Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001854

Physical Location & Seq

Genomic Coordinates Reverse (-)

19774318 .. 19776289

Gene Structure 1972 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G53340.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 531 bp

ATGGCCGAATCGCAAACCGGTGGTGGTGGTGGTGGAAGCCATGAGAGTGGCGGTGATCAGAGCCCGAGGTCTTTGAATGTTCGTGAGCAGGACAGGTTTCTTCCGATTGCTAACATAAGCCGTATCATGAAGAGAGGTTTACCTCTAAATGGCAAAATCGCTAAAGATGCTAAAGAGACTATGCAGGAATGTGTCTCTGAATTCATCAGCTTCGTCACCAGCGAGGCTAGTGATAAGTGCCAAAGAGAGAAAAGGAAGACCATCAATGGAGATGATTTGCTTTGGGCTATGGCCACTTTAGGATTCGAAGATTACATCGATCCCCTCAAGGTTTACCTGATGCGATATAGAGAGATGGAGGGTGACACTAAAGGATCAGGAAAAGGCGGGGAATCGAGTGCAAAGAGAGATGGTCAACCAAGCCAAGTGTCTCAGTTCTCGCAGGTTCCTCAACAAGGCTCATTCTCACAGGGTCCTTATGGAAACTCTCAAGGTTCGAATATGATGGTTCAAATGCCGGGCACAGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006082 GO:0006355 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016143 GO:0019219 GO:0019222 GO:0019748 GO:0019757 GO:0019760 GO:0031323 GO:0031326 GO:0043436 GO:0043565 GO:0044237 GO:0044281 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0097159 GO:0140110 GO:1901135 GO:1901363 GO:1901564 GO:1901657 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

176

Amino Acids

19.16

Weight (kDa)

5.58

Isoelectric Point (pI)

49.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFD_NFYB_HMF	PF00808	33 - 97	6.4e-27	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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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0001854)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37060 AT2G37060 AT2G37060 AT3G53340 AT3G53340 AT3G53340 AT3G53340 AT3G53340
fragaria_vesca	FvH4_6g15260 FvH4_6g15260 FvH4_6g15260 FvH4_6g15260 FvH4_6g15260
malus_domestica	MD04G1104700.v1.1 MD12G1124800.v1.1
prunus_persica	Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1
pyrus_communis	pycom04g09970 pycom12g12320
rosa_chinensis	RchiOBHm_Chr2g0145071 RchiOBHm_Chr3g0468661 RchiOBHm_Chr5g0066261
rosa_laevigata	RLG00000024032 RLG00000024417
rosa_multiflora	Rmu_co8446349.1_g000001 Rmu_sc0009516.1_g000001 Rmu_sc0011538.1_g000009
rosa_roxburghii	Rroxscaffold_1G00010930 Rroxscaffold_6G00412670
rosa_rugosa	Rorug03G0096100 Rorug03G0096200 Rorug03G0096200 Rorug03G0096200
rosa_samantha	Rh1AG429500 Rh1BG152900 Rh2AG054200 Rh2DG539500 Rh3AG144900 Rh3BG167300 Rh3BG326700 Rh3DG166200
rosa_wichuraiana	Rw3G013660 Rw6G026160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	433
AciI	CCGC	2 cut(s)	51, 387
AclWI	GGATC	2 cut(s)	314, 382
AcoI	YGGCCR	2 cut(s)	3, 291
AcsI	RAATTY	1 cut(s)	200
AfiI	CCNNNNNNNGG	2 cut(s)	149, 455
AgeI	ACCGGT	1 cut(s)	17
AgsI	TTSAA	2 cut(s)	76, 512
AluBI	AGCT	1 cut(s)	210
AluI	AGCT	1 cut(s)	210
Alw26I	GTCTC	3 cut(s)	170, 199, 435
AlwI	GGATC	2 cut(s)	314, 382
Ama87I	CYCGRG	1 cut(s)	64
AoxI	GGCC	2 cut(s)	3, 291
ApoI	RAATTY	1 cut(s)	200
AsiGI	ACCGGT	1 cut(s)	17
AspS9I	GGNCC	1 cut(s)	473
AsuC2I	CCSGG	1 cut(s)	519
AsuHPI	GGTGA	3 cut(s)	65, 208, 374
AsuII	TTCGAA	2 cut(s)	306, 497
AvaI	CYCGRG	1 cut(s)	64
AvaII	GGWCC	1 cut(s)	473
BaeGI	GKGCMC	1 cut(s)	524
BalI	TGGCCA	1 cut(s)	293
BanII	GRGCYC	1 cut(s)	65
BbsI	GAAGAC	1 cut(s)	263
BccI	CCATC	4 cut(s)	269, 349, 404, 499
BceAI	ACGGC	1 cut(s)	105
BclI	TGATCA	1 cut(s)	55
BcnI	CCSGG	1 cut(s)	519
BcoDI	GTCTC	3 cut(s)	170, 199, 435
BfaI	CTAG	1 cut(s)	228
BfuAI	ACCTGC	1 cut(s)	433
Bme1390I	CCNGG	1 cut(s)	519
Bme18I	GGWCC	1 cut(s)	473
BmeT110I	CYCGRG	1 cut(s)	64
BmgT120I	GGNCC	1 cut(s)	473
BmiI	GGNNCC	2 cut(s)	447, 474
BmrFI	CCNGG	1 cut(s)	519
BmsI	GCATC	2 cut(s)	157, 330
BpiI	GAAGAC	1 cut(s)	263
Bpu14I	TTCGAA	2 cut(s)	306, 497
BpuEI	CTTGAG	2 cut(s)	311, 474
BpuMI	CCSGG	1 cut(s)	519
Bsa29I	ATCGAT	1 cut(s)	318
BsaJI	CCNNGG	1 cut(s)	65
BsaWI	WCCGGW	1 cut(s)	17
Bsc4I	CCNNNNNNNGG	2 cut(s)	149, 455
Bse118I	RCCGGY	1 cut(s)	17
BseCI	ATCGAT	1 cut(s)	318
BseDI	CCNNGG	1 cut(s)	65
BseLI	CCNNNNNNNGG	2 cut(s)	149, 455
BseMII	CTCAG	1 cut(s)	446
BseSI	GKGCMC	1 cut(s)	524
BshFI	GGCC	2 cut(s)	5, 293
BshTI	ACCGGT	1 cut(s)	17
BshVI	ATCGAT	1 cut(s)	318
BsiHKCI	CYCGRG	1 cut(s)	64
BsiSI	CCGG	2 cut(s)	18, 518
BslI	CCNNNNNNNGG	2 cut(s)	149, 455
BsmAI	GTCTC	3 cut(s)	170, 199, 435
BsnI	GGCC	2 cut(s)	5, 293
BsoBI	CYCGRG	1 cut(s)	64
Bsp119I	TTCGAA	2 cut(s)	306, 497
Bsp1286I	GDGCHC	2 cut(s)	65, 524
Bsp143I	GATC	3 cut(s)	55, 319, 374
BspACI	CCGC	2 cut(s)	51, 387
BspANI	GGCC	2 cut(s)	5, 293
BspCNI	CTCAG	1 cut(s)	445
BspDI	ATCGAT	1 cut(s)	318
BspHI	TCATGA	1 cut(s)	126
BspLI	GGNNCC	2 cut(s)	447, 474
BspMI	ACCTGC	1 cut(s)	433
BspPI	GGATC	2 cut(s)	314, 382
BspT104I	TTCGAA	2 cut(s)	306, 497
BsrFI	RCCGGY	1 cut(s)	17
BssAI	RCCGGY	1 cut(s)	17
BssECI	CCNNGG	1 cut(s)	65
BssMI	GATC	3 cut(s)	55, 319, 374
Bst6I	CTCTTC	1 cut(s)	125
BstBI	TTCGAA	2 cut(s)	306, 497
BstDEI	CTNAG	1 cut(s)	432
BstENI	CCTNNNNNAGG	1 cut(s)	453
BstKTI	GATC	3 cut(s)	58, 322, 377
BstMAI	GTCTC	3 cut(s)	170, 199, 435
BstMBI	GATC	3 cut(s)	55, 319, 374
BstMWI	GCNNNNNNNGC	1 cut(s)	167
BstSCI	CCNGG	1 cut(s)	517
BstSLI	GKGCMC	1 cut(s)	524
BstV2I	GAAGAC	1 cut(s)	263
BstXI	CCANNNNNNTGG	1 cut(s)	47
Bsu15I	ATCGAT	1 cut(s)	318
BsuRI	GGCC	2 cut(s)	5, 293
BsuTUI	ATCGAT	1 cut(s)	318
BveI	ACCTGC	1 cut(s)	433
CciI	TCATGA	1 cut(s)	126
Cfr10I	RCCGGY	1 cut(s)	17
Cfr13I	GGNCC	1 cut(s)	473
ClaI	ATCGAT	1 cut(s)	318
CspAI	ACCGGT	1 cut(s)	17
CviAII	CATG	2 cut(s)	41, 127
DdeI	CTNAG	1 cut(s)	432
DpnI	GATC	3 cut(s)	57, 321, 376
DpnII	GATC	3 cut(s)	55, 319, 374
EaeI	YGGCCR	2 cut(s)	3, 291
Eam1104I	CTCTTC	1 cut(s)	125
EarI	CTCTTC	1 cut(s)	125
Eco24I	GRGCYC	1 cut(s)	65
Eco47I	GGWCC	1 cut(s)	473
Eco88I	CYCGRG	1 cut(s)	64
EcoNI	CCTNNNNNAGG	1 cut(s)	453
EcoO109I	RGGNCCY	1 cut(s)	473
EcoRI	GAATTC	1 cut(s)	200
EcoT38I	GRGCYC	1 cut(s)	65
FaeI	CATG	2 cut(s)	44, 130
FaiI	YATR	8 cut(s)	42, 116, 128, 182, 290, 348, 480, 503
FatI	CATG	2 cut(s)	40, 126
FauI	CCCGC	1 cut(s)	380
FbaI	TGATCA	1 cut(s)	55
FriOI	GRGCYC	1 cut(s)	65
FspBI	CTAG	1 cut(s)	228
HaeIII	GGCC	2 cut(s)	5, 293
HapII	CCGG	2 cut(s)	18, 518
Hin1II	CATG	2 cut(s)	44, 130
HincII	GTYRAC	1 cut(s)	416
HindII	GTYRAC	1 cut(s)	416
HinfI	GANTC	3 cut(s)	8, 303, 392
HpaII	CCGG	2 cut(s)	18, 518
HphI	GGTGA	3 cut(s)	65, 208, 374
Hpy166II	GTNNAC	3 cut(s)	140, 334, 416
Hpy188I	TCNGA	3 cut(s)	60, 105, 199
Hpy188III	TCNNGA	3 cut(s)	83, 127, 378
Hpy8I	GTNNAC	3 cut(s)	140, 334, 416
HpyCH4V	TGCA	2 cut(s)	184, 401
HpyF10VI	GCNNNNNNNGC	1 cut(s)	167
HpyF3I	CTNAG	1 cut(s)	432
Hsp92II	CATG	2 cut(s)	44, 130
Ksp22I	TGATCA	1 cut(s)	55
Kzo9I	GATC	3 cut(s)	55, 319, 374
LpnPI	CCDG	9 cut(s)	31, 74, 79, 170, 232, 350, 363, 428, 455
LweI	GCATC	2 cut(s)	157, 330
MaeI	CTAG	1 cut(s)	228
MaeIII	GTNAC	2 cut(s)	214, 362
MalI	GATC	3 cut(s)	57, 321, 376
MboI	GATC	3 cut(s)	55, 319, 374
MboII	GAAGA	4 cut(s)	92, 142, 268, 320
MhlI	GDGCHC	2 cut(s)	65, 524
MlsI	TGGCCA	1 cut(s)	293
MluCI	AATT	1 cut(s)	200
MluNI	TGGCCA	1 cut(s)	293
MnlI	CCTC	7 cut(s)	60, 128, 153, 217, 335, 352, 459
Mox20I	TGGCCA	1 cut(s)	293
MscI	TGGCCA	1 cut(s)	293
MslI	CAYNNNNRTG	1 cut(s)	45
Msp20I	TGGCCA	1 cut(s)	293
MspI	CCGG	2 cut(s)	18, 518
MspR9I	CCNGG	1 cut(s)	519
MwoI	GCNNNNNNNGC	1 cut(s)	167
NciI	CCSGG	1 cut(s)	519
NdeII	GATC	3 cut(s)	55, 319, 374
NlaIII	CATG	2 cut(s)	44, 130
NlaIV	GGNNCC	2 cut(s)	447, 474
NmuCI	GTSAC	2 cut(s)	214, 362
NspV	TTCGAA	2 cut(s)	306, 497
PagI	TCATGA	1 cut(s)	126
PcsI	WCGNNNNNNNCGW	1 cut(s)	219
PfeI	GAWTC	3 cut(s)	8, 303, 392
PinAI	ACCGGT	1 cut(s)	17
PpuMI	RGGWCCY	1 cut(s)	473
Psp5II	RGGWCCY	1 cut(s)	473
PspN4I	GGNNCC	2 cut(s)	447, 474
PspPI	GGNCC	1 cut(s)	473
PspPPI	RGGWCCY	1 cut(s)	473
RseI	CAYNNNNRTG	1 cut(s)	45
Sau3AI	GATC	3 cut(s)	55, 319, 374
Sau96I	GGNCC	1 cut(s)	473
ScrFI	CCNGG	1 cut(s)	519
SduI	GDGCHC	2 cut(s)	65, 524
SetI	ASST	9 cut(s)	71, 98, 139, 145, 212, 333, 339, 447, 496
SfaNI	GCATC	2 cut(s)	157, 330
SfuI	TTCGAA	2 cut(s)	306, 497
SinI	GGWCC	1 cut(s)	473
SmiMI	CAYNNNNRTG	1 cut(s)	45
SmlI	CTYRAG	2 cut(s)	326, 489
SmoI	CTYRAG	2 cut(s)	326, 489
Sse9I	AATT	1 cut(s)	200
SsiI	CCGC	2 cut(s)	51, 387
SspMI	CTAG	1 cut(s)	228
StyD4I	CCNGG	1 cut(s)	517
TaqI	TCGA	4 cut(s)	306, 318, 395, 497
TasI	AATT	1 cut(s)	200
TfiI	GAWTC	3 cut(s)	8, 303, 392
TseFI	GTSAC	2 cut(s)	214, 362
Tsp45I	GTSAC	2 cut(s)	214, 362
TspDTI	ATGAA	2 cut(s)	143, 193
VpaK11BI	GGWCC	1 cut(s)	473
XagI	CCTNNNNNAGG	1 cut(s)	453
XapI	RAATTY	1 cut(s)	200
XspI	CTAG	1 cut(s)	228

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