Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0006781

Physical Location & Seq

Genomic Coordinates Forward (+)

17000259 .. 17002607

Gene Structure 2349 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G42520.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGGATGATGGTGGGCATCGTGAGAATGGTCGGCATAAAGCAGCAGTTCAGGGCCAGTGGTTGATGCAGCATCAGCCGTCGATGAAACAAGTGATGTCGATAATAGCAGAGCGCGATGCAGCGATTCAGGAGAGAAATCTGGCGATATCAGAGAAAAAAGCAGCAGTAGCTGAAAGGGACATGGCGTTTCTTCAGAGGGACACCGCCATTGCTGAGCGCAACAATGCGATAATGGAGAGAGACAGTGCTCTTACAGCACTCCAATACCGTGAGAACTCTATGGTTACTGCTCCTGCTGCCAATATGTCAGCATGTCCACCAGGATGTCAAATATCACGTGGTGTAAAACACTTGCACCATCCGCACATGCATCATCATCATCAACAACATCACATACCTCAGTTGACTGAAAATGCATATGAAACCAGAGAGATGGAGCCAAATGATGGTCTCCCAACATCACCACCTGCCGGATCCACCTTGGAATCTGCCAAACCAAAACGTGGTAAAAGAGTGAACCCAAAGGCGACAACACAAACTGCTGCTAATAAGAGAGGGCCAAAAAATCAGAGGAAGGTTAAGAAAGAGAGCGAGGACGACTTAAACAAGATAATGTTTGTAAAGACGACCCATGACTACACAGACGAAGATTCAAGTAAGCATATCTTAATAGGATCAAAATCTGACTGGAAAAGTCAAGAAATGGTGGGGCTGAACCAAGTGGTTTACGACGAGACAACGATGCCACCACCTGTATGTTCATGTACAGGAGTTCTCAGACAGTGCTACAAATGGGGAAATGGAGGTTGGCAATCATCGTGTTGCACAACTACACTATCAATGTATCCTTTACCTGCACTGCCCAACAAAAGGCATGCTCGAGTTGGTGGACGGAAAATGAGCGGAAGCGCGTTCAACAAGCTTCTAAGCCGGCTTGCTGCAGAAGGGCATCATGATCTTTCAAACCCGGTCGATCTGAAGGACCATTGGGCAAAGCACGGTACAAACCGCTACATTACGATTAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006355 GO:0008150 GO:0009719 GO:0009723 GO:0009725 GO:0009889 GO:0010033 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0042221 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046983 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GAGA_bind

Protein Analysis

342

Amino Acids

38.24

Weight (kDa)

9.29

Isoelectric Point (pI)

53.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GAGA_bind	PF06217	1 - 338	1.4e-112	GAGA binding protein-like family

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006781)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G42520 AT5G42520 AT5G42520
fragaria_vesca	FvH4_2g38840
malus_domestica	MD08G1016400.v1.1 MD15G1015400.v1.1
prunus_persica	Prupe.1G369400_v2.0.a1 Prupe.1G369400_v2.0.a1 Prupe.1G369400_v2.0.a1
pyrus_communis	pycom08g01420 pycom15g01310
rosa_chinensis	RchiOBHm_Chr6g0302391
rosa_laevigata	RLG00000011173
rosa_multiflora	Rmu_sc0003633.1_g000037 Rmu_sc0003633.1_g000038 Rmu_sc0040901.1_g000001
rosa_roxburghii	Rroxscaffold_7G00165800
rosa_rugosa	Rorug06G0313800 Rorug06G0313900 Rorug06G0313900 Rorug06G0313900
rosa_samantha	Rh6AG427000 Rh6BG475700 Rh6CG439200 Rh6DG426200
rosa_wichuraiana	Rw6G036940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	475
Acc36I	ACCTGC	2 cut(s)	475, 862
AccB7I	CCANNNNNTGG	2 cut(s)	446, 503
AccBSI	CCGCTC	1 cut(s)	903
AccII	CGCG	2 cut(s)	114, 911
AciI	CCGC	4 cut(s)	204, 362, 903, 1009
AclWI	GGATC	3 cut(s)	468, 481, 682
AcuI	CTGAAG	2 cut(s)	176, 998
AcvI	CACGTG	1 cut(s)	338
AdeI	CACNNNGTG	1 cut(s)	341
AfaI	GTAC	2 cut(s)	766, 1003
AfiI	CCNNNNNNNGG	4 cut(s)	446, 470, 503, 870
AgsI	TTSAA	3 cut(s)	654, 916, 963
AjnI	CCWGG	1 cut(s)	319
AjuI	GAANNNNNNNTTGG	2 cut(s)	790, 822
AluBI	AGCT	2 cut(s)	170, 922
AluI	AGCT	2 cut(s)	170, 922
Alw21I	GWGCWC	1 cut(s)	250
Alw26I	GTCTC	3 cut(s)	234, 455, 728
AlwI	GGATC	3 cut(s)	468, 481, 682
AlwNI	CAGNNNCTG	1 cut(s)	170
Ama87I	CYCGRG	1 cut(s)	879
AoxI	GGCC	2 cut(s)	52, 557
ApeKI	GCWGC	7 cut(s)	41, 67, 119, 161, 296, 542, 938
AspLEI	GCGC	3 cut(s)	114, 219, 911
AspS9I	GGNCC	3 cut(s)	52, 557, 982
AsuC2I	CCSGG	1 cut(s)	968
AsuHPI	GGTGA	1 cut(s)	453
AvaI	CYCGRG	1 cut(s)	879
AvaII	GGWCC	1 cut(s)	982
BamHI	GGATCC	1 cut(s)	473
BbrPI	CACGTG	1 cut(s)	338
Bbv12I	GWGCWC	1 cut(s)	250
BbvI	GCAGC	7 cut(s)	53, 79, 131, 173, 283, 529, 925
BccI	CCATC	4 cut(s)	2, 366, 427, 440
BceAI	ACGGC	1 cut(s)	61
BciT130I	CCWGG	1 cut(s)	321
BciVI	GTATCC	1 cut(s)	855
BcnI	CCSGG	1 cut(s)	968
BcoDI	GTCTC	3 cut(s)	234, 455, 728
BfmI	CTRYAG	1 cut(s)	939
BfuAI	ACCTGC	2 cut(s)	475, 862
BfuI	GTATCC	1 cut(s)	855
BisI	GCNGC	7 cut(s)	42, 68, 120, 162, 297, 543, 939
BlpI	GCTNAGC	1 cut(s)	213
BlsI	GCNGC	7 cut(s)	43, 69, 121, 163, 298, 544, 940
Bme1390I	CCNGG	2 cut(s)	321, 968
Bme18I	GGWCC	1 cut(s)	982
BmeT110I	CYCGRG	1 cut(s)	879
BmgT120I	GGNCC	3 cut(s)	52, 557, 982
BmiI	GGNNCC	2 cut(s)	438, 475
BmrFI	CCNGG	2 cut(s)	321, 968
BmsI	GCATC	7 cut(s)	25, 54, 79, 106, 379, 732, 958
Bpu1102I	GCTNAGC	1 cut(s)	213
BpuMI	CCSGG	1 cut(s)	968
BsaAI	YACGTR	1 cut(s)	338
BsaBI	GATNNNNATC	1 cut(s)	679
BsaI	GGTCTC	1 cut(s)	455
BsaJI	CCNNGG	1 cut(s)	480
Bsc4I	CCNNNNNNNGG	4 cut(s)	446, 470, 503, 870
Bse118I	RCCGGY	1 cut(s)	930
Bse1I	ACTGG	2 cut(s)	55, 692
Bse3DI	GCAATG	1 cut(s)	207
Bse8I	GATNNNNATC	1 cut(s)	679
BseBI	CCWGG	1 cut(s)	321
BseDI	CCNNGG	1 cut(s)	480
BseGI	GGATG	3 cut(s)	10, 329, 358
BseJI	GATNNNNATC	1 cut(s)	679
BseLI	CCNNNNNNNGG	4 cut(s)	446, 470, 503, 870
BseMI	GCAATG	1 cut(s)	207
BseMII	CTCAG	3 cut(s)	204, 413, 790
BseNI	ACTGG	2 cut(s)	55, 692
BseXI	GCAGC	7 cut(s)	53, 79, 131, 173, 283, 529, 925
BsgI	GTGCAG	1 cut(s)	840
Bsh1236I	CGCG	2 cut(s)	114, 911
Bsh1285I	CGRYCG	1 cut(s)	972
BshFI	GGCC	2 cut(s)	54, 559
BsiEI	CGRYCG	1 cut(s)	972
BsiHKAI	GWGCWC	1 cut(s)	250
BsiHKCI	CYCGRG	1 cut(s)	879
BsiSI	CCGG	3 cut(s)	471, 931, 968
BslFI	GGGAC	2 cut(s)	191, 212
BslI	CCNNNNNNNGG	4 cut(s)	446, 470, 503, 870
BsmAI	GTCTC	3 cut(s)	234, 455, 728
BsmFI	GGGAC	2 cut(s)	191, 212
BsnI	GGCC	2 cut(s)	54, 559
Bso31I	GGTCTC	1 cut(s)	455
BsoBI	CYCGRG	1 cut(s)	879
Bsp1286I	GDGCHC	1 cut(s)	250
Bsp1407I	TGTACA	1 cut(s)	764
Bsp143I	GATC	4 cut(s)	473, 674, 955, 973
Bsp1720I	GCTNAGC	1 cut(s)	213
BspACI	CCGC	4 cut(s)	204, 362, 903, 1009
BspANI	GGCC	2 cut(s)	54, 559
BspCNI	CTCAG	3 cut(s)	205, 412, 789
BspFNI	CGCG	2 cut(s)	114, 911
BspHI	TCATGA	1 cut(s)	952
BspLI	GGNNCC	2 cut(s)	438, 475
BspMAI	CTGCAG	1 cut(s)	943
BspMI	ACCTGC	2 cut(s)	475, 862
BspPI	GGATC	3 cut(s)	468, 481, 682
BspTNI	GGTCTC	1 cut(s)	455
BsrBI	CCGCTC	1 cut(s)	903
BsrDI	GCAATG	1 cut(s)	207
BsrFI	RCCGGY	1 cut(s)	930
BsrGI	TGTACA	1 cut(s)	764
BsrI	ACTGG	2 cut(s)	55, 692
BssAI	RCCGGY	1 cut(s)	930
BssECI	CCNNGG	1 cut(s)	480
BssMI	GATC	4 cut(s)	473, 674, 955, 973
BssT1I	CCWWGG	1 cut(s)	480
Bst2UI	CCWGG	1 cut(s)	321
Bst4CI	ACNGT	4 cut(s)	245, 269, 783, 1001
BstAUI	TGTACA	1 cut(s)	764
BstBAI	YACGTR	1 cut(s)	338
BstC8I	GCNNGC	3 cut(s)	876, 932, 936
BstDEI	CTNAG	4 cut(s)	213, 399, 776, 926
BstF5I	GGATG	3 cut(s)	10, 329, 358
BstFNI	CGCG	2 cut(s)	114, 911
BstHHI	GCGC	3 cut(s)	114, 219, 911
BstKTI	GATC	4 cut(s)	476, 677, 958, 976
BstMAI	GTCTC	3 cut(s)	234, 455, 728
BstMBI	GATC	4 cut(s)	473, 674, 955, 973
BstMCI	CGRYCG	1 cut(s)	972
BstMWI	GCNNNNNNNGC	5 cut(s)	73, 167, 254, 296, 361
BstNI	CCWGG	1 cut(s)	321
BstNSI	RCATGY	3 cut(s)	315, 370, 878
BstSCI	CCNGG	2 cut(s)	319, 966
BstSFI	CTRYAG	1 cut(s)	939
BstUI	CGCG	2 cut(s)	114, 911
BstV1I	GCAGC	7 cut(s)	53, 79, 131, 173, 283, 529, 925
BstX2I	RGATCY	1 cut(s)	473
BstXI	CCANNNNNNTGG	1 cut(s)	433
BstYI	RGATCY	1 cut(s)	473
BsuI	GTATCC	1 cut(s)	855
BsuRI	GGCC	2 cut(s)	54, 559
BtgZI	GCGATG	1 cut(s)	129
BtsCI	GGATG	3 cut(s)	10, 329, 358
BtsI	GCAGTG	1 cut(s)	857
BtsIMutI	CAGTG	4 cut(s)	62, 250, 788, 857
BveI	ACCTGC	2 cut(s)	475, 862
Cac8I	GCNNGC	3 cut(s)	876, 932, 936
CaiI	CAGNNNCTG	1 cut(s)	170
CciI	TCATGA	1 cut(s)	952
CfoI	GCGC	3 cut(s)	114, 219, 911
Cfr10I	RCCGGY	1 cut(s)	930
Cfr13I	GGNCC	3 cut(s)	52, 557, 982
Csp6I	GTAC	2 cut(s)	765, 1002
CviAII	CATG	7 cut(s)	181, 312, 367, 632, 762, 875, 953
CviJI	RGCY	9 cut(s)	54, 76, 170, 439, 559, 712, 922, 930, 934
CviKI_1	RGCY	9 cut(s)	54, 76, 170, 439, 559, 712, 922, 930, 934
CviQI	GTAC	2 cut(s)	765, 1002
DdeI	CTNAG	4 cut(s)	213, 399, 776, 926
DpnI	GATC	4 cut(s)	475, 676, 957, 975
DpnII	GATC	4 cut(s)	473, 674, 955, 973
DraIII	CACNNNGTG	1 cut(s)	341
Eco130I	CCWWGG	1 cut(s)	480
Eco31I	GGTCTC	1 cut(s)	455
Eco32I	GATATC	1 cut(s)	147
Eco47I	GGWCC	1 cut(s)	982
Eco57I	CTGAAG	2 cut(s)	176, 998
Eco72I	CACGTG	1 cut(s)	338
Eco88I	CYCGRG	1 cut(s)	879
EcoRII	CCWGG	1 cut(s)	319
EcoRV	GATATC	1 cut(s)	147
EcoT14I	CCWWGG	1 cut(s)	480
EcoT22I	ATGCAT	2 cut(s)	372, 418
ErhI	CCWWGG	1 cut(s)	480
FaeI	CATG	7 cut(s)	184, 315, 370, 635, 765, 878, 956
FalI	AAGNNNNNCTT	2 cut(s)	650, 682
FaqI	GGGAC	2 cut(s)	191, 212
FatI	CATG	7 cut(s)	180, 311, 366, 631, 761, 874, 952
FauNDI	CATATG	1 cut(s)	418
Fnu4HI	GCNGC	7 cut(s)	42, 68, 120, 162, 297, 543, 939
FokI	GGATG	3 cut(s)	17, 336, 345
Fsp4HI	GCNGC	7 cut(s)	42, 68, 120, 162, 297, 543, 939
GlaI	GCGC	3 cut(s)	113, 218, 910
GluI	GCNGC	7 cut(s)	42, 68, 120, 162, 297, 543, 939
HaeIII	GGCC	2 cut(s)	54, 559
HapII	CCGG	3 cut(s)	471, 931, 968
HhaI	GCGC	3 cut(s)	114, 219, 911
Hin1II	CATG	7 cut(s)	184, 315, 370, 635, 765, 878, 956
Hin6I	GCGC	3 cut(s)	112, 217, 909
HinP1I	GCGC	3 cut(s)	112, 217, 909
HincII	GTYRAC	1 cut(s)	405
HindII	GTYRAC	1 cut(s)	405
HindIII	AAGCTT	1 cut(s)	920
HinfI	GANTC	3 cut(s)	124, 485, 650
HpaII	CCGG	3 cut(s)	471, 931, 968
HphI	GGTGA	1 cut(s)	453
Hpy166II	GTNNAC	5 cut(s)	317, 405, 517, 727, 890
Hpy188I	TCNGA	6 cut(s)	151, 195, 570, 685, 779, 978
Hpy188III	TCNNGA	4 cut(s)	20, 128, 698, 953
Hpy8I	GTNNAC	5 cut(s)	317, 405, 517, 727, 890
Hpy99I	CGWCG	2 cut(s)	82, 734
HpyAV	CCTTC	3 cut(s)	568, 938, 973
HpyCH4III	ACNGT	4 cut(s)	245, 269, 783, 1001
HpyCH4IV	ACGT	2 cut(s)	337, 502
HpyCH4V	TGCA	8 cut(s)	67, 119, 355, 370, 416, 825, 857, 941
HpyF10VI	GCNNNNNNNGC	5 cut(s)	73, 167, 254, 296, 361
HpyF3I	CTNAG	4 cut(s)	213, 399, 776, 926
HpySE526I	ACGT	2 cut(s)	337, 502
Hsp92II	CATG	7 cut(s)	184, 315, 370, 635, 765, 878, 956
HspAI	GCGC	3 cut(s)	112, 217, 909
KroI	GCCGGC	1 cut(s)	930
KroNI	GCCGGC	1 cut(s)	932
Kzo9I	GATC	4 cut(s)	473, 674, 955, 973
LmnI	GCTCC	2 cut(s)	295, 436
Lsp1109I	GCAGC	7 cut(s)	53, 79, 131, 173, 283, 529, 925
LweI	GCATC	7 cut(s)	25, 54, 79, 106, 379, 732, 958
MaeII	ACGT	2 cut(s)	337, 502
MaeIII	GTNAC	1 cut(s)	283
MalI	GATC	4 cut(s)	475, 676, 957, 975
MbiI	CCGCTC	1 cut(s)	903
MboI	GATC	4 cut(s)	473, 674, 955, 973
MboII	GAAGA	2 cut(s)	182, 659
MflI	RGATCY	1 cut(s)	473
MhlI	GDGCHC	1 cut(s)	250
MnlI	CCTC	6 cut(s)	189, 408, 548, 564, 586, 797
Mph1103I	ATGCAT	2 cut(s)	372, 418
MroNI	GCCGGC	1 cut(s)	930
MseI	TTAA	4 cut(s)	579, 602, 668, 1023
MslI	CAYNNNNRTG	2 cut(s)	322, 754
MspI	CCGG	3 cut(s)	471, 931, 968
MspR9I	CCNGG	2 cut(s)	321, 968
MvaI	CCWGG	1 cut(s)	321
MvnI	CGCG	2 cut(s)	114, 911
MwoI	GCNNNNNNNGC	5 cut(s)	73, 167, 254, 296, 361
NaeI	GCCGGC	1 cut(s)	932
NciI	CCSGG	1 cut(s)	968
NdeI	CATATG	1 cut(s)	418
NdeII	GATC	4 cut(s)	473, 674, 955, 973
NgoMIV	GCCGGC	1 cut(s)	930
NlaIII	CATG	7 cut(s)	184, 315, 370, 635, 765, 878, 956
NlaIV	GGNNCC	2 cut(s)	438, 475
NsiI	ATGCAT	2 cut(s)	372, 418
NspI	RCATGY	3 cut(s)	315, 370, 878
PaeI	GCATGC	1 cut(s)	878
PaeR7I	CTCGAG	1 cut(s)	879
PagI	TCATGA	1 cut(s)	952
PaqCI	CACCTGC	1 cut(s)	475
PdiI	GCCGGC	1 cut(s)	932
PfeI	GAWTC	3 cut(s)	124, 485, 650
PflMI	CCANNNNNTGG	2 cut(s)	446, 503
PkrI	GCNGC	7 cut(s)	43, 69, 121, 163, 298, 544, 940
PmaCI	CACGTG	1 cut(s)	338
PmlI	CACGTG	1 cut(s)	338
Ppu21I	YACGTR	1 cut(s)	338
Psp6I	CCWGG	1 cut(s)	319
PspCI	CACGTG	1 cut(s)	338
PspGI	CCWGG	1 cut(s)	319
PspN4I	GGNNCC	2 cut(s)	438, 475
PspPI	GGNCC	3 cut(s)	52, 557, 982
PspXI	VCTCGAGB	1 cut(s)	879
PstI	CTGCAG	1 cut(s)	943
PstNI	CAGNNNCTG	1 cut(s)	170
PsuI	RGATCY	1 cut(s)	473
RsaI	GTAC	2 cut(s)	766, 1003
RsaNI	GTAC	2 cut(s)	765, 1002
RseI	CAYNNNNRTG	2 cut(s)	322, 754
SaqAI	TTAA	4 cut(s)	579, 602, 668, 1023
SatI	GCNGC	7 cut(s)	42, 68, 120, 162, 297, 543, 939
Sau3AI	GATC	4 cut(s)	473, 674, 955, 973
Sau96I	GGNCC	3 cut(s)	52, 557, 982
ScrFI	CCNGG	2 cut(s)	321, 968
SduI	GDGCHC	1 cut(s)	250
SfaNI	GCATC	7 cut(s)	25, 54, 79, 106, 379, 732, 958
SfcI	CTRYAG	1 cut(s)	939
Sfr274I	CTCGAG	1 cut(s)	879
SinI	GGWCC	1 cut(s)	982
SlaI	CTCGAG	1 cut(s)	879
SmiMI	CAYNNNNRTG	2 cut(s)	322, 754
SmlI	CTYRAG	1 cut(s)	879
SmoI	CTYRAG	1 cut(s)	879
SphI	GCATGC	1 cut(s)	878
SsiI	CCGC	4 cut(s)	204, 362, 903, 1009
StyD4I	CCNGG	2 cut(s)	319, 966
StyI	CCWWGG	1 cut(s)	480
TaaI	ACNGT	4 cut(s)	245, 269, 783, 1001
TaiI	ACGT	2 cut(s)	340, 505
TaqI	TCGA	4 cut(s)	80, 98, 880, 972
TatI	WGTACW	1 cut(s)	764
TfiI	GAWTC	3 cut(s)	124, 485, 650
Tru1I	TTAA	4 cut(s)	579, 602, 668, 1023
Tru9I	TTAA	4 cut(s)	579, 602, 668, 1023
TscAI	CASTG	4 cut(s)	62, 250, 788, 864
TseI	GCWGC	7 cut(s)	41, 67, 119, 161, 296, 542, 938
TspDTI	ATGAA	3 cut(s)	98, 435, 750
TspGWI	ACGGA	1 cut(s)	907
TspRI	CASTG	4 cut(s)	62, 250, 788, 864
Van91I	CCANNNNNTGG	2 cut(s)	446, 503
VpaK11BI	GGWCC	1 cut(s)	982
XceI	RCATGY	3 cut(s)	315, 370, 878
XhoI	CTCGAG	1 cut(s)	879
Zsp2I	ATGCAT	2 cut(s)	372, 418

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