATGGCGACCCTTTACAGAAGCTCGGGGATCGGAAAATGTCTGGTTGAGGCTTTGGAAGAGATGCTTGAGAACGGAACTCTCACCGCCGAACTTGCCTTTCAGGTTCTGCTCCATTTCGACGCGTCTATGGCTCAAGCTTTCAGAACCCGAGTGAAAAACAAAGTCTCCATCAAGGGACATCTGCATACCTACAATTTCTGCAACCATGTTTGGAACTTCTCCGTACACGATGCTGTGGTCAGATACCAGAATAATATTGGCGCCACCGTCGAGGAGAACGTTGACCGCCTTAAAATAGTGGCCTGCGACCCAAAAAGCCCTGCCGACCTTGTAATATCAATCTCGTGA
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

115

Amino Acids

12.82

Weight (kDa)

6.5

Isoelectric Point (pI)

25.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIA_gamma_N PF02268 3 - 46 3.5e-14 Transcription initiation factor IIA, gamma subunit, helical domain
TFIIA_gamma_C PF02751 58 - 103 5.1e-16 Transcription initiation factor IIA, gamma subunit
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)
AccB1I GGYRCC 1 cut(s) 260
AccII CGCG 1 cut(s) 122
AciI CCGC 2 cut(s) 84, 286
AclI AACGTT 1 cut(s) 279
AclWI GGATC 1 cut(s) 35
AcyI GRCGYC 1 cut(s) 261
AfaI GTAC 1 cut(s) 225
AflIII ACRYGT 1 cut(s) 120
AluBI AGCT 2 cut(s) 21, 137
AluI AGCT 2 cut(s) 21, 137
Alw26I GTCTC 1 cut(s) 169
AlwI GGATC 1 cut(s) 35
AlwNI CAGNNNCTG 1 cut(s) 106
Ama87I CYCGRG 2 cut(s) 22, 147
AoxI GGCC 1 cut(s) 300
AspLEI GCGC 1 cut(s) 263
AsuHPI GGTGA 1 cut(s) 73
AvaI CYCGRG 2 cut(s) 22, 147
BanI GGYRCC 1 cut(s) 260
BauI CACGAG 1 cut(s) 343
BccI CCATC 1 cut(s) 176
BcoDI GTCTC 1 cut(s) 169
BfoI RGCGCY 1 cut(s) 264
BmeT110I CYCGRG 2 cut(s) 22, 147
BmiI GGNNCC 1 cut(s) 262
BmsI GCATC 2 cut(s) 51, 220
BpuEI CTTGAG 2 cut(s) 86, 117
BsaHI GRCGYC 1 cut(s) 261
BsaXI ACNNNNNCTCC 2 cut(s) 149, 179
BseRI GAGGAG 1 cut(s) 287
Bsh1236I CGCG 1 cut(s) 122
BshFI GGCC 1 cut(s) 302
BshNI GGYRCC 1 cut(s) 260
BsiHKCI CYCGRG 2 cut(s) 22, 147
BslFI GGGAC 1 cut(s) 189
BsmAI GTCTC 1 cut(s) 169
BsmFI GGGAC 1 cut(s) 189
BsnI GGCC 1 cut(s) 302
BsoBI CYCGRG 2 cut(s) 22, 147
Bsp143I GATC 1 cut(s) 27
BspACI CCGC 2 cut(s) 84, 286
BspANI GGCC 1 cut(s) 302
BspFNI CGCG 1 cut(s) 122
BspLI GGNNCC 1 cut(s) 262
BspPI GGATC 1 cut(s) 35
BspT107I GGYRCC 1 cut(s) 260
BssMI GATC 1 cut(s) 27
BssNI GRCGYC 1 cut(s) 261
BssSI CACGAG 1 cut(s) 343
Bst2BI CACGAG 1 cut(s) 343
Bst4CI ACNGT 1 cut(s) 268
Bst6I CTCTTC 1 cut(s) 51
BstACI GRCGYC 1 cut(s) 261
BstC8I GCNNGC 1 cut(s) 304
BstFNI CGCG 1 cut(s) 122
BstH2I RGCGCY 1 cut(s) 264
BstHHI GCGC 1 cut(s) 263
BstKTI GATC 1 cut(s) 30
BstMAI GTCTC 1 cut(s) 169
BstMBI GATC 1 cut(s) 27
BstMWI GCNNNNNNNGC 2 cut(s) 92, 128
BstUI CGCG 1 cut(s) 122
BsuRI GGCC 1 cut(s) 302
Cac8I GCNNGC 1 cut(s) 304
CaiI CAGNNNCTG 1 cut(s) 106
CfoI GCGC 1 cut(s) 263
CseI GACGC 2 cut(s) 111, 128
Csp6I GTAC 1 cut(s) 224
CviAII CATG 1 cut(s) 206
CviJI RGCY 6 cut(s) 21, 50, 131, 137, 302, 318
CviKI_1 RGCY 6 cut(s) 21, 50, 131, 137, 302, 318
CviQI GTAC 1 cut(s) 224
DinI GGCGCC 1 cut(s) 262
DpnI GATC 1 cut(s) 29
DpnII GATC 1 cut(s) 27
Eam1104I CTCTTC 1 cut(s) 51
EarI CTCTTC 1 cut(s) 51
Eco88I CYCGRG 2 cut(s) 22, 147
EgeI GGCGCC 1 cut(s) 262
EheI GGCGCC 1 cut(s) 262
FaeI CATG 1 cut(s) 209
FaiI YATR 3 cut(s) 128, 186, 207
FalI AAGNNNNNCTT 2 cut(s) 48, 80
FaqI GGGAC 1 cut(s) 189
FatI CATG 1 cut(s) 205
GlaI GCGC 1 cut(s) 262
HaeII RGCGCY 1 cut(s) 264
HaeIII GGCC 1 cut(s) 302
HgaI GACGC 2 cut(s) 111, 128
HhaI GCGC 1 cut(s) 263
Hin1I GRCGYC 1 cut(s) 261
Hin1II CATG 1 cut(s) 209
Hin6I GCGC 1 cut(s) 261
HinP1I GCGC 1 cut(s) 261
HincII GTYRAC 1 cut(s) 283
HindII GTYRAC 1 cut(s) 283
HindIII AAGCTT 1 cut(s) 135
HphI GGTGA 1 cut(s) 73
Hpy166II GTNNAC 2 cut(s) 226, 283
Hpy188I TCNGA 3 cut(s) 32, 143, 242
Hpy188III TCNNGA 1 cut(s) 345
Hpy8I GTNNAC 2 cut(s) 226, 283
Hpy99I CGWCG 2 cut(s) 122, 272
HpyCH4III ACNGT 1 cut(s) 268
HpyCH4IV ACGT 1 cut(s) 279
HpyCH4V TGCA 2 cut(s) 184, 201
HpyF10VI GCNNNNNNNGC 2 cut(s) 92, 128
HpySE526I ACGT 1 cut(s) 279
Hsp92I GRCGYC 1 cut(s) 261
Hsp92II CATG 1 cut(s) 209
HspAI GCGC 1 cut(s) 261
KasI GGCGCC 1 cut(s) 260
Kzo9I GATC 1 cut(s) 27
LmnI GCTCC 1 cut(s) 114
LpnPI CCDG 5 cut(s) 26, 86, 260, 316, 333
LweI GCATC 2 cut(s) 51, 220
MaeII ACGT 1 cut(s) 279
MalI GATC 1 cut(s) 29
MboI GATC 1 cut(s) 27
MboII GAAGA 1 cut(s) 68
MluCI AATT 1 cut(s) 193
MluI ACGCGT 1 cut(s) 120
Mly113I GGCGCC 1 cut(s) 261
MnlI CCTC 2 cut(s) 40, 265
MseI TTAA 1 cut(s) 291
MvnI CGCG 1 cut(s) 122
MwoI GCNNNNNNNGC 2 cut(s) 92, 128
NarI GGCGCC 1 cut(s) 261
NdeII GATC 1 cut(s) 27
NlaIII CATG 1 cut(s) 209
NlaIV GGNNCC 1 cut(s) 262
PcsI WCGNNNNNNNCGW 1 cut(s) 276
PluTI GGCGCC 1 cut(s) 264
Psp1406I AACGTT 1 cut(s) 279
PspN4I GGNNCC 1 cut(s) 262
PstNI CAGNNNCTG 1 cut(s) 106
RsaI GTAC 1 cut(s) 225
RsaNI GTAC 1 cut(s) 224
SaqAI TTAA 1 cut(s) 291
Sau3AI GATC 1 cut(s) 27
SetI ASST 6 cut(s) 23, 105, 139, 191, 282, 330
SfaNI GCATC 2 cut(s) 51, 220
SfoI GGCGCC 1 cut(s) 262
SmlI CTYRAG 2 cut(s) 65, 132
SmoI CTYRAG 2 cut(s) 65, 132
Sse9I AATT 1 cut(s) 193
SsiI CCGC 2 cut(s) 84, 286
SspDI GGCGCC 1 cut(s) 260
SspI AATATT 1 cut(s) 256
TaaI ACNGT 1 cut(s) 268
TaiI ACGT 1 cut(s) 282
TaqI TCGA 2 cut(s) 117, 270
TasI AATT 1 cut(s) 193
Tru1I TTAA 1 cut(s) 291
Tru9I TTAA 1 cut(s) 291
TspGWI ACGGA 2 cut(s) 87, 211
XcmI CCANNNNNNNNNTGG 1 cut(s) 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.