Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0015126

Physical Location & Seq

Genomic Coordinates Forward (+)

4419960 .. 4421751

Gene Structure 1792 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G13540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGATGTCATGTGGTGGGAAGAAGCCAGTGTCTAAGAAAACAACGCCGTGTTGCACGAAGATGGGGATGAAGAGAGGACCATGGACGGTGGAGGAAGACGAGATTCTTGTGAGCTTCATTAAGAAAGAAGGTGAAGGACGGTGGCGATCGCTTCCTAAGAGAGCTGGTTTACTCAGATGTGGAAAGAGCTGTCGTCTACGGTGGATGAACTATCTCCGACCCTCGGTTAAACGTGGAGGAATTACGTCGGACGAGGAAGATCTCATCCTCCGTCTTCACCGCCTCCTCGGCAACAGGTGGTCATTGATCGCGGGAAGGATACCGGGAAGGACTGATAATGAAATTAAGAACTATTGGAACACTCATCTTCGTAAGAAACTTTTAAGGCAAGGAATTGATCCTCAAACCCACAAGCCTCTTGATGCAAACAACATCCATAAACCAGAAGAAGAAGTTTCCGGTGGACAAAAGTACCCTCTAGAGCCTATTTCTAGTTCTCATACTGATGATACCACTGTTAATGGCGGGGATGGAGATAGCAAGAACAGTATCAATGTCTTTGGTGGTGAACACGGCTACGAAGACTTTGGTTTCTGCTACGACGACAAGTTCTCATCGTTTCTTAATTCGCTCATCAACGATGTTGGTGATCCTTTTGGTAATATTATCCCAATATCTCAACCTTTGCAGATGGATGATTGTAAGGATGGGATTGTTGGAGCGTCGTCTTCTAGCTTAGGACATGACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001134 GO:0001135 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009987 GO:0010026 GO:0010090 GO:0010154 GO:0010191 GO:0010192 GO:0010214 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032989 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044249 GO:0044424 GO:0044464 GO:0048316 GO:0048354 GO:0048359 GO:0048468 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0071840 GO:0080090 GO:0090558 GO:0090626 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_DNA-binding

Protein Analysis

249

Amino Acids

27.79

Weight (kDa)

8.41

Isoelectric Point (pI)

58.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	25 - 72	3.1e-16	Myb-like DNA-binding domain
Myb_DNA-bind_6	PF13921	28 - 86	6.9e-08	Myb-like DNA-binding domain
Myb_DNA-binding	PF00249	79 - 123	3.9e-16	Myb-like DNA-binding domain
Myb_DNA-bind_6	PF13921	82 - 132	8.6e-08	Myb-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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Orthologous Genes (Group: OG0015126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13540
fragaria_vesca	FvH4_3g45450
malus_domestica	MD11G1006500.v1.1 MD11G1007500.v1.1
prunus_persica	Prupe.6G004700_v2.0.a1
pyrus_communis	pycom11g00510
rosa_laevigata	RLG00000037022
rosa_multiflora	Rmu_co8442277.1_g000001 Rmu_sc0011792.1_g000005
rosa_roxburghii	Rroxscaffold_1G00001240
rosa_rugosa	Rorug05G0483600
rosa_samantha	Rh5AG533000 Rh5BG560300 Rh5CG583000 Rh5DG569600
rosa_wichuraiana	Rw5G049990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	196
AccII	CGCG	1 cut(s)	311
AciI	CCGC	3 cut(s)	280, 311, 525
AclWI	GGATC	2 cut(s)	392, 644
AfaI	GTAC	1 cut(s)	473
AfiI	CCNNNNNNNGG	1 cut(s)	223
AluBI	AGCT	4 cut(s)	114, 164, 189, 735
AluI	AGCT	4 cut(s)	114, 164, 189, 735
AlwI	GGATC	2 cut(s)	392, 644
AsiSI	GCGATCGC	1 cut(s)	149
AspS9I	GGNCC	1 cut(s)	77
AsuC2I	CCSGG	1 cut(s)	324
AsuHPI	GGTGA	4 cut(s)	143, 269, 578, 659
AvaII	GGWCC	1 cut(s)	77
BaeI	ACNNNNGTAYC	4 cut(s)	455, 488, 501, 534
BbsI	GAAGAC	4 cut(s)	102, 266, 588, 720
BccI	CCATC	4 cut(s)	55, 524, 685, 701
BceAI	ACGGC	2 cut(s)	31, 589
BciVI	GTATCC	1 cut(s)	312
BcnI	CCSGG	1 cut(s)	324
BfaI	CTAG	4 cut(s)	479, 492, 732, 748
BfuI	GTATCC	1 cut(s)	312
BglI	GCCNNNNNGGC	1 cut(s)	288
BglII	AGATCT	1 cut(s)	259
Bme1390I	CCNGG	1 cut(s)	324
Bme18I	GGWCC	1 cut(s)	77
BmgT120I	GGNCC	1 cut(s)	77
BmrFI	CCNGG	1 cut(s)	324
BmsI	GCATC	1 cut(s)	412
BpiI	GAAGAC	4 cut(s)	102, 266, 588, 720
Bpu10I	CCTNAGC	1 cut(s)	736
BpuMI	CCSGG	1 cut(s)	324
BsaJI	CCNNGG	3 cut(s)	80, 222, 286
BsaWI	WCCGGW	1 cut(s)	458
Bsc4I	CCNNNNNNNGG	1 cut(s)	223
Bse1I	ACTGG	1 cut(s)	26
BseDI	CCNNGG	3 cut(s)	80, 222, 286
BseGI	GGATG	7 cut(s)	72, 210, 264, 432, 535, 700, 712
BseLI	CCNNNNNNNGG	1 cut(s)	223
BseMII	CTCAG	1 cut(s)	187
BseNI	ACTGG	1 cut(s)	26
BseRI	GAGGAG	1 cut(s)	275
Bsh1236I	CGCG	1 cut(s)	311
Bsh1285I	CGRYCG	1 cut(s)	149
BsiEI	CGRYCG	1 cut(s)	149
BsiSI	CCGG	2 cut(s)	323, 459
BslI	CCNNNNNNNGG	1 cut(s)	223
Bsp143I	GATC	5 cut(s)	146, 259, 306, 397, 649
Bsp19I	CCATGG	1 cut(s)	80
BspACI	CCGC	3 cut(s)	280, 311, 525
BspCNI	CTCAG	1 cut(s)	186
BspFNI	CGCG	1 cut(s)	311
BspPI	GGATC	2 cut(s)	392, 644
BsrI	ACTGG	1 cut(s)	26
BssECI	CCNNGG	3 cut(s)	80, 222, 286
BssMI	GATC	5 cut(s)	146, 259, 306, 397, 649
BssT1I	CCWWGG	1 cut(s)	80
Bst4CI	ACNGT	5 cut(s)	88, 141, 201, 517, 548
Bst6I	CTCTTC	1 cut(s)	65
BstDEI	CTNAG	4 cut(s)	33, 156, 173, 736
BstDSI	CCRYGG	1 cut(s)	80
BstF5I	GGATG	7 cut(s)	72, 210, 264, 432, 535, 700, 712
BstFNI	CGCG	1 cut(s)	311
BstKTI	GATC	5 cut(s)	149, 262, 309, 400, 652
BstMBI	GATC	5 cut(s)	146, 259, 306, 397, 649
BstMCI	CGRYCG	1 cut(s)	149
BstMWI	GCNNNNNNNGC	1 cut(s)	288
BstSCI	CCNGG	1 cut(s)	322
BstUI	CGCG	1 cut(s)	311
BstV2I	GAAGAC	4 cut(s)	102, 266, 588, 720
BstX2I	RGATCY	1 cut(s)	259
BstYI	RGATCY	1 cut(s)	259
BsuI	GTATCC	1 cut(s)	312
BtgI	CCRYGG	1 cut(s)	80
BtsCI	GGATG	7 cut(s)	72, 210, 264, 432, 535, 700, 712
BtsIMutI	CAGTG	2 cut(s)	33, 513
Cfr13I	GGNCC	1 cut(s)	77
CseI	GACGC	1 cut(s)	711
Csp6I	GTAC	1 cut(s)	472
CviAII	CATG	3 cut(s)	9, 81, 743
CviJI	RGCY	8 cut(s)	25, 114, 164, 189, 415, 484, 576, 735
CviKI_1	RGCY	8 cut(s)	25, 114, 164, 189, 415, 484, 576, 735
CviQI	GTAC	1 cut(s)	472
DdeI	CTNAG	4 cut(s)	33, 156, 173, 736
DpnI	GATC	5 cut(s)	148, 261, 308, 399, 651
DpnII	GATC	5 cut(s)	146, 259, 306, 397, 649
Eam1104I	CTCTTC	1 cut(s)	65
EarI	CTCTTC	1 cut(s)	65
Eco130I	CCWWGG	1 cut(s)	80
Eco47I	GGWCC	1 cut(s)	77
EcoT14I	CCWWGG	1 cut(s)	80
ErhI	CCWWGG	1 cut(s)	80
FaeI	CATG	3 cut(s)	12, 84, 746
FaiI	YATR	5 cut(s)	10, 82, 438, 501, 744
FatI	CATG	3 cut(s)	8, 80, 742
FauI	CCCGC	2 cut(s)	304, 518
FblI	GTMKAC	1 cut(s)	196
FokI	GGATG	7 cut(s)	79, 217, 251, 419, 542, 707, 719
FspBI	CTAG	4 cut(s)	479, 492, 732, 748
HapII	CCGG	2 cut(s)	323, 459
HgaI	GACGC	1 cut(s)	711
Hin1II	CATG	3 cut(s)	12, 84, 746
HinfI	GANTC	1 cut(s)	103
HpaII	CCGG	2 cut(s)	323, 459
HphI	GGTGA	4 cut(s)	143, 269, 578, 659
Hpy166II	GTNNAC	4 cut(s)	170, 197, 464, 569
Hpy188I	TCNGA	3 cut(s)	176, 218, 250
Hpy188III	TCNNGA	2 cut(s)	419, 479
Hpy8I	GTNNAC	4 cut(s)	170, 197, 464, 569
Hpy99I	CGWCG	3 cut(s)	250, 605, 727
HpyAV	CCTTC	4 cut(s)	122, 128, 309, 321
HpyCH4III	ACNGT	5 cut(s)	88, 141, 201, 517, 548
HpyCH4IV	ACGT	2 cut(s)	232, 245
HpyCH4V	TGCA	3 cut(s)	54, 425, 688
HpyF10VI	GCNNNNNNNGC	1 cut(s)	288
HpyF3I	CTNAG	4 cut(s)	33, 156, 173, 736
HpySE526I	ACGT	2 cut(s)	232, 245
Hsp92II	CATG	3 cut(s)	12, 84, 746
Kzo9I	GATC	5 cut(s)	146, 259, 306, 397, 649
LmnI	GCTCC	1 cut(s)	719
LpnPI	CCDG	6 cut(s)	39, 150, 280, 336, 456, 472
LweI	GCATC	1 cut(s)	412
MaeI	CTAG	4 cut(s)	479, 492, 732, 748
MaeII	ACGT	2 cut(s)	232, 245
MalI	GATC	5 cut(s)	148, 261, 308, 399, 651
MboI	GATC	5 cut(s)	146, 259, 306, 397, 649
MflI	RGATCY	1 cut(s)	259
MluCI	AATT	4 cut(s)	240, 342, 393, 625
MmeI	TCCRAC	3 cut(s)	228, 241, 697
MseI	TTAA	6 cut(s)	120, 228, 345, 383, 519, 624
MslI	CAYNNNNRTG	2 cut(s)	59, 504
MspI	CCGG	2 cut(s)	323, 459
MspR9I	CCNGG	1 cut(s)	324
MvnI	CGCG	1 cut(s)	311
MwoI	GCNNNNNNNGC	1 cut(s)	288
NciI	CCSGG	1 cut(s)	324
NcoI	CCATGG	1 cut(s)	80
NdeII	GATC	5 cut(s)	146, 259, 306, 397, 649
NlaIII	CATG	3 cut(s)	12, 84, 746
NmeAIII	GCCGAG	1 cut(s)	267
PfeI	GAWTC	1 cut(s)	103
Ple19I	CGATCG	1 cut(s)	149
PspPI	GGNCC	1 cut(s)	77
PsuI	RGATCY	1 cut(s)	259
PvuI	CGATCG	1 cut(s)	149
RgaI	GCGATCGC	1 cut(s)	149
RsaI	GTAC	1 cut(s)	473
RsaNI	GTAC	1 cut(s)	472
RseI	CAYNNNNRTG	2 cut(s)	59, 504
SaqAI	TTAA	6 cut(s)	120, 228, 345, 383, 519, 624
Sau3AI	GATC	5 cut(s)	146, 259, 306, 397, 649
Sau96I	GGNCC	1 cut(s)	77
ScrFI	CCNGG	1 cut(s)	324
SetI	ASST	9 cut(s)	116, 133, 166, 191, 235, 248, 299, 685, 737
SfaAI	GCGATCGC	1 cut(s)	149
SfaNI	GCATC	1 cut(s)	412
SgfI	GCGATCGC	1 cut(s)	149
SinI	GGWCC	1 cut(s)	77
SmiMI	CAYNNNNRTG	2 cut(s)	59, 504
Sse9I	AATT	4 cut(s)	240, 342, 393, 625
SsiI	CCGC	3 cut(s)	280, 311, 525
SspI	AATATT	1 cut(s)	664
SspMI	CTAG	4 cut(s)	479, 492, 732, 748
StyD4I	CCNGG	1 cut(s)	322
StyI	CCWWGG	1 cut(s)	80
TaaI	ACNGT	5 cut(s)	88, 141, 201, 517, 548
TaiI	ACGT	2 cut(s)	235, 248
TasI	AATT	4 cut(s)	240, 342, 393, 625
TfiI	GAWTC	1 cut(s)	103
Tru1I	TTAA	6 cut(s)	120, 228, 345, 383, 519, 624
Tru9I	TTAA	6 cut(s)	120, 228, 345, 383, 519, 624
TscAI	CASTG	2 cut(s)	33, 520
TspDTI	ATGAA	4 cut(s)	83, 106, 221, 354
TspGWI	ACGGA	1 cut(s)	260
TspRI	CASTG	2 cut(s)	33, 520
VpaK11BI	GGWCC	1 cut(s)	77
XbaI	TCTAGA	1 cut(s)	478
XmiI	GTMKAC	1 cut(s)	196
XspI	CTAG	4 cut(s)	479, 492, 732, 748

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