AT3G56980

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0003398
Physical Location & Seq
Reverse (-)
21086390 .. 21087710
1321 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G56980.1

Sequence Viewer

Length: 777 bp
ATGTGTGCATTAGTACCTCCATTGTTTCCAAACTTTGGGTGGCCATCAACGGGAGAGTACGACAGCTACTACCTCGCCGGAGATATCCTCAACAACGGCGGGTTTCTTGATTTTCCGGTACCGGAGGAGACTTATGGAGCTGTTACAGCGGTGACTCAACATCAGAATAGCTTTGGTGTTTCTGTTTCGTCGGAGGGAAATGAAATAGACAACAATCCGGTGGTCGTCAAGAAGCTTAATCACAATGCTAGTGAGCGTGACCGTCGCAGGAAAATTAACTCTTTGTTCTCATCTCTCCGTTCATGTCTTCCTGCCTCTGGCCAATCGAAGAAGCTAAGCATTCCTGCGACGGTTTCTCGAAGCTTGAAGTACATACCAGAGCTGCAAGAGCAAGTGAAGAAGCTAATAAAAAAGAAGGAAGAGCTCTTGGTGCAAATTTCAGGTCAAAGAAACACTGAATGTTACGTTAAGCAGCCACCAAAGGCCGTCGCGAATTATATCTCGACCGTTTCTGCGACTAGGCTTGGTGACAACGAAGTGATGGTCCAAATCTCATCGTCCAAGATTCATAACTTTTCGATATCTAATGTTTTAAGTGGGTTAGAAGAAGATAGGTTTGTTCTTGTGGACATGTCATCTTCAAGGTCTCAAGGAGAAAGGCTTTTCTACACTTTGCATTTACAAGTGGAGAAGATTGAAAATTACAAGCTGAATTGCGAAGAGTTAAGTCAGAGGATGTTGTACTTGTATGAGGAATGTGGAAACTCATATATATGA
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

258

Amino Acids

29.0

Weight (kDa)

6.45

Isoelectric Point (pI)

60.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 77 - 129 6e-16 Helix-loop-helix DNA-binding 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)
Acc65I GGTACC 1 cut(s) 118
AccB1I GGYRCC 1 cut(s) 118
AccB7I CCANNNNNTGG 1 cut(s) 35
AccII CGCG 1 cut(s) 491
AciI CCGC 2 cut(s) 99, 149
AcoI YGGCCR 2 cut(s) 41, 319
AcsI RAATTY 1 cut(s) 435
AfaI GTAC 5 cut(s) 15, 59, 120, 371, 743
AfiI CCNNNNNNNGG 3 cut(s) 35, 50, 317
AflIII ACRYGT 1 cut(s) 630
AgsI TTSAA 3 cut(s) 367, 642, 698
Alw21I GWGCWC 1 cut(s) 426
Alw26I GTCTC 2 cut(s) 122, 651
AoxI GGCC 3 cut(s) 41, 319, 483
ApeKI GCWGC 2 cut(s) 382, 472
ApoI RAATTY 1 cut(s) 435
ArsI GACNNNNNNTTYG 4 cut(s) 427, 459, 528, 560
Asp718I GGTACC 1 cut(s) 118
AspS9I GGNCC 1 cut(s) 544
AsuHPI GGTGA 2 cut(s) 163, 539
AvaII GGWCC 1 cut(s) 544
BalI TGGCCA 2 cut(s) 43, 321
BanI GGYRCC 1 cut(s) 118
BanII GRGCYC 1 cut(s) 426
BbsI GAAGAC 1 cut(s) 299
Bbv12I GWGCWC 1 cut(s) 426
BbvI GCAGC 2 cut(s) 369, 484
BccI CCATC 2 cut(s) 52, 535
BceAI ACGGC 2 cut(s) 112, 470
BcoDI GTCTC 2 cut(s) 122, 651
BfaI CTAG 2 cut(s) 249, 519
BisI GCNGC 2 cut(s) 383, 473
BlpI GCTNAGC 1 cut(s) 335
BlsI GCNGC 2 cut(s) 384, 474
Bme18I GGWCC 1 cut(s) 544
BmgT120I GGNCC 1 cut(s) 544
BmiI GGNNCC 1 cut(s) 120
BpiI GAAGAC 1 cut(s) 299
BplI GAGNNNNNCTC 2 cut(s) 72, 104
Bpu1102I GCTNAGC 1 cut(s) 335
BpuEI CTTGAG 1 cut(s) 633
BsaI GGTCTC 1 cut(s) 651
BsaWI WCCGGW 3 cut(s) 115, 121, 217
Bsc4I CCNNNNNNNGG 3 cut(s) 35, 50, 317
BseGI GGATG 1 cut(s) 741
BseLI CCNNNNNNNGG 3 cut(s) 35, 50, 317
BseRI GAGGAG 1 cut(s) 140
BseXI GCAGC 2 cut(s) 369, 484
Bsh1236I CGCG 1 cut(s) 491
Bsh1285I CGRYCG 1 cut(s) 507
BshFI GGCC 3 cut(s) 43, 321, 485
BshNI GGYRCC 1 cut(s) 118
BsiEI CGRYCG 1 cut(s) 507
BsiHKAI GWGCWC 1 cut(s) 426
BsiSI CCGG 4 cut(s) 78, 116, 122, 218
BslI CCNNNNNNNGG 3 cut(s) 35, 50, 317
BsmAI GTCTC 2 cut(s) 122, 651
BsmI GAATGC 1 cut(s) 339
BsnI GGCC 3 cut(s) 43, 321, 485
Bso31I GGTCTC 1 cut(s) 651
Bsp1286I GDGCHC 1 cut(s) 426
Bsp1720I GCTNAGC 1 cut(s) 335
Bsp68I TCGCGA 1 cut(s) 491
BspACI CCGC 2 cut(s) 99, 149
BspANI GGCC 3 cut(s) 43, 321, 485
BspFNI CGCG 1 cut(s) 491
BspLI GGNNCC 1 cut(s) 120
BspQI GCTCTTC 1 cut(s) 414
BspT107I GGYRCC 1 cut(s) 118
BspTNI GGTCTC 1 cut(s) 651
Bst4CI ACNGT 3 cut(s) 263, 352, 508
Bst6I CTCTTC 2 cut(s) 414, 714
BstDEI CTNAG 1 cut(s) 335
BstF5I GGATG 1 cut(s) 741
BstFNI CGCG 1 cut(s) 491
BstMAI GTCTC 2 cut(s) 122, 651
BstMCI CGRYCG 1 cut(s) 507
BstMWI GCNNNNNNNGC 3 cut(s) 146, 388, 430
BstNSI RCATGY 1 cut(s) 634
BstUI CGCG 1 cut(s) 491
BstV1I GCAGC 2 cut(s) 369, 484
BstV2I GAAGAC 1 cut(s) 299
BsuRI GGCC 3 cut(s) 43, 321, 485
BtsCI GGATG 1 cut(s) 741
BtsIMutI CAGTG 1 cut(s) 453
BtuMI TCGCGA 1 cut(s) 491
Cfr13I GGNCC 1 cut(s) 544
Csp6I GTAC 5 cut(s) 14, 58, 119, 370, 742
CviAII CATG 2 cut(s) 303, 631
CviQI GTAC 5 cut(s) 14, 58, 119, 370, 742
DdeI CTNAG 1 cut(s) 335
EaeI YGGCCR 2 cut(s) 41, 319
Eam1104I CTCTTC 2 cut(s) 414, 714
EarI CTCTTC 2 cut(s) 414, 714
Ecl136II GAGCTC 1 cut(s) 424
Eco24I GRGCYC 1 cut(s) 426
Eco31I GGTCTC 1 cut(s) 651
Eco32I GATATC 2 cut(s) 85, 582
Eco47I GGWCC 1 cut(s) 544
Eco53kI GAGCTC 1 cut(s) 424
EcoICRI GAGCTC 1 cut(s) 424
EcoRV GATATC 2 cut(s) 85, 582
EcoT38I GRGCYC 1 cut(s) 426
FaeI CATG 2 cut(s) 306, 634
FatI CATG 2 cut(s) 302, 630
FauI CCCGC 1 cut(s) 92
Fnu4HI GCNGC 2 cut(s) 383, 473
FokI GGATG 1 cut(s) 748
FriOI GRGCYC 1 cut(s) 426
Fsp4HI GCNGC 2 cut(s) 383, 473
FspBI CTAG 2 cut(s) 249, 519
GluI GCNGC 2 cut(s) 383, 473
HaeIII GGCC 3 cut(s) 43, 321, 485
HapII CCGG 4 cut(s) 78, 116, 122, 218
Hin1II CATG 2 cut(s) 306, 634
HindIII AAGCTT 2 cut(s) 233, 361
HinfI GANTC 2 cut(s) 154, 565
HpaII CCGG 4 cut(s) 78, 116, 122, 218
HphI GGTGA 2 cut(s) 163, 539
Hpy166II GTNNAC 1 cut(s) 628
Hpy188I TCNGA 3 cut(s) 165, 193, 732
Hpy188III TCNNGA 5 cut(s) 107, 229, 357, 490, 502
Hpy8I GTNNAC 1 cut(s) 628
Hpy99I CGWCG 4 cut(s) 193, 267, 352, 491
HpyAV CCTTC 1 cut(s) 409
HpyCH4III ACNGT 3 cut(s) 263, 352, 508
HpyCH4IV ACGT 1 cut(s) 465
HpyCH4V TGCA 4 cut(s) 8, 385, 433, 676
HpyF10VI GCNNNNNNNGC 3 cut(s) 146, 388, 430
HpyF3I CTNAG 1 cut(s) 335
HpySE526I ACGT 1 cut(s) 465
Hsp92II CATG 2 cut(s) 306, 634
KpnI GGTACC 1 cut(s) 122
LguI GCTCTTC 1 cut(s) 414
LmnI GCTCC 1 cut(s) 137
Lsp1109I GCAGC 2 cut(s) 369, 484
MaeI CTAG 2 cut(s) 249, 519
MaeII ACGT 1 cut(s) 465
MaeIII GTNAC 5 cut(s) 142, 151, 257, 461, 527
MboII GAAGA 9 cut(s) 299, 340, 409, 431, 617, 620, 630, 703, 731
MhlI GDGCHC 1 cut(s) 426
MlsI TGGCCA 2 cut(s) 43, 321
MluCI AATT 5 cut(s) 273, 435, 493, 700, 712
MluNI TGGCCA 2 cut(s) 43, 321
MlyI GAGTC 1 cut(s) 148
MmeI TCCRAC 1 cut(s) 171
MnlI CCTC 8 cut(s) 27, 83, 98, 118, 187, 325, 726, 745
Mox20I TGGCCA 2 cut(s) 43, 321
MscI TGGCCA 2 cut(s) 43, 321
MseI TTAA 5 cut(s) 237, 276, 468, 593, 725
MslI CAYNNNNRTG 1 cut(s) 772
Msp20I TGGCCA 2 cut(s) 43, 321
MspA1I CMGCKG 1 cut(s) 149
MspI CCGG 4 cut(s) 78, 116, 122, 218
Mva1269I GAATGC 1 cut(s) 339
MvnI CGCG 1 cut(s) 491
MwoI GCNNNNNNNGC 3 cut(s) 146, 388, 430
NlaIII CATG 2 cut(s) 306, 634
NlaIV GGNNCC 1 cut(s) 120
NmuCI GTSAC 3 cut(s) 151, 257, 527
NruI TCGCGA 1 cut(s) 491
NspI RCATGY 1 cut(s) 634
PciI ACATGT 1 cut(s) 630
PciSI GCTCTTC 1 cut(s) 414
PctI GAATGC 1 cut(s) 339
PfeI GAWTC 1 cut(s) 565
PflMI CCANNNNNTGG 1 cut(s) 35
PkrI GCNGC 2 cut(s) 384, 474
PleI GAGTC 1 cut(s) 148
PpsI GAGTC 1 cut(s) 148
PscI ACATGT 1 cut(s) 630
Psp124BI GAGCTC 1 cut(s) 426
PspN4I GGNNCC 1 cut(s) 120
PspPI GGNCC 1 cut(s) 544
RruI TCGCGA 1 cut(s) 491
RsaI GTAC 5 cut(s) 15, 59, 120, 371, 743
RsaNI GTAC 5 cut(s) 14, 58, 119, 370, 742
RseI CAYNNNNRTG 1 cut(s) 772
SacI GAGCTC 1 cut(s) 426
SapI GCTCTTC 1 cut(s) 414
SaqAI TTAA 5 cut(s) 237, 276, 468, 593, 725
SatI GCNGC 2 cut(s) 383, 473
Sau96I GGNCC 1 cut(s) 544
SchI GAGTC 1 cut(s) 148
SduI GDGCHC 1 cut(s) 426
SinI GGWCC 1 cut(s) 544
SmiMI CAYNNNNRTG 1 cut(s) 772
SmlI CTYRAG 1 cut(s) 648
SmoI CTYRAG 1 cut(s) 648
Sse9I AATT 5 cut(s) 273, 435, 493, 700, 712
SsiI CCGC 2 cut(s) 99, 149
SspMI CTAG 2 cut(s) 249, 519
SstI GAGCTC 1 cut(s) 426
TaaI ACNGT 3 cut(s) 263, 352, 508
TaiI ACGT 1 cut(s) 468
TaqI TCGA 4 cut(s) 326, 358, 503, 578
TasI AATT 5 cut(s) 273, 435, 493, 700, 712
TatI WGTACW 2 cut(s) 369, 741
TfiI GAWTC 1 cut(s) 565
Tru1I TTAA 5 cut(s) 237, 276, 468, 593, 725
Tru9I TTAA 5 cut(s) 237, 276, 468, 593, 725
TscAI CASTG 1 cut(s) 460
TseFI GTSAC 3 cut(s) 151, 257, 527
TseI GCWGC 2 cut(s) 382, 472
Tsp45I GTSAC 3 cut(s) 151, 257, 527
TspDTI ATGAA 3 cut(s) 216, 291, 557
TspGWI ACGGA 1 cut(s) 287
TspRI CASTG 1 cut(s) 460
Van91I CCANNNNNTGG 1 cut(s) 35
VpaK11BI GGWCC 1 cut(s) 544
XapI RAATTY 1 cut(s) 435
XceI RCATGY 1 cut(s) 634
XcmI CCANNNNNNNNNTGG 1 cut(s) 36
XspI CTAG 2 cut(s) 249, 519
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.