AT3G12210

Helix-hairpin-helix DNA-binding motif class 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0013438
Physical Location & Seq
Forward (+)
3894753 .. 3896567
1815 bp
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UTR
Exon/CDS
Intron
AT3G12210.1

Sequence Viewer

Length: 468 bp
ATGGAACTAGAGTTCAAGTGTTCCGATGTTGGAGTATGGAAGGAGGCTCTGTCTTCGTACGATTCCCGAATCGAATCACTGAACAAACCAGAACTCGTCTCTCTCGACCAATTCTACCGCATCAAACTCCCTTGTCTTCTTCACGACCGAGACCCTAACCCTTACCTCACTACTTCCGAGCTTTCTCAACTCATGAAATGGAAGCTCTCTCGTGGAAAATGGCGGCCGCGTCTGCTGGACTTCGTGTCGTCTCTAGACGATTCAGTGGTGAAATCTGCTTCTGAGAAAGCTTTTAAATCGCTTCCTGACATCTCCAAGGCTGTGAAAGAGCTCACTGTGCTTAAGGGCGTTGGTGCTGCCACCGCATCCGCCGTTCTTGCTGCTTACGCCCCTGACATTGCACCATTTATGTCCGACGAGGAAAGGCAATGGAGGTGGCTCTTGGGAACTCAAAGGATTACTCTTTGA
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
No domains found.

Protein Analysis

155

Amino Acids

17.58

Weight (kDa)

7.72

Isoelectric Point (pI)

38.38

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Orthologous Genes (Group: OG0013438)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G12210 AT3G12210
fragaria_vesca FvH4_2g32510
malus_domestica MD15G1064200.v1.1
prunus_persica Prupe.1G418200_v2.0.a1 Prupe.6G207800_v2.0.a1
pyrus_communis pycom15g06090
rosa_chinensis RchiOBHm_Chr6g0310141
rosa_laevigata RLG00000010505
rosa_multiflora Rmu_sc0000294.1_g000038 Rmu_sc0008163.1_g000003
rosa_roxburghii Rroxscaffold_7G00158820
rosa_rugosa Rorug06G0377700
rosa_samantha Rh6AG491800 Rh6BG501400 Rh6CG506500 Rh6DG492400
rosa_wichuraiana Rw6G042790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 229
AciI CCGC 5 cut(s) 118, 223, 227, 363, 369
AcoI YGGCCR 1 cut(s) 224
AfaI GTAC 1 cut(s) 59
AflII CTTAAG 1 cut(s) 341
AgsI TTSAA 1 cut(s) 16
AhdI GACNNNNNGTC 1 cut(s) 244
AloI GAACNNNNNNTCC 1 cut(s) 28
AluBI AGCT 4 cut(s) 181, 205, 290, 331
AluI AGCT 4 cut(s) 181, 205, 290, 331
Alw21I GWGCWC 1 cut(s) 333
Alw26I GTCTC 3 cut(s) 103, 144, 255
AoxI GGCC 1 cut(s) 224
ApeKI GCWGC 2 cut(s) 356, 380
AsuHPI GGTGA 1 cut(s) 280
BanII GRGCYC 1 cut(s) 333
BauI CACGAG 1 cut(s) 210
BbsI GAAGAC 2 cut(s) 45, 128
Bbv12I GWGCWC 1 cut(s) 333
BbvI GCAGC 2 cut(s) 343, 367
BceAI ACGGC 1 cut(s) 356
BcoDI GTCTC 3 cut(s) 103, 144, 255
BfaI CTAG 2 cut(s) 8, 254
BfrI CTTAAG 1 cut(s) 341
BisI GCNGC 4 cut(s) 224, 227, 357, 381
BlsI GCNGC 4 cut(s) 225, 228, 358, 382
BmeRI GACNNNNNGTC 1 cut(s) 244
BmsI GCATC 2 cut(s) 129, 374
BpiI GAAGAC 2 cut(s) 45, 128
BsaI GGTCTC 1 cut(s) 144
BsaJI CCNNGG 1 cut(s) 315
BsaXI ACNNNNNCTCC 2 cut(s) 35, 65
Bse3DI GCAATG 2 cut(s) 396, 434
BseDI CCNNGG 1 cut(s) 315
BseGI GGATG 1 cut(s) 365
BseMI GCAATG 2 cut(s) 396, 434
BseMII CTCAG 1 cut(s) 273
BseX3I CGGCCG 1 cut(s) 224
BseXI GCAGC 2 cut(s) 343, 367
Bsh1236I CGCG 1 cut(s) 229
Bsh1285I CGRYCG 2 cut(s) 148, 227
BshFI GGCC 1 cut(s) 226
BsiEI CGRYCG 2 cut(s) 148, 227
BsiHKAI GWGCWC 1 cut(s) 333
BsiWI CGTACG 1 cut(s) 57
BsmAI GTCTC 3 cut(s) 103, 144, 255
BsmBI CGTCTC 2 cut(s) 103, 255
BsnI GGCC 1 cut(s) 226
Bso31I GGTCTC 1 cut(s) 144
Bsp1286I GDGCHC 1 cut(s) 333
BspACI CCGC 5 cut(s) 118, 223, 227, 363, 369
BspANI GGCC 1 cut(s) 226
BspCNI CTCAG 1 cut(s) 274
BspFNI CGCG 1 cut(s) 229
BspHI TCATGA 1 cut(s) 192
BspTI CTTAAG 1 cut(s) 341
BspTNI GGTCTC 1 cut(s) 144
BsrDI GCAATG 2 cut(s) 396, 434
BssECI CCNNGG 1 cut(s) 315
BssSI CACGAG 1 cut(s) 210
BssT1I CCWWGG 1 cut(s) 315
Bst2BI CACGAG 1 cut(s) 210
Bst4CI ACNGT 1 cut(s) 337
BstAFI CTTAAG 1 cut(s) 341
BstDEI CTNAG 1 cut(s) 282
BstF5I GGATG 1 cut(s) 365
BstFNI CGCG 1 cut(s) 229
BstMAI GTCTC 3 cut(s) 103, 144, 255
BstMCI CGRYCG 2 cut(s) 148, 227
BstMWI GCNNNNNNNGC 5 cut(s) 232, 337, 362, 377, 386
BstUI CGCG 1 cut(s) 229
BstV1I GCAGC 2 cut(s) 343, 367
BstV2I GAAGAC 2 cut(s) 45, 128
BstZI CGGCCG 1 cut(s) 224
BsuRI GGCC 1 cut(s) 226
BtsCI GGATG 1 cut(s) 365
BtsIMutI CAGTG 3 cut(s) 77, 270, 333
CciI TCATGA 1 cut(s) 192
CciNI GCGGCCGC 1 cut(s) 224
CseI GACGC 1 cut(s) 218
Csp6I GTAC 1 cut(s) 58
CspCI CAANNNNNGTGG 2 cut(s) 416, 451
CviAII CATG 1 cut(s) 193
CviJI RGCY 8 cut(s) 47, 181, 205, 226, 290, 320, 331, 439
CviKI_1 RGCY 8 cut(s) 47, 181, 205, 226, 290, 320, 331, 439
CviQI GTAC 1 cut(s) 58
DdeI CTNAG 1 cut(s) 282
DraI TTTAAA 1 cut(s) 295
DriI GACNNNNNGTC 1 cut(s) 244
EaeI YGGCCR 1 cut(s) 224
EagI CGGCCG 1 cut(s) 224
Eam1105I GACNNNNNGTC 1 cut(s) 244
EciI GGCGGA 1 cut(s) 358
Ecl136II GAGCTC 1 cut(s) 331
EclXI CGGCCG 1 cut(s) 224
Eco130I CCWWGG 1 cut(s) 315
Eco24I GRGCYC 1 cut(s) 333
Eco31I GGTCTC 1 cut(s) 144
Eco52I CGGCCG 1 cut(s) 224
Eco53kI GAGCTC 1 cut(s) 331
EcoICRI GAGCTC 1 cut(s) 331
EcoT14I CCWWGG 1 cut(s) 315
EcoT38I GRGCYC 1 cut(s) 333
ErhI CCWWGG 1 cut(s) 315
Esp3I CGTCTC 2 cut(s) 103, 255
FaeI CATG 1 cut(s) 196
FaiI YATR 3 cut(s) 37, 194, 410
FatI CATG 1 cut(s) 192
Fnu4HI GCNGC 4 cut(s) 224, 227, 357, 381
FokI GGATG 1 cut(s) 352
FriOI GRGCYC 1 cut(s) 333
Fsp4HI GCNGC 4 cut(s) 224, 227, 357, 381
FspBI CTAG 2 cut(s) 8, 254
GluI GCNGC 4 cut(s) 224, 227, 357, 381
HaeIII GGCC 1 cut(s) 226
HgaI GACGC 1 cut(s) 218
Hin1II CATG 1 cut(s) 196
HindIII AAGCTT 1 cut(s) 288
HinfI GANTC 4 cut(s) 62, 69, 74, 260
HphI GGTGA 1 cut(s) 280
Hpy188I TCNGA 4 cut(s) 25, 178, 283, 415
Hpy188III TCNNGA 6 cut(s) 66, 104, 143, 193, 254, 305
Hpy99I CGWCG 1 cut(s) 419
HpyAV CCTTC 1 cut(s) 34
HpyCH4III ACNGT 1 cut(s) 337
HpyCH4V TGCA 1 cut(s) 401
HpyF10VI GCNNNNNNNGC 5 cut(s) 232, 337, 362, 377, 386
HpyF3I CTNAG 1 cut(s) 282
Hsp92II CATG 1 cut(s) 196
LpnPI CCDG 4 cut(s) 102, 221, 318, 405
Lsp1109I GCAGC 2 cut(s) 343, 367
LweI GCATC 2 cut(s) 129, 374
MaeI CTAG 2 cut(s) 8, 254
MboII GAAGA 3 cut(s) 45, 128, 131
MhlI GDGCHC 1 cut(s) 333
MluCI AATT 1 cut(s) 110
MmeI TCCRAC 2 cut(s) 10, 438
MnlI CCTC 4 cut(s) 37, 176, 412, 426
MseI TTAA 2 cut(s) 294, 342
MspCI CTTAAG 1 cut(s) 341
MvnI CGCG 1 cut(s) 229
MwoI GCNNNNNNNGC 5 cut(s) 232, 337, 362, 377, 386
NlaIII CATG 1 cut(s) 196
NotI GCGGCCGC 1 cut(s) 224
PagI TCATGA 1 cut(s) 192
PcsI WCGNNNNNNNCGW 1 cut(s) 102
PfeI GAWTC 4 cut(s) 62, 69, 74, 260
Pfl23II CGTACG 1 cut(s) 57
PkrI GCNGC 4 cut(s) 225, 228, 358, 382
Psp124BI GAGCTC 1 cut(s) 333
PspLI CGTACG 1 cut(s) 57
RsaI GTAC 1 cut(s) 59
RsaNI GTAC 1 cut(s) 58
SacI GAGCTC 1 cut(s) 333
SaqAI TTAA 2 cut(s) 294, 342
SatI GCNGC 4 cut(s) 224, 227, 357, 381
SduI GDGCHC 1 cut(s) 333
SetI ASST 6 cut(s) 168, 183, 207, 292, 333, 437
SfaNI GCATC 2 cut(s) 129, 374
SmlI CTYRAG 1 cut(s) 341
SmoI CTYRAG 1 cut(s) 341
Sse9I AATT 1 cut(s) 110
SsiI CCGC 5 cut(s) 118, 223, 227, 363, 369
SspMI CTAG 2 cut(s) 8, 254
SstI GAGCTC 1 cut(s) 333
StyI CCWWGG 1 cut(s) 315
TaaI ACNGT 1 cut(s) 337
TaqI TCGA 2 cut(s) 72, 105
TaqII GACCGA 1 cut(s) 162
TasI AATT 1 cut(s) 110
TauI GCSGC 2 cut(s) 226, 229
TfiI GAWTC 4 cut(s) 62, 69, 74, 260
Tru1I TTAA 2 cut(s) 294, 342
Tru9I TTAA 2 cut(s) 294, 342
TscAI CASTG 3 cut(s) 84, 270, 340
TseI GCWGC 2 cut(s) 356, 380
TspDTI ATGAA 1 cut(s) 209
TspRI CASTG 3 cut(s) 84, 270, 340
Vha464I CTTAAG 1 cut(s) 341
XbaI TCTAGA 1 cut(s) 253
XspI CTAG 2 cut(s) 8, 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.