AT1G53200

TAF RNA Polymerase I subunit A

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0002593
Physical Location & Seq
Reverse (-)
19840368 .. 19843499
3132 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G53200.2

Sequence Viewer

Length: 1842 bp
ATGGTGGAAACCGAAGAGAAAACTGATAAGCTTGAGAAGATTAAAGTGGAAACCGAAGAGAAAACTGATAAGCTTGAGAAGATTAAAGCTAAGCGTCGTCGCGTGAGTAGCTCAGAAATCGACTCTGATACACAAAAGTACAAGAGAATTCAACGCTGCAGAGCGAAACCATCTTATCTTCTATGTATTGGGCCAAAGTCAAGCCGAAGTGAGTACCTCAATAGATTACCAGGATTACTTCGTGAGCTACTTCGTAATAGACACTGGAATGATGCAAGCCGTGTGCTTTCTGTTCTGATGAAAGGGACAATTAACGATCCTTGTCCGAAGATGAATCGCCTCAAATACGAGGCTCATATACAAATTGTGAGTCACTCGGAAACTAATAAAAACAAAGCTGATGAGATTGGAAGAATATATGATACTTGGATTGGGCAGATTGGTAAACAACATAAAGAGGAGAGGCTCTTGGTTTGGTACGAGCAAATTTGTCATTTTATTGAGCATGAGATGAACAATGAGGCCTATAGTACTGTAATCAGCTTAATGCAGAACCGTGATTTCGCAATGCTTCCACGGGCCAATCTGTTTATAGGAATCTCATTCTACAAGATGTGGTGTAATAAATTCTTGAAGGAGTTGCAGCCTGAAGATGCAGATGACAATGGAAGCGTATCCAACATATCGGAATCAGGATCTGGTAGTCTGGTTGAGTGTTCAGGCAGGGATGAGTCGGTGTGCTCTTTGGCGTCAGAGGTTTCTGCGAGAAAAGATTCAGAGACTTCCGTCATGAAAAATAAAAAAGTTTCCCATTTGTCTATCAGTGACTCGGAGACAAGGATGGATACGAAGGTAAAAGTGATGAGTACTCCCTATGTTACACCTCCACCACAACTCTATGCGATCTCTGAAGAAAACGAAGCCTCTTTGGGAGATGGAATTGTTGAATTTGATCCCACTGTTATTAATATTCTTGGTGACATGGATCCATGGTTGCTTCCCTTTAAACCACCAGAAGATCCGGATTGCTACAGAAAGATTGTCAATGATTCTTATTATAAGGAAGCAGTGAAATATATGCGGCAAACTCTTCAGTCCCCGCCCCATGTATCTTTGGCTGCATTACATCCACTTGTACAGATTCTGTTAATCGGAGGTCATGTAGATGAAGCGATGAAAGTGGTCGAGGAGATGTGCAACAAAATACATGACGTAAAACCTTTCAGGATTAAGGCCCTAATGATGGAGAAATTTCATCGTAACAGTGACATGCTCGCAAAATGCTATGAAGATATCTTAAAGATTGATCCTTGTTGTATAACTACCCTAAAGAAGCTTATTGGAATGTGCTTAGAAGATGAGTATAGTAGAGAGTCGCTTACCGAAATGATAGCGTTGCATGTAGAAGCTTCTTTTCCTGAGCCTGAAATTTGGAAAGAGTTAGCCTCTTGCTTCAGTAACTTCTTTGAGAATCTTGATGAAGACCGATTGTCAGTATGCCTTGACGGATCTGAAGATAAACGGAATCCACAAACGTATTCTGTTCGATACAACCCAACACCAAAAACGTTCACCAAGACATCATGGACTCTTCGGGCTAAGTGGTGGCTAAACCGCCATTTCTCCCCGCAAATGCTAGAGACAGAAATAAAAAACGTTACATTGACAGGAGATTGGGAGATGATGACTTACAAAGCCGCTTGTGCAAGTTATATCTACGGACGAGAGTTCGGTTATGTTACAAAAGTGTACGAACTGTTAAAGAGTAGCAATAAGCGAGAGTTTTTCAAATTCTTGAGAGAACACAGAGTGAATGGGAACAAGATGTACAATTTTGAATAG
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
TAF1_subA

Protein Analysis

613

Amino Acids

71.14

Weight (kDa)

6.48

Isoelectric Point (pI)

45.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF1_subA PF14929 14 - 446 9.5e-71 TAF RNA Polymerase I subunit A
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1059
AccII CGCG 1 cut(s) 102
AccIII TCCGGA 1 cut(s) 1021
AciI CCGC 5 cut(s) 1081, 1100, 1615, 1628, 1698
AclI AACGTT 2 cut(s) 1568, 1656
AclWI GGATC 8 cut(s) 311, 703, 947, 980, 993, 1013, 1301, 1516
AcsI RAATTY 7 cut(s) 147, 486, 626, 947, 1250, 1428, 1790
AcuI CTGAAG 5 cut(s) 669, 930, 1076, 1438, 1533
AcyI GRCGYC 1 cut(s) 749
AdeI CACNNNGTG 1 cut(s) 1810
AfaI GTAC 8 cut(s) 140, 215, 479, 532, 868, 1137, 1751, 1829
AfiI CCNNNNNNNGG 1 cut(s) 1243
AgsI TTSAA 5 cut(s) 152, 634, 947, 1789, 1838
AhdI GACNNNNNGTC 1 cut(s) 1489
AjnI CCWGG 1 cut(s) 229
AluBI AGCT 9 cut(s) 31, 73, 89, 111, 247, 398, 543, 1336, 1409
AluI AGCT 9 cut(s) 31, 73, 89, 111, 247, 398, 543, 1336, 1409
Alw21I GWGCWC 1 cut(s) 743
Alw26I GTCTC 3 cut(s) 773, 827, 1634
AlwI GGATC 8 cut(s) 311, 703, 947, 980, 993, 1013, 1301, 1516
AlwNI CAGNNNCTG 2 cut(s) 698, 1144
Aor13HI TCCGGA 1 cut(s) 1021
AoxI GGCC 4 cut(s) 191, 522, 579, 1233
ApeKI GCWGC 3 cut(s) 156, 643, 1118
ApoI RAATTY 7 cut(s) 147, 486, 626, 947, 1250, 1428, 1790
ArsI GACNNNNNNTTYG 2 cut(s) 355, 387
AseI ATTAAT 1 cut(s) 966
Asp700I GAANNNNTTC 1 cut(s) 772
AspS9I GGNCC 3 cut(s) 191, 579, 1234
AsuHPI GGTGA 2 cut(s) 989, 1564
BaeI ACNNNNGTAYC 2 cut(s) 837, 870
BamHI GGATCC 1 cut(s) 985
BbsI GAAGAC 1 cut(s) 1488
Bbv12I GWGCWC 1 cut(s) 743
BbvI GCAGC 3 cut(s) 143, 655, 1105
BccI CCATC 4 cut(s) 178, 835, 929, 1237
BceAI ACGGC 1 cut(s) 264
BciT130I CCWGG 1 cut(s) 231
BciVI GTATCC 2 cut(s) 685, 838
BcoDI GTCTC 3 cut(s) 773, 827, 1634
BfaI CTAG 1 cut(s) 1637
BfmI CTRYAG 3 cut(s) 157, 526, 1030
BfuI GTATCC 2 cut(s) 685, 838
BisI GCNGC 5 cut(s) 157, 644, 1082, 1119, 1698
BlpI GCTNAGC 1 cut(s) 90
BlsI GCNGC 5 cut(s) 158, 645, 1083, 1120, 1699
BmcAI AGTACT 2 cut(s) 532, 868
Bme1390I CCNGG 1 cut(s) 231
BmeRI GACNNNNNGTC 1 cut(s) 1489
BmgT120I GGNCC 3 cut(s) 191, 579, 1234
BmiI GGNNCC 1 cut(s) 987
BmrFI CCNGG 1 cut(s) 231
BmsI GCATC 2 cut(s) 262, 643
BoxI GACNNNNGTC 1 cut(s) 785
BpiI GAAGAC 1 cut(s) 1488
BplI GAGNNNNNCTC 2 cut(s) 1430, 1462
Bpu10I CCTNAGC 1 cut(s) 1419
Bpu1102I GCTNAGC 1 cut(s) 90
BpuEI CTTGAG 3 cut(s) 53, 95, 1816
BsaHI GRCGYC 1 cut(s) 749
BsaJI CCNNGG 2 cut(s) 575, 989
BsaWI WCCGGW 1 cut(s) 1021
BsaXI ACNNNNNCTCC 2 cut(s) 1146, 1176
Bsc4I CCNNNNNNNGG 1 cut(s) 1243
Bse1I ACTGG 1 cut(s) 269
Bse3DI GCAATG 1 cut(s) 573
BseAI TCCGGA 1 cut(s) 1021
BseBI CCWGG 1 cut(s) 231
BseDI CCNNGG 2 cut(s) 575, 989
BseGI GGATG 3 cut(s) 733, 846, 1126
BseLI CCNNNNNNNGG 1 cut(s) 1243
BseMI GCAATG 1 cut(s) 573
BseMII CTCAG 2 cut(s) 126, 1410
BseNI ACTGG 1 cut(s) 269
BseRI GAGGAG 2 cut(s) 473, 1202
BseXI GCAGC 3 cut(s) 143, 655, 1105
Bsh1236I CGCG 1 cut(s) 102
BshFI GGCC 4 cut(s) 193, 524, 581, 1235
BsiHKAI GWGCWC 1 cut(s) 743
BsiSI CCGG 1 cut(s) 1022
BslFI GGGAC 2 cut(s) 319, 1081
BslI CCNNNNNNNGG 1 cut(s) 1243
BsmAI GTCTC 3 cut(s) 773, 827, 1634
BsmFI GGGAC 2 cut(s) 319, 1081
BsnI GGCC 4 cut(s) 193, 524, 581, 1235
Bsp1286I GDGCHC 1 cut(s) 743
Bsp13I TCCGGA 1 cut(s) 1021
Bsp1407I TGTACA 2 cut(s) 1135, 1827
Bsp143I GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
Bsp1720I GCTNAGC 1 cut(s) 90
Bsp19I CCATGG 1 cut(s) 989
BspACI CCGC 5 cut(s) 1081, 1100, 1615, 1628, 1698
BspANI GGCC 4 cut(s) 193, 524, 581, 1235
BspCNI CTCAG 2 cut(s) 125, 1411
BspEI TCCGGA 1 cut(s) 1021
BspFNI CGCG 1 cut(s) 102
BspHI TCATGA 1 cut(s) 789
BspLI GGNNCC 1 cut(s) 987
BspMAI CTGCAG 1 cut(s) 161
BspPI GGATC 8 cut(s) 311, 703, 947, 980, 993, 1013, 1301, 1516
BsrDI GCAATG 1 cut(s) 573
BsrGI TGTACA 2 cut(s) 1135, 1827
BsrI ACTGG 1 cut(s) 269
BssECI CCNNGG 2 cut(s) 575, 989
BssMI GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
BssNI GRCGYC 1 cut(s) 749
BssT1I CCWWGG 1 cut(s) 989
Bst2UI CCWGG 1 cut(s) 231
Bst4CI ACNGT 5 cut(s) 535, 557, 961, 1265, 1758
Bst6I CTCTTC 4 cut(s) 9, 51, 1095, 1596
BstACI GRCGYC 1 cut(s) 749
BstAUI TGTACA 2 cut(s) 1135, 1827
BstC8I GCNNGC 2 cut(s) 277, 1275
BstDEI CTNAG 5 cut(s) 90, 112, 1351, 1419, 1599
BstDSI CCRYGG 2 cut(s) 575, 989
BstF5I GGATG 3 cut(s) 733, 846, 1126
BstFNI CGCG 1 cut(s) 102
BstKTI GATC 8 cut(s) 319, 698, 906, 955, 988, 1021, 1309, 1511
BstMAI GTCTC 3 cut(s) 773, 827, 1634
BstMBI GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
BstMWI GCNNNNNNNGC 2 cut(s) 108, 1703
BstNI CCWGG 1 cut(s) 231
BstNSI RCATGY 2 cut(s) 1273, 1403
BstPAI GACNNNNGTC 1 cut(s) 785
BstSCI CCNGG 1 cut(s) 229
BstSFI CTRYAG 3 cut(s) 157, 526, 1030
BstUI CGCG 1 cut(s) 102
BstV1I GCAGC 3 cut(s) 143, 655, 1105
BstV2I GAAGAC 1 cut(s) 1488
BstX2I RGATCY 4 cut(s) 695, 985, 1018, 1508
BstYI RGATCY 4 cut(s) 695, 985, 1018, 1508
BsuI GTATCC 2 cut(s) 685, 838
BsuRI GGCC 4 cut(s) 193, 524, 581, 1235
BtgI CCRYGG 2 cut(s) 575, 989
BtgZI GCGATG 1 cut(s) 1187
BtsCI GGATG 3 cut(s) 733, 846, 1126
BtsI GCAGTG 1 cut(s) 1074
BtsIMutI CAGTG 5 cut(s) 262, 829, 957, 1074, 1270
Cac8I GCNNGC 2 cut(s) 277, 1275
CaiI CAGNNNCTG 2 cut(s) 698, 1144
CciI TCATGA 1 cut(s) 789
Cfr13I GGNCC 3 cut(s) 191, 579, 1234
CseI GACGC 2 cut(s) 83, 738
Csp6I GTAC 8 cut(s) 139, 214, 478, 531, 867, 1136, 1750, 1828
CviQI GTAC 8 cut(s) 139, 214, 478, 531, 867, 1136, 1750, 1828
DdeI CTNAG 5 cut(s) 90, 112, 1351, 1419, 1599
DpnI GATC 8 cut(s) 318, 697, 905, 954, 987, 1020, 1308, 1510
DpnII GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
DraI TTTAAA 1 cut(s) 1006
DraIII CACNNNGTG 1 cut(s) 1810
DriI GACNNNNNGTC 1 cut(s) 1489
Eam1104I CTCTTC 4 cut(s) 9, 51, 1095, 1596
Eam1105I GACNNNNNGTC 1 cut(s) 1489
EarI CTCTTC 4 cut(s) 9, 51, 1095, 1596
Eco130I CCWWGG 1 cut(s) 989
Eco147I AGGCCT 1 cut(s) 524
Eco32I GATATC 1 cut(s) 1294
Eco57I CTGAAG 5 cut(s) 669, 930, 1076, 1438, 1533
EcoO109I RGGNCCY 1 cut(s) 1234
EcoRI GAATTC 1 cut(s) 147
EcoRII CCWGG 1 cut(s) 229
EcoRV GATATC 1 cut(s) 1294
EcoT14I CCWWGG 1 cut(s) 989
ErhI CCWWGG 1 cut(s) 989
FaqI GGGAC 2 cut(s) 319, 1081
FauI CCCGC 2 cut(s) 1107, 1635
Fnu4HI GCNGC 5 cut(s) 157, 644, 1082, 1119, 1698
FokI GGATG 3 cut(s) 740, 853, 1113
Fsp4HI GCNGC 5 cut(s) 157, 644, 1082, 1119, 1698
FspBI CTAG 1 cut(s) 1637
GluI GCNGC 5 cut(s) 157, 644, 1082, 1119, 1698
HaeIII GGCC 4 cut(s) 193, 524, 581, 1235
HapII CCGG 1 cut(s) 1022
HgaI GACGC 2 cut(s) 83, 738
Hin1I GRCGYC 1 cut(s) 749
HindIII AAGCTT 4 cut(s) 29, 71, 1334, 1407
HpaII CCGG 1 cut(s) 1022
HphI GGTGA 2 cut(s) 989, 1564
Hpy166II GTNNAC 3 cut(s) 446, 1572, 1750
Hpy188III TCNNGA 9 cut(s) 242, 631, 693, 790, 1022, 1225, 1418, 1475, 1795
Hpy8I GTNNAC 3 cut(s) 446, 1572, 1750
Hpy99I CGWCG 2 cut(s) 99, 102
HpyAV CCTTC 2 cut(s) 628, 844
HpyCH4III ACNGT 5 cut(s) 535, 557, 961, 1265, 1758
HpyCH4IV ACGT 4 cut(s) 1212, 1535, 1568, 1656
HpyCH4V TGCA 9 cut(s) 159, 275, 550, 643, 656, 1121, 1197, 1399, 1706
HpyF10VI GCNNNNNNNGC 2 cut(s) 108, 1703
HpyF3I CTNAG 5 cut(s) 90, 112, 1351, 1419, 1599
HpySE526I ACGT 4 cut(s) 1212, 1535, 1568, 1656
Hsp92I GRCGYC 1 cut(s) 749
Kpn2I TCCGGA 1 cut(s) 1021
Kzo9I GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
Lsp1109I GCAGC 3 cut(s) 143, 655, 1105
LweI GCATC 2 cut(s) 262, 643
MaeI CTAG 1 cut(s) 1637
MaeII ACGT 4 cut(s) 1212, 1535, 1568, 1656
MaeIII GTNAC 9 cut(s) 371, 824, 877, 977, 1259, 1265, 1457, 1657, 1738
MalI GATC 8 cut(s) 318, 697, 905, 954, 987, 1020, 1308, 1510
MboI GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
MflI RGATCY 4 cut(s) 695, 985, 1018, 1508
MhlI GDGCHC 1 cut(s) 743
MlyI GAGTC 6 cut(s) 116, 379, 740, 821, 1382, 1582
MmeI TCCRAC 1 cut(s) 702
MroI TCCGGA 1 cut(s) 1021
MroXI GAANNNNTTC 1 cut(s) 772
MslI CAYNNNNRTG 2 cut(s) 267, 1164
MspI CCGG 1 cut(s) 1022
MspR9I CCNGG 1 cut(s) 231
MvaI CCWGG 1 cut(s) 231
MvnI CGCG 1 cut(s) 102
MwoI GCNNNNNNNGC 2 cut(s) 108, 1703
NcoI CCATGG 1 cut(s) 989
NdeII GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
NlaIV GGNNCC 1 cut(s) 987
NmuCI GTSAC 4 cut(s) 371, 824, 977, 1265
NspI RCATGY 2 cut(s) 1273, 1403
PagI TCATGA 1 cut(s) 789
PceI AGGCCT 1 cut(s) 524
PdmI GAANNNNTTC 1 cut(s) 772
PfeI GAWTC 8 cut(s) 334, 597, 689, 773, 1049, 1141, 1471, 1525
PkrI GCNGC 5 cut(s) 158, 645, 1083, 1120, 1699
PleI GAGTC 6 cut(s) 116, 378, 739, 821, 1381, 1582
PpsI GAGTC 6 cut(s) 116, 378, 739, 821, 1381, 1582
PshAI GACNNNNGTC 1 cut(s) 785
PshBI ATTAAT 1 cut(s) 966
PsiI TTATAA 1 cut(s) 1059
Psp1406I AACGTT 2 cut(s) 1568, 1656
Psp6I CCWGG 1 cut(s) 229
PspGI CCWGG 1 cut(s) 229
PspN4I GGNNCC 1 cut(s) 987
PspPI GGNCC 3 cut(s) 191, 579, 1234
PsrI GAACNNNNNNTAC 1 cut(s) 1811
PstI CTGCAG 1 cut(s) 161
PstNI CAGNNNCTG 2 cut(s) 698, 1144
PsuI RGATCY 4 cut(s) 695, 985, 1018, 1508
RsaI GTAC 8 cut(s) 140, 215, 479, 532, 868, 1137, 1751, 1829
RsaNI GTAC 8 cut(s) 139, 214, 478, 531, 867, 1136, 1750, 1828
RseI CAYNNNNRTG 2 cut(s) 267, 1164
SatI GCNGC 5 cut(s) 157, 644, 1082, 1119, 1698
Sau3AI GATC 8 cut(s) 316, 695, 903, 952, 985, 1018, 1306, 1508
Sau96I GGNCC 3 cut(s) 191, 579, 1234
ScaI AGTACT 2 cut(s) 532, 868
SchI GAGTC 6 cut(s) 116, 379, 740, 821, 1382, 1582
ScrFI CCNGG 1 cut(s) 231
SduI GDGCHC 1 cut(s) 743
SfaNI GCATC 2 cut(s) 262, 643
SfcI CTRYAG 3 cut(s) 157, 526, 1030
SmiMI CAYNNNNRTG 2 cut(s) 267, 1164
SmlI CTYRAG 3 cut(s) 32, 74, 1795
SmoI CTYRAG 3 cut(s) 32, 74, 1795
SseBI AGGCCT 1 cut(s) 524
SsiI CCGC 5 cut(s) 1081, 1100, 1615, 1628, 1698
SspI AATATT 1 cut(s) 970
SspMI CTAG 1 cut(s) 1637
StuI AGGCCT 1 cut(s) 524
StyD4I CCNGG 1 cut(s) 229
StyI CCWWGG 1 cut(s) 989
TaaI ACNGT 5 cut(s) 535, 557, 961, 1265, 1758
TaiI ACGT 4 cut(s) 1215, 1538, 1571, 1659
TaqI TCGA 3 cut(s) 120, 1185, 1546
TaqII GACCGA 1 cut(s) 1500
TatI WGTACW 5 cut(s) 138, 530, 866, 1135, 1827
TauI GCSGC 2 cut(s) 1084, 1700
TfiI GAWTC 8 cut(s) 334, 597, 689, 773, 1049, 1141, 1471, 1525
TscAI CASTG 5 cut(s) 269, 829, 964, 1074, 1270
TseFI GTSAC 4 cut(s) 371, 824, 977, 1265
TseI GCWGC 3 cut(s) 156, 643, 1118
Tsp45I GTSAC 4 cut(s) 371, 824, 977, 1265
TspDTI ATGAA 9 cut(s) 314, 347, 527, 806, 1182, 1190, 1244, 1302, 1494
TspGWI ACGGA 4 cut(s) 775, 1521, 1537, 1734
TspRI CASTG 5 cut(s) 269, 829, 964, 1074, 1270
VspI ATTAAT 1 cut(s) 966
XapI RAATTY 7 cut(s) 147, 486, 626, 947, 1250, 1428, 1790
XceI RCATGY 2 cut(s) 1273, 1403
XmnI GAANNNNTTC 1 cut(s) 772
XspI CTAG 1 cut(s) 1637
ZrmI AGTACT 2 cut(s) 532, 868
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.