AT3G12480

nf-yc11 nf-yc11 (nuclear factor y, subunit c11)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0011860
Physical Location & Seq
Forward (+)
3957763 .. 3960472
2710 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G12480.1

Sequence Viewer

Length: 882 bp
ATGAGGAAGAAGCTCGATACTCGGTTCCCAGCTGCTCGTATTAAAAAGATTATGCAAGCTGATGAGGATGTTGGCAAGATAGCTTTGGCAGTGCCTGTCTTAGTCTCAAAATCTTTGGAGTTGTTCTTGCAAGACCTTTGTGATCGTACATATGAAATTACCCTTGAAAGAGGTGCCAAGACTGTGAGCTCATTGCACCTAAAACATTGTGTGGAAAGATATAACGTGTTTGATTTTCTGAGGGAAGTTGTGAGTAAGGTGCCTGACTATGGCCATTCCCAAGGGCAAGGACATGGTGATGTTACCATGGATGATCGCAGCATCTCCAAGAGAAGGAAGCCCATCAGCGATGAAGTGAATGACAGTGACGAGGAATATAAGAAAAGCAAAACGCAAGAGATAGGGAGTGCTAAGACCAGTGGCAGGGGTGGTAGAGGAAGAGGGCGAGGAAGAGGTCGTGGTGGACGAGCTGCAAAAGCAGCCGAAAGAGAGGGTCTCAACCGCGAGATGGAAGTAGAAGCCGCCAATTCTGGACAGCCACCACCAGAAGACAATGTCAAGATGCATGCGTCAGAGTCATCACCACAAGAGGATGAGAAGAAAGGCATCGACGGCACAGCAGCATCGAACGAAGACACCAAGCAACACCTTCAAAGTCCCAAAGAAGGCATTGACTTTGATCTCAACGCTGAATCCCTCGACCTAAACGAGACCAAACTGGCACCAGCCACAGGCACAACCACAACCACAACTGCAGCAACAGACTCTGAGGAGTATTCGGGCTGGCCTATGATGGACATAAGCAAAATGGATCCAGCACAGCTTGCTAGTCTGGGTAAGAGGATAGACGAGGATGAGGAAGATTATGACGAAGAAGGCTAA
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
CBFD_NFYB_HMF

Protein Analysis

293

Amino Acids

32.29

Weight (kDa)

5.1

Isoelectric Point (pI)

44.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFD_NFYB_HMF PF00808 8 - 71 1.9e-19 Histone-like transcription factor (CBF/NF-Y) and archaeal histone
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: OG0011860)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G12480
fragaria_vesca FvH4_7g04210
malus_domestica MD02G1273400.v1.1 MD07G1042300.v1.1
prunus_persica Prupe.2G047600_v2.0.a1
pyrus_communis pycom02g23430 pycom07g02990
rosa_chinensis RchiOBHm_Chr1g0328631 RchiOBHm_Chr1g0328761
rosa_laevigata RLG00000029919
rosa_roxburghii Rroxscaffold_4G00321380
rosa_rugosa Rorug01G0075500
rosa_samantha Rh1AG094500 Rh1BG075000 Rh1CG090700 Rh1CG091000 Rh1DG097100 Rh1DG097700
rosa_wichuraiana Rw1G007370

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 3 cut(s) 173, 259, 721
AccII CGCG 1 cut(s) 504
AciI CCGC 2 cut(s) 502, 522
AclWI GGATC 2 cut(s) 806, 819
AcoI YGGCCR 1 cut(s) 271
AfaI GTAC 1 cut(s) 148
AfiI CCNNNNNNNGG 6 cut(s) 269, 333, 423, 508, 665, 731
AflIII ACRYGT 1 cut(s) 225
AgsI TTSAA 2 cut(s) 167, 653
AluBI AGCT 7 cut(s) 13, 32, 59, 83, 189, 470, 823
AluI AGCT 7 cut(s) 13, 32, 59, 83, 189, 470, 823
Alw21I GWGCWC 1 cut(s) 191
Alw26I GTCTC 3 cut(s) 109, 500, 704
AlwI GGATC 2 cut(s) 806, 819
AlwNI CAGNNNCTG 2 cut(s) 95, 767
AoxI GGCC 2 cut(s) 271, 785
ApeKI GCWGC 6 cut(s) 32, 318, 470, 479, 620, 755
AsuHPI GGTGA 2 cut(s) 308, 573
BalI TGGCCA 1 cut(s) 273
BamHI GGATCC 1 cut(s) 811
BanI GGYRCC 3 cut(s) 173, 259, 721
BanII GRGCYC 1 cut(s) 191
BbsI GAAGAC 2 cut(s) 555, 639
Bbv12I GWGCWC 1 cut(s) 191
BbvI GCAGC 6 cut(s) 19, 330, 457, 491, 632, 767
BccI CCATC 3 cut(s) 350, 502, 787
BceAI ACGGC 1 cut(s) 628
BcoDI GTCTC 3 cut(s) 109, 500, 704
BfaI CTAG 1 cut(s) 828
BfmI CTRYAG 1 cut(s) 753
BisI GCNGC 7 cut(s) 33, 319, 471, 480, 522, 621, 756
BlsI GCNGC 7 cut(s) 34, 320, 472, 481, 523, 622, 757
BmiI GGNNCC 5 cut(s) 26, 175, 261, 723, 813
BmsI GCATC 4 cut(s) 330, 552, 615, 632
BpiI GAAGAC 2 cut(s) 555, 639
BplI GAGNNNNNCTC 2 cut(s) 480, 512
BsaI GGTCTC 2 cut(s) 500, 704
BsaJI CCNNGG 2 cut(s) 280, 306
Bsc4I CCNNNNNNNGG 6 cut(s) 269, 333, 423, 508, 665, 731
Bse1I ACTGG 2 cut(s) 417, 723
Bse3DI GCAATG 1 cut(s) 191
BseDI CCNNGG 2 cut(s) 280, 306
BseGI GGATG 4 cut(s) 73, 316, 598, 859
BseLI CCNNNNNNNGG 6 cut(s) 269, 333, 423, 508, 665, 731
BseMI GCAATG 1 cut(s) 191
BseMII CTCAG 2 cut(s) 230, 759
BseNI ACTGG 2 cut(s) 417, 723
BseRI GAGGAG 1 cut(s) 785
BseXI GCAGC 6 cut(s) 19, 330, 457, 491, 632, 767
BseYI CCCAGC 1 cut(s) 28
Bsh1236I CGCG 1 cut(s) 504
BshFI GGCC 2 cut(s) 273, 787
BshNI GGYRCC 3 cut(s) 173, 259, 721
BsiHKAI GWGCWC 1 cut(s) 191
BslFI GGGAC 1 cut(s) 642
BslI CCNNNNNNNGG 6 cut(s) 269, 333, 423, 508, 665, 731
BsmAI GTCTC 3 cut(s) 109, 500, 704
BsmFI GGGAC 1 cut(s) 642
BsnI GGCC 2 cut(s) 273, 787
Bso31I GGTCTC 2 cut(s) 500, 704
Bsp1286I GDGCHC 1 cut(s) 191
Bsp143I GATC 4 cut(s) 142, 313, 679, 811
Bsp19I CCATGG 1 cut(s) 306
BspACI CCGC 2 cut(s) 502, 522
BspANI GGCC 2 cut(s) 273, 787
BspCNI CTCAG 2 cut(s) 231, 760
BspFNI CGCG 1 cut(s) 504
BspLI GGNNCC 5 cut(s) 26, 175, 261, 723, 813
BspMAI CTGCAG 1 cut(s) 757
BspPI GGATC 2 cut(s) 806, 819
BspT107I GGYRCC 3 cut(s) 173, 259, 721
BspTNI GGTCTC 2 cut(s) 500, 704
BsrDI GCAATG 1 cut(s) 191
BsrI ACTGG 2 cut(s) 417, 723
BssECI CCNNGG 2 cut(s) 280, 306
BssMI GATC 4 cut(s) 142, 313, 679, 811
BssT1I CCWWGG 2 cut(s) 280, 306
Bst4CI ACNGT 2 cut(s) 184, 365
Bst6I CTCTTC 2 cut(s) 433, 445
BstAPI GCANNNNNTGC 1 cut(s) 824
BstC8I GCNNGC 4 cut(s) 57, 567, 785, 825
BstDEI CTNAG 4 cut(s) 100, 239, 411, 768
BstDSI CCRYGG 1 cut(s) 306
BstF5I GGATG 4 cut(s) 73, 316, 598, 859
BstFNI CGCG 1 cut(s) 504
BstKTI GATC 4 cut(s) 145, 316, 682, 814
BstMAI GTCTC 3 cut(s) 109, 500, 704
BstMBI GATC 4 cut(s) 142, 313, 679, 811
BstMWI GCNNNNNNNGC 4 cut(s) 476, 479, 612, 824
BstNSI RCATGY 1 cut(s) 569
BstSFI CTRYAG 1 cut(s) 753
BstUI CGCG 1 cut(s) 504
BstV1I GCAGC 6 cut(s) 19, 330, 457, 491, 632, 767
BstV2I GAAGAC 2 cut(s) 555, 639
BstX2I RGATCY 1 cut(s) 811
BstYI RGATCY 1 cut(s) 811
BsuRI GGCC 2 cut(s) 273, 787
BtgI CCRYGG 1 cut(s) 306
BtgZI GCGATG 1 cut(s) 363
BtsCI GGATG 4 cut(s) 73, 316, 598, 859
BtsI GCAGTG 1 cut(s) 96
BtsIMutI CAGTG 3 cut(s) 96, 370, 424
Cac8I GCNNGC 4 cut(s) 57, 567, 785, 825
CaiI CAGNNNCTG 2 cut(s) 95, 767
CseI GACGC 1 cut(s) 558
Csp6I GTAC 1 cut(s) 147
CviAII CATG 3 cut(s) 293, 307, 566
CviQI GTAC 1 cut(s) 147
DdeI CTNAG 4 cut(s) 100, 239, 411, 768
DpnI GATC 4 cut(s) 144, 315, 681, 813
DpnII GATC 4 cut(s) 142, 313, 679, 811
EaeI YGGCCR 1 cut(s) 271
Eam1104I CTCTTC 2 cut(s) 433, 445
EarI CTCTTC 2 cut(s) 433, 445
Ecl136II GAGCTC 1 cut(s) 189
Eco130I CCWWGG 2 cut(s) 280, 306
Eco24I GRGCYC 1 cut(s) 191
Eco31I GGTCTC 2 cut(s) 500, 704
Eco53kI GAGCTC 1 cut(s) 189
EcoICRI GAGCTC 1 cut(s) 189
EcoT14I CCWWGG 2 cut(s) 280, 306
EcoT22I ATGCAT 1 cut(s) 567
EcoT38I GRGCYC 1 cut(s) 191
ErhI CCWWGG 2 cut(s) 280, 306
FaeI CATG 3 cut(s) 296, 310, 569
FaqI GGGAC 1 cut(s) 642
FatI CATG 3 cut(s) 292, 306, 565
FauNDI CATATG 1 cut(s) 151
Fnu4HI GCNGC 7 cut(s) 33, 319, 471, 480, 522, 621, 756
FokI GGATG 4 cut(s) 80, 323, 605, 866
FriOI GRGCYC 1 cut(s) 191
Fsp4HI GCNGC 7 cut(s) 33, 319, 471, 480, 522, 621, 756
FspBI CTAG 1 cut(s) 828
GluI GCNGC 7 cut(s) 33, 319, 471, 480, 522, 621, 756
GsaI CCCAGC 1 cut(s) 32
HaeIII GGCC 2 cut(s) 273, 787
HgaI GACGC 1 cut(s) 558
Hin1II CATG 3 cut(s) 296, 310, 569
HinfI GANTC 3 cut(s) 575, 692, 764
HphI GGTGA 2 cut(s) 308, 573
Hpy166II GTNNAC 1 cut(s) 464
Hpy188I TCNGA 3 cut(s) 240, 574, 769
Hpy188III TCNNGA 2 cut(s) 531, 559
Hpy8I GTNNAC 1 cut(s) 464
Hpy99I CGWCG 1 cut(s) 614
HpyAV CCTTC 4 cut(s) 327, 659, 659, 869
HpyCH4III ACNGT 2 cut(s) 184, 365
HpyCH4IV ACGT 1 cut(s) 225
HpyCH4V TGCA 6 cut(s) 55, 130, 196, 473, 565, 755
HpyF10VI GCNNNNNNNGC 4 cut(s) 476, 479, 612, 824
HpyF3I CTNAG 4 cut(s) 100, 239, 411, 768
HpySE526I ACGT 1 cut(s) 225
Hsp92II CATG 3 cut(s) 296, 310, 569
Kzo9I GATC 4 cut(s) 142, 313, 679, 811
Lsp1109I GCAGC 6 cut(s) 19, 330, 457, 491, 632, 767
LweI GCATC 4 cut(s) 330, 552, 615, 632
MaeI CTAG 1 cut(s) 828
MaeII ACGT 1 cut(s) 225
MaeIII GTNAC 2 cut(s) 301, 365
MalI GATC 4 cut(s) 144, 315, 681, 813
MboI GATC 4 cut(s) 142, 313, 679, 811
MboII GAAGA 7 cut(s) 19, 450, 462, 560, 610, 644, 872
MflI RGATCY 1 cut(s) 811
MhlI GDGCHC 1 cut(s) 191
MlsI TGGCCA 1 cut(s) 273
MluCI AATT 2 cut(s) 156, 526
MluNI TGGCCA 1 cut(s) 273
MlyI GAGTC 2 cut(s) 584, 758
Mox20I TGGCCA 1 cut(s) 273
Mph1103I ATGCAT 1 cut(s) 567
MscI TGGCCA 1 cut(s) 273
MseI TTAA 1 cut(s) 42
MslI CAYNNNNRTG 1 cut(s) 297
Msp20I TGGCCA 1 cut(s) 273
MspA1I CMGCKG 1 cut(s) 32
MvnI CGCG 1 cut(s) 504
MwoI GCNNNNNNNGC 4 cut(s) 476, 479, 612, 824
NcoI CCATGG 1 cut(s) 306
NdeI CATATG 1 cut(s) 151
NdeII GATC 4 cut(s) 142, 313, 679, 811
NlaIII CATG 3 cut(s) 296, 310, 569
NlaIV GGNNCC 5 cut(s) 26, 175, 261, 723, 813
NmuCI GTSAC 1 cut(s) 365
NsiI ATGCAT 1 cut(s) 567
NspI RCATGY 1 cut(s) 569
PaeI GCATGC 1 cut(s) 569
PcsI WCGNNNNNNNCGW 2 cut(s) 463, 705
PfeI GAWTC 1 cut(s) 692
PflFI GACNNNGTC 1 cut(s) 554
PkrI GCNGC 7 cut(s) 34, 320, 472, 481, 523, 622, 757
PleI GAGTC 2 cut(s) 583, 758
PpsI GAGTC 2 cut(s) 583, 758
Psp124BI GAGCTC 1 cut(s) 191
PspFI CCCAGC 1 cut(s) 28
PspN4I GGNNCC 5 cut(s) 26, 175, 261, 723, 813
PstI CTGCAG 1 cut(s) 757
PstNI CAGNNNCTG 2 cut(s) 95, 767
PsuI RGATCY 1 cut(s) 811
PsyI GACNNNGTC 1 cut(s) 554
PvuII CAGCTG 1 cut(s) 32
RsaI GTAC 1 cut(s) 148
RsaNI GTAC 1 cut(s) 147
RseI CAYNNNNRTG 1 cut(s) 297
SacI GAGCTC 1 cut(s) 191
SaqAI TTAA 1 cut(s) 42
SatI GCNGC 7 cut(s) 33, 319, 471, 480, 522, 621, 756
Sau3AI GATC 4 cut(s) 142, 313, 679, 811
SchI GAGTC 2 cut(s) 584, 758
SduI GDGCHC 1 cut(s) 191
SfaNI GCATC 4 cut(s) 330, 552, 615, 632
SfcI CTRYAG 1 cut(s) 753
SmiMI CAYNNNNRTG 1 cut(s) 297
SphI GCATGC 1 cut(s) 569
Sse9I AATT 2 cut(s) 156, 526
SsiI CCGC 2 cut(s) 502, 522
SspMI CTAG 1 cut(s) 828
SstI GAGCTC 1 cut(s) 191
StyI CCWWGG 2 cut(s) 280, 306
TaaI ACNGT 2 cut(s) 184, 365
TaiI ACGT 1 cut(s) 228
TaqI TCGA 4 cut(s) 15, 609, 626, 699
TasI AATT 2 cut(s) 156, 526
TauI GCSGC 1 cut(s) 524
TfiI GAWTC 1 cut(s) 692
Tru1I TTAA 1 cut(s) 42
Tru9I TTAA 1 cut(s) 42
TscAI CASTG 3 cut(s) 96, 370, 424
TseFI GTSAC 1 cut(s) 365
TseI GCWGC 6 cut(s) 32, 318, 470, 479, 620, 755
Tsp45I GTSAC 1 cut(s) 365
TspDTI ATGAA 2 cut(s) 168, 366
TspRI CASTG 3 cut(s) 96, 370, 424
Tth111I GACNNNGTC 1 cut(s) 554
XceI RCATGY 1 cut(s) 569
XspI CTAG 1 cut(s) 828
Zsp2I ATGCAT 1 cut(s) 567
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.