Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0007213

Physical Location & Seq

Genomic Coordinates Reverse (-)

4050691 .. 4053669

Gene Structure 2979 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G12840.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGCAATCAAAACCGGGAAGAGAAAACGAAGAGGAAGTCAATAATCACCATGCTGTTCAGCAGCCGATGATGTATGCAGAGCCCTGGTGGAAAAACAACTCCTTTGGTGTTGTACCTCAAGCGAGACCTTCTGGAATTCCATCAAATTCCTCTTCTTTGGATTGCCCCAATGGTTCCGAGTCAAACGATGTTCATTCAGCATCTGAAGACGGTGCGTTGAATGGTGAAAACGATGGCACTTGGAAGGATTCACAAGCTGCAACTTCCTCTCGTTCAGTAGATAATCACGGAATGGAAGGAAATGACCCAGCGCTCTCTATCCGTAACATGCATGATCAGCCACTTGTACAACCACCAGAGCTTGTTGGACACTATATCGCTTGTGTCCCAAACCCATATCAGGATCCATATTATGGGGGATTGATGGGAGCATATGGTCATCAGCAATTGGGTTTTCGTCCATATCTTGGAATGCCTCGTGAAAGAACAGCTCTGCCACTTGACATGGCACAAGAGCCCGTTTATGTGAATGCAAAGCAGTACGAGGGAATTCTAAGGCGAAGAAAAGCACGTGCCAAGGCAGAGCTAGAGAGGAAAGTCATCCGGGACAGAAAGCCATATCTTCACGAGTCAAGACACAAGCATGCAATGAGAAGGGCACGAGCGAGTGGAGGCCGGTTTGCGAAGAAAAGTGAGGTAGAAGCGGGAGAGGATGCAGGAGGGAGAGACAGAGAAAGGGGTTCAGCAACCAACTCATCAGGCTCTGAACAAGTTGAGACAGACTCTAATGAGACCCTGAATTCTTCTGGTGCACCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0007275 GO:0008150 GO:0009555 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009892 GO:0010154 GO:0010262 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016602 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032991 GO:0040034 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0045892 GO:0045934 GO:0048229 GO:0048316 GO:0048506 GO:0048509 GO:0048510 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090575 GO:0140110 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFB_NFYA

Protein Analysis

272

Amino Acids

30.04

Weight (kDa)

6.22

Isoelectric Point (pI)

55.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	172 - 227	6.6e-26	CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007213)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G20910 AT5G12840 AT5G12840 AT5G12840 AT5G12840 AT5G12840
fragaria_vesca	FvH4_3g28780 FvH4_3g28780 FvH4_3g28780
malus_domestica	MD03G1174600.v1.1 MD11G1192400.v1.1
prunus_persica	Prupe.4G249900_v2.0.a1 Prupe.4G249900_v2.0.a1
pyrus_communis	pycom03g13200 pycom11g16820
rosa_chinensis	RchiOBHm_Chr5g0052231
rosa_laevigata	RLG00000034835
rosa_multiflora	Rmu_sc0003759.1_g000007
rosa_roxburghii	Rroxscaffold_1G00028070
rosa_rugosa	Rorug05G0273700
rosa_samantha	Rh5AG346500 Rh5BG357100 Rh5CG382500 Rh5DG372500
rosa_wichuraiana	Rw5G032720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	413, 467
AciI	CCGC	1 cut(s)	704
AclWI	GGATC	2 cut(s)	398, 411
AcsI	RAATTY	4 cut(s)	135, 145, 549, 799
AcuI	CTGAAG	1 cut(s)	225
AcvI	CACGTG	1 cut(s)	572
AfaI	GTAC	3 cut(s)	114, 348, 542
AfeI	AGCGCT	1 cut(s)	312
AfiI	CCNNNNNNNGG	3 cut(s)	400, 413, 467
AgsI	TTSAA	1 cut(s)	220
AjnI	CCWGG	1 cut(s)	83
AluBI	AGCT	4 cut(s)	257, 361, 491, 586
AluI	AGCT	4 cut(s)	257, 361, 491, 586
Alw21I	GWGCWC	1 cut(s)	814
Alw26I	GTCTC	4 cut(s)	118, 720, 770, 785
Alw44I	GTGCAC	1 cut(s)	810
AlwI	GGATC	2 cut(s)	398, 411
AlwNI	CAGNNNCTG	2 cut(s)	203, 764
Aor51HI	AGCGCT	1 cut(s)	312
AoxI	GGCC	1 cut(s)	673
ApaLI	GTGCAC	1 cut(s)	810
ApeKI	GCWGC	2 cut(s)	61, 257
ApoI	RAATTY	4 cut(s)	135, 145, 549, 799
ArsI	GACNNNNNNTTYG	2 cut(s)	21, 53
AspLEI	GCGC	1 cut(s)	313
AsuC2I	CCSGG	2 cut(s)	15, 605
AsuHPI	GGTGA	2 cut(s)	38, 236
BaeGI	GKGCMC	2 cut(s)	661, 814
BamHI	GGATCC	1 cut(s)	403
BanII	GRGCYC	2 cut(s)	84, 519
BauI	CACGAG	3 cut(s)	477, 626, 660
BbrPI	CACGTG	1 cut(s)	572
BbsI	GAAGAC	1 cut(s)	213
Bbv12I	GWGCWC	1 cut(s)	814
BbvI	GCAGC	2 cut(s)	73, 244
BccI	CCATC	3 cut(s)	148, 227, 418
BciT130I	CCWGG	1 cut(s)	85
BclI	TGATCA	1 cut(s)	334
BcnI	CCSGG	2 cut(s)	15, 605
BcoDI	GTCTC	4 cut(s)	118, 720, 770, 785
BfaI	CTAG	1 cut(s)	587
BfoI	RGCGCY	1 cut(s)	314
BisI	GCNGC	2 cut(s)	62, 258
BlsI	GCNGC	2 cut(s)	63, 259
Bme1390I	CCNGG	3 cut(s)	15, 85, 605
BmiI	GGNNCC	2 cut(s)	175, 405
BmrFI	CCNGG	3 cut(s)	15, 85, 605
BmsI	GCATC	2 cut(s)	209, 703
BpiI	GAAGAC	1 cut(s)	213
BplI	GAGNNNNNCTC	2 cut(s)	767, 799
BpuEI	CTTGAG	1 cut(s)	102
BpuMI	CCSGG	2 cut(s)	15, 605
BsaAI	YACGTR	1 cut(s)	572
BsaI	GGTCTC	2 cut(s)	118, 785
BsaJI	CCNNGG	2 cut(s)	83, 576
Bsc4I	CCNNNNNNNGG	3 cut(s)	400, 413, 467
Bse118I	RCCGGY	1 cut(s)	675
Bse3DI	GCAATG	1 cut(s)	654
BseBI	CCWGG	1 cut(s)	85
BseDI	CCNNGG	2 cut(s)	83, 576
BseGI	GGATG	2 cut(s)	600, 718
BseLI	CCNNNNNNNGG	3 cut(s)	400, 413, 467
BseMI	GCAATG	1 cut(s)	654
BseSI	GKGCMC	2 cut(s)	661, 814
BseXI	GCAGC	2 cut(s)	73, 244
BseYI	CCCAGC	1 cut(s)	307
BshFI	GGCC	1 cut(s)	675
BsiHKAI	GWGCWC	1 cut(s)	814
BsiSI	CCGG	3 cut(s)	14, 604, 676
BslFI	GGGAC	2 cut(s)	371, 620
BslI	CCNNNNNNNGG	3 cut(s)	400, 413, 467
BsmAI	GTCTC	4 cut(s)	118, 720, 770, 785
BsmFI	GGGAC	2 cut(s)	371, 620
BsmI	GAATGC	2 cut(s)	477, 535
BsnI	GGCC	1 cut(s)	675
Bso31I	GGTCTC	2 cut(s)	118, 785
Bsp1286I	GDGCHC	4 cut(s)	84, 519, 661, 814
Bsp1407I	TGTACA	1 cut(s)	346
Bsp143I	GATC	2 cut(s)	334, 403
BspACI	CCGC	1 cut(s)	704
BspANI	GGCC	1 cut(s)	675
BspLI	GGNNCC	2 cut(s)	175, 405
BspPI	GGATC	2 cut(s)	398, 411
BspTNI	GGTCTC	2 cut(s)	118, 785
BsrDI	GCAATG	1 cut(s)	654
BsrFI	RCCGGY	1 cut(s)	675
BsrGI	TGTACA	1 cut(s)	346
BssAI	RCCGGY	1 cut(s)	675
BssECI	CCNNGG	2 cut(s)	83, 576
BssMI	GATC	2 cut(s)	334, 403
BssSI	CACGAG	3 cut(s)	477, 626, 660
BssT1I	CCWWGG	1 cut(s)	576
Bst2BI	CACGAG	3 cut(s)	477, 626, 660
Bst2UI	CCWGG	1 cut(s)	85
Bst4CI	ACNGT	1 cut(s)	212
Bst6I	CTCTTC	3 cut(s)	13, 24, 157
BstAUI	TGTACA	1 cut(s)	346
BstBAI	YACGTR	1 cut(s)	572
BstC8I	GCNNGC	1 cut(s)	645
BstDEI	CTNAG	1 cut(s)	554
BstF5I	GGATG	2 cut(s)	600, 718
BstH2I	RGCGCY	1 cut(s)	314
BstHHI	GCGC	1 cut(s)	313
BstKTI	GATC	2 cut(s)	337, 406
BstMAI	GTCTC	4 cut(s)	118, 720, 770, 785
BstMBI	GATC	2 cut(s)	334, 403
BstMWI	GCNNNNNNNGC	1 cut(s)	337
BstNI	CCWGG	1 cut(s)	85
BstNSI	RCATGY	2 cut(s)	331, 647
BstSCI	CCNGG	3 cut(s)	13, 83, 603
BstSLI	GKGCMC	2 cut(s)	661, 814
BstV1I	GCAGC	2 cut(s)	73, 244
BstV2I	GAAGAC	1 cut(s)	213
BstX2I	RGATCY	1 cut(s)	403
BstYI	RGATCY	1 cut(s)	403
BsuRI	GGCC	1 cut(s)	675
BtsCI	GGATG	2 cut(s)	600, 718
Cac8I	GCNNGC	1 cut(s)	645
CaiI	CAGNNNCTG	2 cut(s)	203, 764
CfoI	GCGC	1 cut(s)	313
Cfr10I	RCCGGY	1 cut(s)	675
Csp6I	GTAC	3 cut(s)	113, 347, 541
CviAII	CATG	5 cut(s)	50, 328, 332, 505, 644
CviQI	GTAC	3 cut(s)	113, 347, 541
DdeI	CTNAG	1 cut(s)	554
DpnI	GATC	2 cut(s)	336, 405
DpnII	GATC	2 cut(s)	334, 403
Eam1104I	CTCTTC	3 cut(s)	13, 24, 157
EarI	CTCTTC	3 cut(s)	13, 24, 157
Eco130I	CCWWGG	1 cut(s)	576
Eco24I	GRGCYC	2 cut(s)	84, 519
Eco31I	GGTCTC	2 cut(s)	118, 785
Eco47III	AGCGCT	1 cut(s)	312
Eco57I	CTGAAG	1 cut(s)	225
Eco72I	CACGTG	1 cut(s)	572
EcoRI	GAATTC	3 cut(s)	135, 549, 799
EcoRII	CCWGG	1 cut(s)	83
EcoT14I	CCWWGG	1 cut(s)	576
EcoT22I	ATGCAT	1 cut(s)	333
EcoT38I	GRGCYC	2 cut(s)	84, 519
ErhI	CCWWGG	1 cut(s)	576
FaeI	CATG	5 cut(s)	53, 331, 335, 508, 647
FaqI	GGGAC	2 cut(s)	371, 620
FatI	CATG	5 cut(s)	49, 327, 331, 504, 643
FauI	CCCGC	1 cut(s)	697
FauNDI	CATATG	1 cut(s)	433
FbaI	TGATCA	1 cut(s)	334
Fnu4HI	GCNGC	2 cut(s)	62, 258
FokI	GGATG	2 cut(s)	587, 725
FriOI	GRGCYC	2 cut(s)	84, 519
Fsp4HI	GCNGC	2 cut(s)	62, 258
FspBI	CTAG	1 cut(s)	587
GlaI	GCGC	1 cut(s)	312
GluI	GCNGC	2 cut(s)	62, 258
GsaI	CCCAGC	1 cut(s)	311
HaeII	RGCGCY	1 cut(s)	314
HaeIII	GGCC	1 cut(s)	675
HapII	CCGG	3 cut(s)	14, 604, 676
HhaI	GCGC	1 cut(s)	313
Hin1II	CATG	5 cut(s)	53, 331, 335, 508, 647
Hin6I	GCGC	1 cut(s)	311
HinP1I	GCGC	1 cut(s)	311
HinfI	GANTC	4 cut(s)	179, 248, 629, 782
HpaII	CCGG	3 cut(s)	14, 604, 676
HphI	GGTGA	2 cut(s)	38, 236
Hpy166II	GTNNAC	1 cut(s)	812
Hpy188I	TCNGA	3 cut(s)	178, 205, 766
Hpy188III	TCNNGA	5 cut(s)	132, 401, 479, 626, 633
Hpy8I	GTNNAC	1 cut(s)	812
HpyAV	CCTTC	4 cut(s)	138, 238, 290, 648
HpyCH4III	ACNGT	1 cut(s)	212
HpyCH4IV	ACGT	1 cut(s)	571
HpyCH4V	TGCA	8 cut(s)	4, 77, 260, 331, 533, 647, 716, 812
HpyF10VI	GCNNNNNNNGC	1 cut(s)	337
HpyF3I	CTNAG	1 cut(s)	554
HpySE526I	ACGT	1 cut(s)	571
Hsp92II	CATG	5 cut(s)	53, 331, 335, 508, 647
HspAI	GCGC	1 cut(s)	311
Ksp22I	TGATCA	1 cut(s)	334
Kzo9I	GATC	2 cut(s)	334, 403
LmnI	GCTCC	1 cut(s)	428
Lsp1109I	GCAGC	2 cut(s)	73, 244
LweI	GCATC	2 cut(s)	209, 703
MaeI	CTAG	1 cut(s)	587
MaeII	ACGT	1 cut(s)	571
MaeIII	GTNAC	1 cut(s)	323
MalI	GATC	2 cut(s)	336, 405
MboI	GATC	2 cut(s)	334, 403
MboII	GAAGA	8 cut(s)	30, 41, 144, 218, 573, 614, 697, 795
MfeI	CAATTG	1 cut(s)	446
MflI	RGATCY	1 cut(s)	403
MhlI	GDGCHC	4 cut(s)	84, 519, 661, 814
MluCI	AATT	5 cut(s)	135, 145, 446, 549, 799
MlyI	GAGTC	3 cut(s)	188, 638, 776
MmeI	TCCRAC	1 cut(s)	346
Mph1103I	ATGCAT	1 cut(s)	333
MslI	CAYNNNNRTG	1 cut(s)	642
MspI	CCGG	3 cut(s)	14, 604, 676
MspR9I	CCNGG	3 cut(s)	15, 85, 605
MunI	CAATTG	1 cut(s)	446
Mva1269I	GAATGC	2 cut(s)	477, 535
MvaI	CCWGG	1 cut(s)	85
MwoI	GCNNNNNNNGC	1 cut(s)	337
NciI	CCSGG	2 cut(s)	15, 605
NdeI	CATATG	1 cut(s)	433
NdeII	GATC	2 cut(s)	334, 403
NlaIII	CATG	5 cut(s)	53, 331, 335, 508, 647
NlaIV	GGNNCC	2 cut(s)	175, 405
NsiI	ATGCAT	1 cut(s)	333
NspI	RCATGY	2 cut(s)	331, 647
PaeI	GCATGC	1 cut(s)	647
PctI	GAATGC	2 cut(s)	477, 535
PfeI	GAWTC	1 cut(s)	248
PflMI	CCANNNNNTGG	2 cut(s)	413, 467
PfoI	TCCNGGA	1 cut(s)	603
PkrI	GCNGC	2 cut(s)	63, 259
PleI	GAGTC	3 cut(s)	187, 637, 776
PmaCI	CACGTG	1 cut(s)	572
PmlI	CACGTG	1 cut(s)	572
PpsI	GAGTC	3 cut(s)	187, 637, 776
Ppu21I	YACGTR	1 cut(s)	572
Psp6I	CCWGG	1 cut(s)	83
PspCI	CACGTG	1 cut(s)	572
PspFI	CCCAGC	1 cut(s)	307
PspGI	CCWGG	1 cut(s)	83
PspN4I	GGNNCC	2 cut(s)	175, 405
PstNI	CAGNNNCTG	2 cut(s)	203, 764
PsuI	RGATCY	1 cut(s)	403
RsaI	GTAC	3 cut(s)	114, 348, 542
RsaNI	GTAC	3 cut(s)	113, 347, 541
RseI	CAYNNNNRTG	1 cut(s)	642
SatI	GCNGC	2 cut(s)	62, 258
Sau3AI	GATC	2 cut(s)	334, 403
SchI	GAGTC	3 cut(s)	188, 638, 776
ScrFI	CCNGG	3 cut(s)	15, 85, 605
SduI	GDGCHC	4 cut(s)	84, 519, 661, 814
SetI	ASST	8 cut(s)	118, 130, 259, 363, 493, 574, 588, 699
SfaNI	GCATC	2 cut(s)	209, 703
SmiMI	CAYNNNNRTG	1 cut(s)	642
SmlI	CTYRAG	1 cut(s)	117
SmoI	CTYRAG	1 cut(s)	117
SphI	GCATGC	1 cut(s)	647
Sse9I	AATT	5 cut(s)	135, 145, 446, 549, 799
SsiI	CCGC	1 cut(s)	704
SspMI	CTAG	1 cut(s)	587
StyD4I	CCNGG	3 cut(s)	13, 83, 603
StyI	CCWWGG	1 cut(s)	576
TaaI	ACNGT	1 cut(s)	212
TaiI	ACGT	1 cut(s)	574
TasI	AATT	5 cut(s)	135, 145, 446, 549, 799
TatI	WGTACW	1 cut(s)	346
TfiI	GAWTC	1 cut(s)	248
TseI	GCWGC	2 cut(s)	61, 257
TspDTI	ATGAA	1 cut(s)	182
TspGWI	ACGGA	2 cut(s)	303, 311
Van91I	CCANNNNNTGG	2 cut(s)	413, 467
VneI	GTGCAC	1 cut(s)	810
XapI	RAATTY	4 cut(s)	135, 145, 549, 799
XceI	RCATGY	2 cut(s)	331, 647
XspI	CTAG	1 cut(s)	587
Zsp2I	ATGCAT	1 cut(s)	333

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.