AT2G41240

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0003398
Physical Location & Seq
Reverse (-)
17198037 .. 17199454
1418 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G41240.1

Sequence Viewer

Length: 729 bp
ATGTGTGCACTTGTCCCTCCATTATATCCCAATTTCGGCTGGCCTTGCGGAGATCATAGCTTCTATGAAACCGACGACGTATCCAACACGTTTCTTGATTTTCCGTTGCCGGACTTGACGGTGACTCATGAGAATGTGTCGTCTGAGAATAACAGAACATTACTAGACAATCCCGTGGTGATGAAGAAGCTTAATCACAACGCGAGTGAACGTGAGCGTCGCAAGAAGATCAACACAATGTTCTCATCTCTTCGTTCTTGTCTTCCTCCCACCAATCAAACGAAGAAGTTAAGTGTTTCGGCAACAGTTTCACAAGCATTGAAGTACATACCAGAGCTGCAAGAGCAAGTTAAAAAGCTCATGAAGAAGAAAGAAGAGCTCTCGTTTCAAATTTCGGGTCAAAGAGATCTCGTTTACACCGACCAAAACAGTAAGTCAGAGGAAGGGGTTACAAGCTATGCGTCGACAGTTTCTTCGACTAGGCTCAGTGAGACTGAAGTGATGGTCCAAATTTCATCGTTACAGACTGAAAAATGTTCGTTTGGGAATGTCTTGAGTGGTGTAGAAGAAGATGGGTTGGTTCTTGTGGGTGCTTCATCTTCAAGGTCTCATGGAGAGCGACTCTTTTACTCTATGCATCTTCAGATAAAAAATGGCCAGGTGAATTCCGAAGAATTAGGTGATAGATTGTTGTACTTGTACGAGAAATGTGGACACTCGTTTACATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000302 GO:0000976 GO:0000977 GO:0001012 GO:0001067 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0006357 GO:0006873 GO:0006875 GO:0006879 GO:0006950 GO:0006979 GO:0007154 GO:0008150 GO:0009267 GO:0009414 GO:0009415 GO:0009605 GO:0009628 GO:0009719 GO:0009723 GO:0009725 GO:0009889 GO:0009891 GO:0009893 GO:0009966 GO:0009987 GO:0009991 GO:0010033 GO:0010035 GO:0010038 GO:0010104 GO:0010106 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0010646 GO:0019219 GO:0019222 GO:0019725 GO:0023051 GO:0030003 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031667 GO:0031668 GO:0031669 GO:0032991 GO:0033554 GO:0034248 GO:0034250 GO:0042221 GO:0042493 GO:0042592 GO:0042594 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043455 GO:0043565 GO:0044212 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0046685 GO:0046686 GO:0046916 GO:0048518 GO:0048522 GO:0048583 GO:0048878 GO:0050789 GO:0050794 GO:0050801 GO:0050896 GO:0051171 GO:0051173 GO:0051193 GO:0051194 GO:0051252 GO:0051254 GO:0051716 GO:0055065 GO:0055072 GO:0055076 GO:0055080 GO:0055082 GO:0060255 GO:0065007 GO:0065008 GO:0070297 GO:0071496 GO:0071731 GO:0080090 GO:0090575 GO:0097159 GO:0097366 GO:0098771 GO:0140110 GO:1900376 GO:1900378 GO:1900704 GO:1900706 GO:1901363 GO:1901698 GO:1901700 GO:1902531 GO:1902680 GO:1903506 GO:1903508 GO:1990641 GO:1990837 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HLH

Protein Analysis

242

Amino Acids

27.22

Weight (kDa)

5.9

Isoelectric Point (pI)

46.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 62 - 114 3.5e-16 Helix-loop-helix DNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 464
AccII CGCG 1 cut(s) 203
AciI CCGC 1 cut(s) 48
AcoI YGGCCR 1 cut(s) 655
AcsI RAATTY 3 cut(s) 390, 510, 664
AcuI CTGAAG 2 cut(s) 516, 626
AfaI GTAC 3 cut(s) 326, 695, 701
AfiI CCNNNNNNNGG 1 cut(s) 35
AflIII ACRYGT 1 cut(s) 87
AgsI TTSAA 3 cut(s) 322, 389, 603
AjnI CCWGG 1 cut(s) 657
AluBI AGCT 6 cut(s) 60, 190, 337, 358, 379, 456
AluI AGCT 6 cut(s) 60, 190, 337, 358, 379, 456
Alw21I GWGCWC 2 cut(s) 10, 381
Alw26I GTCTC 2 cut(s) 485, 612
Alw44I GTGCAC 1 cut(s) 6
AoxI GGCC 2 cut(s) 41, 655
ApaLI GTGCAC 1 cut(s) 6
ApeKI GCWGC 1 cut(s) 337
ApoI RAATTY 3 cut(s) 390, 510, 664
ArsI GACNNNNNNTTYG 4 cut(s) 382, 414, 457, 489
AspS9I GGNCC 1 cut(s) 505
AsuHPI GGTGA 4 cut(s) 133, 190, 673, 692
AvaII GGWCC 1 cut(s) 505
BaeGI GKGCMC 1 cut(s) 10
BalI TGGCCA 1 cut(s) 657
BanII GRGCYC 1 cut(s) 381
BbsI GAAGAC 1 cut(s) 254
Bbv12I GWGCWC 2 cut(s) 10, 381
BbvI GCAGC 1 cut(s) 324
BccI CCATC 2 cut(s) 496, 566
BciT130I CCWGG 1 cut(s) 659
BciVI GTATCC 1 cut(s) 91
BcoDI GTCTC 2 cut(s) 485, 612
BfaI CTAG 2 cut(s) 164, 480
BfuI GTATCC 1 cut(s) 91
BglII AGATCT 1 cut(s) 406
BisI GCNGC 1 cut(s) 338
BlsI GCNGC 1 cut(s) 339
Bme1390I CCNGG 1 cut(s) 659
Bme18I GGWCC 1 cut(s) 505
BmgT120I GGNCC 1 cut(s) 505
BmrFI CCNGG 1 cut(s) 659
BmsI GCATC 1 cut(s) 646
BpiI GAAGAC 1 cut(s) 254
BplI GAGNNNNNCTC 2 cut(s) 606, 638
BpuEI CTTGAG 1 cut(s) 574
BsaI GGTCTC 1 cut(s) 612
BsaJI CCNNGG 1 cut(s) 174
Bsc4I CCNNNNNNNGG 1 cut(s) 35
BseBI CCWGG 1 cut(s) 659
BseDI CCNNGG 1 cut(s) 174
BseLI CCNNNNNNNGG 1 cut(s) 35
BseMII CTCAG 2 cut(s) 135, 499
BseSI GKGCMC 1 cut(s) 10
BseXI GCAGC 1 cut(s) 324
Bsh1236I CGCG 1 cut(s) 203
BshFI GGCC 2 cut(s) 43, 657
BsiHKAI GWGCWC 2 cut(s) 10, 381
BsiSI CCGG 1 cut(s) 110
BslI CCNNNNNNNGG 1 cut(s) 35
BsmAI GTCTC 2 cut(s) 485, 612
BsnI GGCC 2 cut(s) 43, 657
Bso31I GGTCTC 1 cut(s) 612
Bsp1286I GDGCHC 2 cut(s) 10, 381
Bsp143I GATC 3 cut(s) 52, 228, 406
BspACI CCGC 1 cut(s) 48
BspANI GGCC 2 cut(s) 43, 657
BspCNI CTCAG 2 cut(s) 136, 498
BspFNI CGCG 1 cut(s) 203
BspHI TCATGA 2 cut(s) 127, 360
BspQI GCTCTTC 1 cut(s) 369
BspTNI GGTCTC 1 cut(s) 612
BssECI CCNNGG 1 cut(s) 174
BssMI GATC 3 cut(s) 52, 228, 406
Bst2UI CCWGG 1 cut(s) 659
Bst4CI ACNGT 4 cut(s) 121, 307, 431, 469
Bst6I CTCTTC 2 cut(s) 255, 369
BstC8I GCNNGC 1 cut(s) 41
BstDEI CTNAG 2 cut(s) 144, 485
BstDSI CCRYGG 1 cut(s) 174
BstFNI CGCG 1 cut(s) 203
BstKTI GATC 3 cut(s) 55, 231, 409
BstMAI GTCTC 2 cut(s) 485, 612
BstMBI GATC 3 cut(s) 52, 228, 406
BstMWI GCNNNNNNNGC 2 cut(s) 45, 343
BstNI CCWGG 1 cut(s) 659
BstSCI CCNGG 1 cut(s) 657
BstSLI GKGCMC 1 cut(s) 10
BstUI CGCG 1 cut(s) 203
BstV1I GCAGC 1 cut(s) 324
BstV2I GAAGAC 1 cut(s) 254
BstX2I RGATCY 1 cut(s) 406
BstYI RGATCY 1 cut(s) 406
BsuI GTATCC 1 cut(s) 91
BsuRI GGCC 2 cut(s) 43, 657
BtgI CCRYGG 1 cut(s) 174
BtsIMutI CAGTG 1 cut(s) 493
Cac8I GCNNGC 1 cut(s) 41
CciI TCATGA 2 cut(s) 127, 360
Cfr13I GGNCC 1 cut(s) 505
CseI GACGC 2 cut(s) 206, 450
Csp6I GTAC 3 cut(s) 325, 694, 700
CviAII CATG 4 cut(s) 128, 361, 611, 726
CviQI GTAC 3 cut(s) 325, 694, 700
DdeI CTNAG 2 cut(s) 144, 485
DpnI GATC 3 cut(s) 54, 230, 408
DpnII GATC 3 cut(s) 52, 228, 406
EaeI YGGCCR 1 cut(s) 655
Eam1104I CTCTTC 2 cut(s) 255, 369
EarI CTCTTC 2 cut(s) 255, 369
Ecl136II GAGCTC 1 cut(s) 379
Eco24I GRGCYC 1 cut(s) 381
Eco31I GGTCTC 1 cut(s) 612
Eco47I GGWCC 1 cut(s) 505
Eco53kI GAGCTC 1 cut(s) 379
Eco57I CTGAAG 2 cut(s) 516, 626
EcoICRI GAGCTC 1 cut(s) 379
EcoRI GAATTC 1 cut(s) 664
EcoRII CCWGG 1 cut(s) 657
EcoT22I ATGCAT 1 cut(s) 639
EcoT38I GRGCYC 1 cut(s) 381
FaeI CATG 4 cut(s) 131, 364, 614, 729
FatI CATG 4 cut(s) 127, 360, 610, 725
FblI GTMKAC 1 cut(s) 464
Fnu4HI GCNGC 1 cut(s) 338
FriOI GRGCYC 1 cut(s) 381
Fsp4HI GCNGC 1 cut(s) 338
FspBI CTAG 2 cut(s) 164, 480
GluI GCNGC 1 cut(s) 338
HaeIII GGCC 2 cut(s) 43, 657
HapII CCGG 1 cut(s) 110
HgaI GACGC 2 cut(s) 206, 450
Hin1II CATG 4 cut(s) 131, 364, 614, 729
HincII GTYRAC 1 cut(s) 465
HindII GTYRAC 1 cut(s) 465
HindIII AAGCTT 1 cut(s) 188
HinfI GANTC 2 cut(s) 124, 621
HpaII CCGG 1 cut(s) 110
HphI GGTGA 4 cut(s) 133, 190, 673, 692
Hpy166II GTNNAC 6 cut(s) 8, 209, 415, 465, 713, 723
Hpy188I TCNGA 4 cut(s) 145, 439, 645, 670
Hpy188III TCNNGA 4 cut(s) 95, 128, 361, 553
Hpy8I GTNNAC 6 cut(s) 8, 209, 415, 465, 713, 723
Hpy99I CGWCG 4 cut(s) 77, 80, 222, 466
HpyAV CCTTC 1 cut(s) 437
HpyCH4III ACNGT 4 cut(s) 121, 307, 431, 469
HpyCH4IV ACGT 3 cut(s) 78, 89, 211
HpyCH4V TGCA 3 cut(s) 8, 340, 637
HpyF10VI GCNNNNNNNGC 2 cut(s) 45, 343
HpyF3I CTNAG 2 cut(s) 144, 485
HpySE526I ACGT 3 cut(s) 78, 89, 211
Hsp92II CATG 4 cut(s) 131, 364, 614, 729
Kzo9I GATC 3 cut(s) 52, 228, 406
LguI GCTCTTC 1 cut(s) 369
LpnPI CCDG 5 cut(s) 25, 123, 345, 644, 671
Lsp1109I GCAGC 1 cut(s) 324
LweI GCATC 1 cut(s) 646
MaeI CTAG 2 cut(s) 164, 480
MaeII ACGT 3 cut(s) 78, 89, 211
MaeIII GTNAC 3 cut(s) 121, 448, 519
MalI GATC 3 cut(s) 54, 230, 408
MboI GATC 3 cut(s) 52, 228, 406
MflI RGATCY 1 cut(s) 406
MhlI GDGCHC 2 cut(s) 10, 381
MlsI TGGCCA 1 cut(s) 657
MluCI AATT 5 cut(s) 31, 390, 510, 664, 674
MluNI TGGCCA 1 cut(s) 657
MlyI GAGTC 2 cut(s) 118, 615
MmeI TCCRAC 1 cut(s) 108
MnlI CCTC 3 cut(s) 27, 276, 433
Mox20I TGGCCA 1 cut(s) 657
Mph1103I ATGCAT 1 cut(s) 639
MscI TGGCCA 1 cut(s) 657
MseI TTAA 3 cut(s) 192, 290, 351
MslI CAYNNNNRTG 1 cut(s) 132
Msp20I TGGCCA 1 cut(s) 657
MspI CCGG 1 cut(s) 110
MspR9I CCNGG 1 cut(s) 659
MvaI CCWGG 1 cut(s) 659
MvnI CGCG 1 cut(s) 203
MwoI GCNNNNNNNGC 2 cut(s) 45, 343
NdeII GATC 3 cut(s) 52, 228, 406
NlaIII CATG 4 cut(s) 131, 364, 614, 729
NmuCI GTSAC 1 cut(s) 121
NsiI ATGCAT 1 cut(s) 639
PagI TCATGA 2 cut(s) 127, 360
PciSI GCTCTTC 1 cut(s) 369
PcsI WCGNNNNNNNCGW 1 cut(s) 417
PkrI GCNGC 1 cut(s) 339
PleI GAGTC 2 cut(s) 118, 615
PpsI GAGTC 2 cut(s) 118, 615
Psp124BI GAGCTC 1 cut(s) 381
Psp6I CCWGG 1 cut(s) 657
PspGI CCWGG 1 cut(s) 657
PspPI GGNCC 1 cut(s) 505
PsuI RGATCY 1 cut(s) 406
RsaI GTAC 3 cut(s) 326, 695, 701
RsaNI GTAC 3 cut(s) 325, 694, 700
RseI CAYNNNNRTG 1 cut(s) 132
SacI GAGCTC 1 cut(s) 381
SalI GTCGAC 1 cut(s) 463
SapI GCTCTTC 1 cut(s) 369
SaqAI TTAA 3 cut(s) 192, 290, 351
SatI GCNGC 1 cut(s) 338
Sau3AI GATC 3 cut(s) 52, 228, 406
Sau96I GGNCC 1 cut(s) 505
SchI GAGTC 2 cut(s) 118, 615
ScrFI CCNGG 1 cut(s) 659
SduI GDGCHC 2 cut(s) 10, 381
SfaNI GCATC 1 cut(s) 646
SinI GGWCC 1 cut(s) 505
SmiMI CAYNNNNRTG 1 cut(s) 132
SmlI CTYRAG 1 cut(s) 553
SmoI CTYRAG 1 cut(s) 553
Sse9I AATT 5 cut(s) 31, 390, 510, 664, 674
SsiI CCGC 1 cut(s) 48
SspMI CTAG 2 cut(s) 164, 480
SstI GAGCTC 1 cut(s) 381
StyD4I CCNGG 1 cut(s) 657
TaaI ACNGT 4 cut(s) 121, 307, 431, 469
TaiI ACGT 3 cut(s) 81, 92, 214
TaqI TCGA 2 cut(s) 464, 476
TasI AATT 5 cut(s) 31, 390, 510, 664, 674
TatI WGTACW 2 cut(s) 324, 693
Tru1I TTAA 3 cut(s) 192, 290, 351
Tru9I TTAA 3 cut(s) 192, 290, 351
TscAI CASTG 1 cut(s) 493
TseFI GTSAC 1 cut(s) 121
TseI GCWGC 1 cut(s) 337
Tsp45I GTSAC 1 cut(s) 121
TspDTI ATGAA 5 cut(s) 81, 197, 377, 504, 585
TspGWI ACGGA 1 cut(s) 93
TspRI CASTG 1 cut(s) 493
VneI GTGCAC 1 cut(s) 6
VpaK11BI GGWCC 1 cut(s) 505
XapI RAATTY 3 cut(s) 390, 510, 664
XmiI GTMKAC 1 cut(s) 464
XspI CTAG 2 cut(s) 164, 480
Zsp2I ATGCAT 1 cut(s) 639
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.