AT4G12610

Transcription initiation factor IIF

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0001724
Physical Location & Seq
Forward (+)
7454722 .. 7458422
3701 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G12610.1

Sequence Viewer

Length: 1632 bp
ATGTCGAACTGTTTGCAATTGAATACGTCTTGTGTTGGTTGCGGATCACAATCCGATTTATATGGAAGCTCTTGTAGACACATGACGTTGTGTTTGAAGTGTGGTAGAACCATGGCGCAGAATAAATCTAAGTGTCACGAGTGTGGAACCGTCGTTACACGTTTGATTCGGGAGTATAACGTTCGTGCTGCGGCACCTACGGATAAGAACTACTTCATTGGTAGATTTGTGACTGGTCTTCCTAATTTCAAGAAAGGTTCTGAGAATAAATGGTCTCTTCGTAAAGATATACCGCAAGGTCGTCAGTTTACAGATGCACAACGGGAGAAGTTAAAGAACAAACCTTGGATCTTGGAAGATGAAACTGGACAGTTTCAGTACCAGGGACATCTTGAAGGCTCTCAGTCTGCTACTTACTATCTCTTAGTGATGCAGAACAAAGAGTTTGTTGCGATTCCTGCTGGTTCTTGGTATAACTTCAACAAGGTTGCACAGTATAAGCAACTTACATTGGAAGAAGCGGAAGAGAAGATGAAGAATCGGAGAAAAACGGCTGATGGTTATCAAAGGTGGATGATGAAAGCTGCGAATAATGGTCCAGCGTTGTTTGGAGAAGTGGATAATGAAAAGGAGAGCGGTGGAACCAGTGGAGGTGGTGGTAGGGGTCGTAAGAAGTCATCAGGCGGTGATGAAGAGGAAGGAAATGTTTCTGACAGAGGGGATGAAGATGAAGAGGAAGAGGCGTCACGGAAAAGTAGACTTGGACTTAATAGAAAGAGTAATGATGATGATGATGAAGAAGGTCCAAGGGGTGGTGATCTTGACATGGATGATGATGACATTGAGAAGGGGGATGACTGGGAGCACGAGGAAATTTTCACGGATGATGATGAAGCAGTCGGTAATGATCCTGAGGAACGTGAAGACCTTCTGGCTCCTGAAATTCCTGCTCCTCCAGAAATAAAGCAGGATGAGGATGATGAAGAAAATGAAGAAGAGGAGGGAGGTTTGAGCAAATCTGGTAAAGAGTTGAAGAAACTGCTTGGTAAGGCTAATGGTTTGGACGAATCTGATGAAGACGATGATGATGATTCTGATGATGAGGAGGAGACAAACTACGGTACAGTTACGAACTCAAAACAGAAGGAGGCGGCGAAAGAAGAACCTGTTGATAATGCACCTGCAAAACCTGCACCATCTGGACCTCCTCGTGGAACACCTCCTGCAAAACCATCCAAGGGAAAGAGAAAACTAAACGACGGCGATTCTAAAAAGCCTAGCAGCTCTGTTCAAAAGAAAGTGAAGACTGAAAATGATCCGAAATCTTCTTTGAAAGAAGAGAGAGCAAACACAGTTTCCAAATCCAACACACCAACAAAAGCTGTGAAAGCTGAACCAGCTTCAGCTCCTGCATCATCATCCTCAGCTGCGACTGGGCCTGTGACTGAAGATGAAATCCGCGCTGTTCTGATGGAAAAGAAGCAAGTCACTACACAGGATCTTGTTTCCAGGTTTAAGGCAAGACTTAAGACCAAAGAGGACAAGAATGCCTTTGCCAATATTCTGAGGAAGATCTCAAAGATACAGAAGAACGCTGGTTCTCAAAACTTCGTCGTTTTGAGAGAAAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0008022
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_alpha

Protein Analysis

543

Amino Acids

60.06

Weight (kDa)

5.02

Isoelectric Point (pI)

49.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 47 - 542 2.7e-168 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1189
Acc36I ACCTGC 2 cut(s) 1189, 1198
AccB1I GGYRCC 1 cut(s) 193
AccB7I CCANNNNNTGG 1 cut(s) 812
AccBSI CCGCTC 1 cut(s) 636
AccI GTMKAC 2 cut(s) 76, 757
AccII CGCG 1 cut(s) 1461
AciI CCGC 8 cut(s) 42, 191, 293, 521, 636, 684, 1151, 1459
AclI AACGTT 1 cut(s) 180
AclWI GGATC 5 cut(s) 52, 356, 902, 1310, 1506
AcsI RAATTY 2 cut(s) 873, 942
AcuI CTGAAG 2 cut(s) 1386, 1467
AcyI GRCGYC 1 cut(s) 743
AfaI GTAC 2 cut(s) 380, 1123
AfiI CCNNNNNNNGG 3 cut(s) 812, 1211, 1238
AflII CTTAAG 1 cut(s) 1526
AflIII ACRYGT 1 cut(s) 158
AgsI TTSAA 8 cut(s) 22, 97, 250, 395, 481, 1033, 1292, 1333
AjnI CCWGG 2 cut(s) 381, 1508
AleI CACNNNNGTG 1 cut(s) 141
AluBI AGCT 8 cut(s) 69, 584, 1284, 1382, 1391, 1400, 1406, 1427
AluI AGCT 8 cut(s) 69, 584, 1284, 1382, 1391, 1400, 1406, 1427
Alw21I GWGCWC 1 cut(s) 867
Alw26I GTCTC 2 cut(s) 279, 1103
AlwI GGATC 5 cut(s) 52, 356, 902, 1310, 1506
AlwNI CAGNNNCTG 1 cut(s) 1409
AoxI GGCC 1 cut(s) 1436
ApeKI GCWGC 4 cut(s) 188, 584, 1281, 1427
ApoI RAATTY 2 cut(s) 873, 942
ArsI GACNNNNNNTTYG 2 cut(s) 76, 108
Asp700I GAANNNNTTC 3 cut(s) 212, 706, 927
AspLEI GCGC 2 cut(s) 118, 1463
AspS9I GGNCC 4 cut(s) 596, 803, 1202, 1436
AsuHPI GGTGA 2 cut(s) 698, 827
AvaII GGWCC 3 cut(s) 596, 803, 1202
AxyI CCTNAGG 1 cut(s) 912
BanI GGYRCC 1 cut(s) 193
BauI CACGAG 3 cut(s) 137, 866, 1209
BbsI GAAGAC 4 cut(s) 230, 930, 1083, 1310
Bbv12I GWGCWC 1 cut(s) 867
BbvCI CCTCAGC 1 cut(s) 1423
BbvI GCAGC 4 cut(s) 175, 571, 1293, 1414
BccI CCATC 4 cut(s) 551, 1204, 1240, 1465
BceAI ACGGC 2 cut(s) 567, 1276
BcgI CGANNNNNNTGC 1 cut(s) 29
BciT130I CCWGG 2 cut(s) 383, 1510
BcoDI GTCTC 2 cut(s) 279, 1103
BfaI CTAG 1 cut(s) 1278
BfrI CTTAAG 1 cut(s) 1526
BfuAI ACCTGC 2 cut(s) 1189, 1198
BglII AGATCT 1 cut(s) 1572
BisI GCNGC 6 cut(s) 189, 192, 585, 1152, 1282, 1428
BlsI GCNGC 6 cut(s) 190, 193, 586, 1153, 1283, 1429
Bme1390I CCNGG 2 cut(s) 383, 1510
Bme18I GGWCC 3 cut(s) 596, 803, 1202
BmgT120I GGNCC 4 cut(s) 596, 803, 1202, 1436
BmiI GGNNCC 4 cut(s) 148, 195, 643, 936
BmrFI CCNGG 2 cut(s) 383, 1510
BmrI ACTGGG 2 cut(s) 868, 1443
BmsI GCATC 3 cut(s) 304, 420, 1421
BmuI ACTGGG 2 cut(s) 868, 1443
BpiI GAAGAC 4 cut(s) 230, 930, 1083, 1310
BpmI CTGGAG 1 cut(s) 939
Bpu10I CCTNAGC 1 cut(s) 1423
BsaBI GATNNNNATC 2 cut(s) 49, 561
BsaHI GRCGYC 1 cut(s) 743
BsaI GGTCTC 1 cut(s) 279
BsaJI CCNNGG 5 cut(s) 111, 344, 382, 806, 1236
Bsc4I CCNNNNNNNGG 3 cut(s) 812, 1211, 1238
Bse1I ACTGG 5 cut(s) 238, 370, 645, 863, 1438
Bse21I CCTNAGG 1 cut(s) 912
Bse8I GATNNNNATC 2 cut(s) 49, 561
BseBI CCWGG 2 cut(s) 383, 1510
BseDI CCNNGG 5 cut(s) 111, 344, 382, 806, 1236
BseGI GGATG 9 cut(s) 579, 727, 835, 859, 889, 976, 982, 1232, 1418
BseJI GATNNNNATC 2 cut(s) 49, 561
BseLI CCNNNNNNNGG 3 cut(s) 812, 1211, 1238
BseMII CTCAG 5 cut(s) 252, 416, 903, 1437, 1556
BseNI ACTGG 5 cut(s) 238, 370, 645, 863, 1438
BseRI GAGGAG 5 cut(s) 942, 1013, 1118, 1121, 1197
BseXI GCAGC 4 cut(s) 175, 571, 1293, 1414
BsgI GTGCAG 1 cut(s) 1176
Bsh1236I CGCG 1 cut(s) 1461
BshFI GGCC 1 cut(s) 1438
BshNI GGYRCC 1 cut(s) 193
BsiHKAI GWGCWC 1 cut(s) 867
BslFI GGGAC 1 cut(s) 399
BslI CCNNNNNNNGG 3 cut(s) 812, 1211, 1238
BsmAI GTCTC 2 cut(s) 279, 1103
BsmFI GGGAC 1 cut(s) 399
BsmI GAATGC 1 cut(s) 1552
BsnI GGCC 1 cut(s) 1438
Bso31I GGTCTC 1 cut(s) 279
Bsp1286I GDGCHC 1 cut(s) 867
Bsp143I GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
Bsp19I CCATGG 1 cut(s) 111
BspACI CCGC 8 cut(s) 42, 191, 293, 521, 636, 684, 1151, 1459
BspANI GGCC 1 cut(s) 1438
BspCNI CTCAG 5 cut(s) 253, 415, 904, 1436, 1557
BspFNI CGCG 1 cut(s) 1461
BspLI GGNNCC 4 cut(s) 148, 195, 643, 936
BspMI ACCTGC 2 cut(s) 1189, 1198
BspPI GGATC 5 cut(s) 52, 356, 902, 1310, 1506
BspT107I GGYRCC 1 cut(s) 193
BspTI CTTAAG 1 cut(s) 1526
BspTNI GGTCTC 1 cut(s) 279
BsrBI CCGCTC 1 cut(s) 636
BsrI ACTGG 5 cut(s) 238, 370, 645, 863, 1438
BssECI CCNNGG 5 cut(s) 111, 344, 382, 806, 1236
BssMI GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
BssNI GRCGYC 1 cut(s) 743
BssSI CACGAG 3 cut(s) 137, 866, 1209
BssT1I CCWWGG 4 cut(s) 111, 344, 806, 1236
Bst2BI CACGAG 3 cut(s) 137, 866, 1209
Bst2UI CCWGG 2 cut(s) 383, 1510
Bst4CI ACNGT 7 cut(s) 11, 151, 372, 495, 1121, 1126, 1354
Bst6I CTCTTC 7 cut(s) 282, 519, 687, 726, 732, 990, 1332
BstACI GRCGYC 1 cut(s) 743
BstAFI CTTAAG 1 cut(s) 1526
BstAPI GCANNNNNTGC 1 cut(s) 1190
BstDEI CTNAG 7 cut(s) 129, 261, 402, 424, 912, 1423, 1565
BstDSI CCRYGG 1 cut(s) 111
BstF5I GGATG 9 cut(s) 579, 727, 835, 859, 889, 976, 982, 1232, 1418
BstFNI CGCG 1 cut(s) 1461
BstHHI GCGC 2 cut(s) 118, 1463
BstKTI GATC 7 cut(s) 47, 351, 820, 910, 1318, 1501, 1575
BstMAI GTCTC 2 cut(s) 279, 1103
BstMBI GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
BstMWI GCNNNNNNNGC 4 cut(s) 458, 1190, 1388, 1397
BstNI CCWGG 2 cut(s) 383, 1510
BstSCI CCNGG 2 cut(s) 381, 1508
BstUI CGCG 1 cut(s) 1461
BstV1I GCAGC 4 cut(s) 175, 571, 1293, 1414
BstV2I GAAGAC 4 cut(s) 230, 930, 1083, 1310
BstX2I RGATCY 3 cut(s) 348, 1498, 1572
BstYI RGATCY 3 cut(s) 348, 1498, 1572
Bsu36I CCTNAGG 1 cut(s) 912
BsuRI GGCC 1 cut(s) 1438
BtgI CCRYGG 1 cut(s) 111
BtsCI GGATG 9 cut(s) 579, 727, 835, 859, 889, 976, 982, 1232, 1418
BtsIMutI CAGTG 1 cut(s) 652
BveI ACCTGC 2 cut(s) 1189, 1198
CaiI CAGNNNCTG 1 cut(s) 1409
CfoI GCGC 2 cut(s) 118, 1463
Cfr13I GGNCC 4 cut(s) 596, 803, 1202, 1436
CseI GACGC 1 cut(s) 732
Csp6I GTAC 2 cut(s) 379, 1122
CviAII CATG 3 cut(s) 82, 112, 826
CviQI GTAC 2 cut(s) 379, 1122
DdeI CTNAG 7 cut(s) 129, 261, 402, 424, 912, 1423, 1565
DpnI GATC 7 cut(s) 46, 350, 819, 909, 1317, 1500, 1574
DpnII GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
Eam1104I CTCTTC 7 cut(s) 282, 519, 687, 726, 732, 990, 1332
EarI CTCTTC 7 cut(s) 282, 519, 687, 726, 732, 990, 1332
Eco130I CCWWGG 4 cut(s) 111, 344, 806, 1236
Eco31I GGTCTC 1 cut(s) 279
Eco47I GGWCC 3 cut(s) 596, 803, 1202
Eco57I CTGAAG 2 cut(s) 1386, 1467
Eco81I CCTNAGG 1 cut(s) 912
EcoRII CCWGG 2 cut(s) 381, 1508
EcoT14I CCWWGG 4 cut(s) 111, 344, 806, 1236
ErhI CCWWGG 4 cut(s) 111, 344, 806, 1236
FaeI CATG 3 cut(s) 85, 115, 829
FaiI YATR 9 cut(s) 61, 63, 83, 113, 177, 290, 474, 498, 827
FalI AAGNNNNNCTT 4 cut(s) 197, 229, 1535, 1567
FaqI GGGAC 1 cut(s) 399
FatI CATG 3 cut(s) 81, 111, 825
FblI GTMKAC 2 cut(s) 76, 757
Fnu4HI GCNGC 6 cut(s) 189, 192, 585, 1152, 1282, 1428
FokI GGATG 9 cut(s) 586, 734, 842, 866, 896, 983, 989, 1219, 1405
Fsp4HI GCNGC 6 cut(s) 189, 192, 585, 1152, 1282, 1428
FspBI CTAG 1 cut(s) 1278
GlaI GCGC 2 cut(s) 117, 1462
GluI GCNGC 6 cut(s) 189, 192, 585, 1152, 1282, 1428
GsuI CTGGAG 1 cut(s) 939
HaeIII GGCC 1 cut(s) 1438
HgaI GACGC 1 cut(s) 732
HhaI GCGC 2 cut(s) 118, 1463
Hin1I GRCGYC 1 cut(s) 743
Hin1II CATG 3 cut(s) 85, 115, 829
Hin6I GCGC 2 cut(s) 116, 1461
HinP1I GCGC 2 cut(s) 116, 1461
HinfI GANTC 6 cut(s) 166, 454, 538, 1067, 1091, 1265
HphI GGTGA 2 cut(s) 698, 827
Hpy166II GTNNAC 3 cut(s) 77, 309, 758
Hpy188I TCNGA 9 cut(s) 55, 262, 543, 712, 1072, 1096, 1320, 1470, 1566
Hpy188III TCNNGA 9 cut(s) 137, 170, 250, 392, 821, 911, 938, 956, 1200
Hpy8I GTNNAC 3 cut(s) 77, 309, 758
Hpy99I CGWCG 3 cut(s) 155, 1262, 1616
HpyAV CCTTC 6 cut(s) 389, 692, 794, 841, 938, 1138
HpyCH4III ACNGT 7 cut(s) 11, 151, 372, 495, 1121, 1126, 1354
HpyCH4IV ACGT 5 cut(s) 26, 86, 160, 180, 919
HpyCH4V TGCA 9 cut(s) 16, 317, 433, 491, 1178, 1184, 1193, 1226, 1412
HpyF10VI GCNNNNNNNGC 4 cut(s) 458, 1190, 1388, 1397
HpyF3I CTNAG 7 cut(s) 129, 261, 402, 424, 912, 1423, 1565
HpySE526I ACGT 5 cut(s) 26, 86, 160, 180, 919
Hsp92I GRCGYC 1 cut(s) 743
Hsp92II CATG 3 cut(s) 85, 115, 829
HspAI GCGC 2 cut(s) 116, 1461
Kzo9I GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
LmnI GCTCC 4 cut(s) 862, 940, 955, 1411
Lsp1109I GCAGC 4 cut(s) 175, 571, 1293, 1414
LweI GCATC 3 cut(s) 304, 420, 1421
MaeI CTAG 1 cut(s) 1278
MaeII ACGT 5 cut(s) 26, 86, 160, 180, 919
MaeIII GTNAC 7 cut(s) 134, 154, 229, 744, 1126, 1441, 1486
MalI GATC 7 cut(s) 46, 350, 819, 909, 1317, 1500, 1574
MbiI CCGCTC 1 cut(s) 636
MboI GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
MfeI CAATTG 1 cut(s) 17
MflI RGATCY 3 cut(s) 348, 1498, 1572
MhlI GDGCHC 1 cut(s) 867
MluCI AATT 4 cut(s) 17, 244, 873, 942
MmeI TCCRAC 1 cut(s) 1389
MroXI GAANNNNTTC 3 cut(s) 212, 706, 927
MseI TTAA 4 cut(s) 332, 768, 1515, 1527
MslI CAYNNNNRTG 1 cut(s) 141
MspA1I CMGCKG 1 cut(s) 1427
MspCI CTTAAG 1 cut(s) 1526
MspR9I CCNGG 2 cut(s) 383, 1510
MunI CAATTG 1 cut(s) 17
Mva1269I GAATGC 1 cut(s) 1552
MvaI CCWGG 2 cut(s) 383, 1510
MvnI CGCG 1 cut(s) 1461
MwoI GCNNNNNNNGC 4 cut(s) 458, 1190, 1388, 1397
NcoI CCATGG 1 cut(s) 111
NdeII GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
NlaIII CATG 3 cut(s) 85, 115, 829
NlaIV GGNNCC 4 cut(s) 148, 195, 643, 936
NmuCI GTSAC 5 cut(s) 134, 229, 744, 1441, 1486
OliI CACNNNNGTG 1 cut(s) 141
PaqCI CACCTGC 1 cut(s) 1189
PctI GAATGC 1 cut(s) 1552
PdmI GAANNNNTTC 3 cut(s) 212, 706, 927
PfeI GAWTC 6 cut(s) 166, 454, 538, 1067, 1091, 1265
PflMI CCANNNNNTGG 1 cut(s) 812
PkrI GCNGC 6 cut(s) 190, 193, 586, 1153, 1283, 1429
Psp1406I AACGTT 1 cut(s) 180
Psp6I CCWGG 2 cut(s) 381, 1508
PspGI CCWGG 2 cut(s) 381, 1508
PspN4I GGNNCC 4 cut(s) 148, 195, 643, 936
PspPI GGNCC 4 cut(s) 596, 803, 1202, 1436
PsrI GAACNNNNNNTAC 2 cut(s) 139, 171
PstNI CAGNNNCTG 1 cut(s) 1409
PsuI RGATCY 3 cut(s) 348, 1498, 1572
PvuII CAGCTG 1 cut(s) 1427
RsaI GTAC 2 cut(s) 380, 1123
RsaNI GTAC 2 cut(s) 379, 1122
RseI CAYNNNNRTG 1 cut(s) 141
SaqAI TTAA 4 cut(s) 332, 768, 1515, 1527
SatI GCNGC 6 cut(s) 189, 192, 585, 1152, 1282, 1428
Sau3AI GATC 7 cut(s) 44, 348, 817, 907, 1315, 1498, 1572
Sau96I GGNCC 4 cut(s) 596, 803, 1202, 1436
ScrFI CCNGG 2 cut(s) 383, 1510
SduI GDGCHC 1 cut(s) 867
SfaNI GCATC 3 cut(s) 304, 420, 1421
SinI GGWCC 3 cut(s) 596, 803, 1202
SmiMI CAYNNNNRTG 1 cut(s) 141
SmlI CTYRAG 1 cut(s) 1526
SmoI CTYRAG 1 cut(s) 1526
Sse9I AATT 4 cut(s) 17, 244, 873, 942
SsiI CCGC 8 cut(s) 42, 191, 293, 521, 636, 684, 1151, 1459
SspI AATATT 1 cut(s) 1561
SspMI CTAG 1 cut(s) 1278
StyD4I CCNGG 2 cut(s) 381, 1508
StyI CCWWGG 4 cut(s) 111, 344, 806, 1236
TaaI ACNGT 7 cut(s) 11, 151, 372, 495, 1121, 1126, 1354
TaiI ACGT 5 cut(s) 29, 89, 163, 183, 922
TaqI TCGA 1 cut(s) 5
TasI AATT 4 cut(s) 17, 244, 873, 942
TauI GCSGC 2 cut(s) 194, 1154
TfiI GAWTC 6 cut(s) 166, 454, 538, 1067, 1091, 1265
Tru1I TTAA 4 cut(s) 332, 768, 1515, 1527
Tru9I TTAA 4 cut(s) 332, 768, 1515, 1527
TscAI CASTG 1 cut(s) 652
TseFI GTSAC 5 cut(s) 134, 229, 744, 1441, 1486
TseI GCWGC 4 cut(s) 188, 584, 1281, 1427
Tsp45I GTSAC 5 cut(s) 134, 229, 744, 1441, 1486
TspGWI ACGGA 3 cut(s) 215, 763, 896
TspRI CASTG 1 cut(s) 652
Van91I CCANNNNNTGG 1 cut(s) 812
Vha464I CTTAAG 1 cut(s) 1526
VpaK11BI GGWCC 3 cut(s) 596, 803, 1202
XapI RAATTY 2 cut(s) 873, 942
XmiI GTMKAC 2 cut(s) 76, 757
XmnI GAANNNNTTC 3 cut(s) 212, 706, 927
XspI CTAG 1 cut(s) 1278
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.