Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0005958

Physical Location & Seq

Genomic Coordinates Reverse (-)

532808 .. 536414

Gene Structure 3607 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G02540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1260 bp

ATGAAGATATTTGTGAAAACTCTCAAGGGGACTCACTTCGAGATCGAAGTAAAACCCGAGGATTCGGTTGTTGATGTGAAGAAGAACATAGAGAGTGTGCAGGGCGCAGATGTGTATCCTGCTGCAAAACAGATGCTTATTCACCAAGGTAAAGTGCTTAAAGATGAGACAACTATTGAGGAAAACAAAGTTGCTGAGAACAGTTTTATTGTCATTATGATGAACAAGAGTAAACCTGCTTCAGCTGCAGCATCTAGTGCATCTGCTGGCACATCGCAGGCCAAGTCGATACCTCCCTCAACATCACAGCCTTCAATTTCCCCTCAGACTCCAGCTTCTGTATCAGCACCAGTGGCACCTGCACCAACACGTCCACCACCACCTGCACCGACACCGACACCTGCACCTGTAGCTGCAACTGAAACTGTGACTACCCCTATACCTGAACCTGTACCTGCTACTATATCATCAAGCACTCCTGCACCAGACTCAGCTCCTGTGGGAAGTCAAGGTGATGTTTACGGACAAGCAGCATCAAATCTAGCCGCTGGAAGTAATTTAGAGAGTACCATTCAGCAGATTCTTGACATGGGTGGAGGAACCTGGGATCGTGAGACTGTTGTCCTTGCACTTCGTGCTGCATTTAACAACCCTGAAAGAGCTGTGGAATATCTTTATACTGGGATCCCTGAGCAAGCTGAAGTTCCACCAGTTGCCCGTCCTCCAGCTAGTGCCGGACAGCCTGCAAATCCTCCAGCACAGACTCAACAACCTGCAGCAGCACCCGCAAGTGGTCCTAATGCAAATCCGTTAGATCTCTTCCCACAGGGCTTGCCAAATGTTGGAGGAAATCCTGGTGCTGGAACACTTGACTTCTTGCGCAACAGCCAACAGTTCCAAGCTCTGCGAGCAATGGTGCAAGCAAACCCTCAAGTTCTGCAGCCCATGCTTCAGGAACTGGGAAAACAGAACCCAAACTTGATGCGGTTGATTCAAGACCACCAAGCTGACTTCTTACGCTTAATCAATGAACCCGTTGAAGGAGGGGGAGAAAGTGGCAACCTCCTTGGCCAAATGGCGGCGGGAATGCCACAGCCACAGGCGATTCAAGTCACACATGAGGAACGTGAAGCCATTGAACGGCTTGAAGCGATGGGATTTGAGAGAGCATTGGTGTTGGAAGTGTTCTTTGCGTGCAACAAGAATGAAGAGTTGGCTGCAAACTATCTTCTAGATCACATGCATGAATTCGAGGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0031593 GO:0032182 GO:0043130 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0044877 GO:0070628 GO:0140030

KEGG Pathways

Metabolic & Signaling

ko03420 ko04141 map03420 map04141

Pfam Domains

Protein Families

UBA XPC-binding ubiquitin

Protein Analysis

419

Amino Acids

44.25

Weight (kDa)

4.8

Isoelectric Point (pI)

58.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	3 - 76	1e-16	Ubiquitin family
UBA	PF00627	188 - 225	3.3e-11	UBA/TS-N domain
XPC-binding	PF09280	290 - 345	2.5e-22	XPC-binding domain
UBA	PF00627	375 - 410	1.7e-10	UBA/TS-N domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005958)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02540 AT3G02540 AT3G02540
fragaria_vesca	FvH4_4g27550 FvH4_4g27550
malus_domestica	MD13G1043000.v1.1 MD16G1043900.v1.1
prunus_persica	Prupe.1G309400_v2.0.a1 Prupe.1G309400_v2.0.a1 Prupe.1G309400_v2.0.a1 Prupe.1G309400_v2.0.a1 Prupe.1G309400_v2.0.a1 Prupe.1G309600_v2.0.a1 Prupe.1G309600_v2.0.a1
pyrus_communis	pycom13g03780 pycom16g03810
rosa_chinensis	RchiOBHm_Chr4g0435391
rosa_multiflora	Rmu_co8381849.1_g000001 Rmu_co8396387.1_g000001 Rmu_sc0001940.1_g000019
rosa_roxburghii	Rroxscaffold_5G00376630
rosa_rugosa	Rorug04G0284600
rosa_samantha	Rh4AG340200 Rh4BG348700 Rh4CG363200 Rh4DG342800
rosa_wichuraiana	Rw4G029680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	3 cut(s)	367, 391, 409
Acc16I	TGCGCA	1 cut(s)	881
Acc36I	ACCTGC	6 cut(s)	244, 367, 391, 409, 463, 781
AccB1I	GGYRCC	1 cut(s)	355
AccB7I	CCANNNNNTGG	1 cut(s)	842
AciI	CCGC	5 cut(s)	546, 786, 985, 1079, 1082
AclWI	GGATC	3 cut(s)	615, 679, 692
AcoI	YGGCCR	1 cut(s)	1069
AcsI	RAATTY	1 cut(s)	1247
AcuI	CTGAAG	3 cut(s)	225, 720, 935
AdeI	CACNNNGTG	1 cut(s)	635
AfaI	GTAC	2 cut(s)	453, 568
AfiI	CCNNNNNNNGG	6 cut(s)	791, 842, 860, 1040, 1078, 1140
AflIII	ACRYGT	1 cut(s)	368
AgsI	TTSAA	6 cut(s)	315, 995, 1040, 1109, 1139, 1148
AjiI	CACGTC	1 cut(s)	371
AjnI	CCWGG	2 cut(s)	602, 853
AjuI	GAANNNNNNNTTGG	2 cut(s)	1196, 1228
AluBI	AGCT	9 cut(s)	245, 335, 413, 494, 662, 698, 728, 902, 1007
AluI	AGCT	9 cut(s)	245, 335, 413, 494, 662, 698, 728, 902, 1007
Alw26I	GTCTC	2 cut(s)	161, 608
AlwI	GGATC	3 cut(s)	615, 679, 692
AlwNI	CAGNNNCTG	3 cut(s)	338, 497, 958
Ama87I	CYCGRG	1 cut(s)	56
AoxI	GGCC	2 cut(s)	279, 1069
ApoI	RAATTY	1 cut(s)	1247
AspLEI	GCGC	2 cut(s)	107, 882
AspS9I	GGNCC	1 cut(s)	794
AsuHPI	GGTGA	2 cut(s)	134, 524
AvaI	CYCGRG	1 cut(s)	56
AvaII	GGWCC	1 cut(s)	794
BalI	TGGCCA	1 cut(s)	1071
BamHI	GGATCC	1 cut(s)	684
BanI	GGYRCC	1 cut(s)	355
BarI	GAAGNNNNNNTAC	2 cut(s)	223, 255
BccI	CCATC	1 cut(s)	1147
BceAI	ACGGC	1 cut(s)	1157
BciT130I	CCWGG	2 cut(s)	604, 855
BciVI	GTATCC	1 cut(s)	126
BcoDI	GTCTC	2 cut(s)	161, 608
BfaI	CTAG	4 cut(s)	255, 542, 729, 1232
BfmI	CTRYAG	4 cut(s)	246, 408, 774, 938
BfuAI	ACCTGC	6 cut(s)	244, 367, 391, 409, 463, 781
BfuI	GTATCC	1 cut(s)	126
BglII	AGATCT	1 cut(s)	814
Bme1390I	CCNGG	2 cut(s)	604, 855
Bme18I	GGWCC	1 cut(s)	794
BmeT110I	CYCGRG	1 cut(s)	56
BmgBI	CACGTC	1 cut(s)	371
BmgT120I	GGNCC	1 cut(s)	794
BmiI	GGNNCC	3 cut(s)	357, 601, 686
BmrFI	CCNGG	2 cut(s)	604, 855
BmrI	ACTGGG	2 cut(s)	690, 968
BmsI	GCATC	5 cut(s)	123, 260, 269, 542, 972
BmuI	ACTGGG	2 cut(s)	690, 968
BoxI	GACNNNNGTC	1 cut(s)	620
BpmI	CTGGAG	3 cut(s)	315, 708, 738
Bpu10I	CCTNAGC	1 cut(s)	690
BpuEI	CTTGAG	2 cut(s)	8, 915
BsaBI	GATNNNNATC	1 cut(s)	114
BsaJI	CCNNGG	4 cut(s)	57, 145, 603, 1066
Bsc4I	CCNNNNNNNGG	6 cut(s)	791, 842, 860, 1040, 1078, 1140
Bse1I	ACTGG	4 cut(s)	350, 685, 710, 963
Bse3DI	GCAATG	1 cut(s)	918
Bse8I	GATNNNNATC	1 cut(s)	114
BseBI	CCWGG	2 cut(s)	604, 855
BseDI	CCNNGG	4 cut(s)	57, 145, 603, 1066
BseJI	GATNNNNATC	1 cut(s)	114
BseLI	CCNNNNNNNGG	6 cut(s)	791, 842, 860, 1040, 1078, 1140
BseMI	GCAATG	1 cut(s)	918
BseMII	CTCAG	4 cut(s)	186, 338, 504, 681
BseNI	ACTGG	4 cut(s)	350, 685, 710, 963
BsgI	GTGCAG	5 cut(s)	119, 345, 369, 387, 465
BshFI	GGCC	2 cut(s)	281, 1071
BshNI	GGYRCC	1 cut(s)	355
BsiHKCI	CYCGRG	1 cut(s)	56
BsiSI	CCGG	1 cut(s)	735
BslFI	GGGAC	1 cut(s)	43
BslI	CCNNNNNNNGG	6 cut(s)	791, 842, 860, 1040, 1078, 1140
BsmAI	GTCTC	2 cut(s)	161, 608
BsmFI	GGGAC	1 cut(s)	43
BsmI	GAATGC	1 cut(s)	1092
BsnI	GGCC	2 cut(s)	281, 1071
BsoBI	CYCGRG	1 cut(s)	56
Bsp143I	GATC	5 cut(s)	42, 607, 684, 814, 1234
BspACI	CCGC	5 cut(s)	546, 786, 985, 1079, 1082
BspANI	GGCC	2 cut(s)	281, 1071
BspCNI	CTCAG	4 cut(s)	187, 337, 503, 682
BspLI	GGNNCC	3 cut(s)	357, 601, 686
BspMAI	CTGCAG	3 cut(s)	250, 778, 942
BspMI	ACCTGC	6 cut(s)	244, 367, 391, 409, 463, 781
BspPI	GGATC	3 cut(s)	615, 679, 692
BspT107I	GGYRCC	1 cut(s)	355
BsrDI	GCAATG	1 cut(s)	918
BsrI	ACTGG	4 cut(s)	350, 685, 710, 963
BssECI	CCNNGG	4 cut(s)	57, 145, 603, 1066
BssMI	GATC	5 cut(s)	42, 607, 684, 814, 1234
BssT1I	CCWWGG	2 cut(s)	145, 1066
Bst2UI	CCWGG	2 cut(s)	604, 855
Bst4CI	ACNGT	4 cut(s)	203, 427, 619, 894
Bst6I	CTCTTC	2 cut(s)	824, 1203
BstAPI	GCANNNNNTGC	3 cut(s)	257, 635, 946
BstC8I	GCNNGC	8 cut(s)	268, 279, 696, 744, 833, 909, 921, 1195
BstDEI	CTNAG	4 cut(s)	195, 324, 490, 690
BstHHI	GCGC	2 cut(s)	107, 882
BstKTI	GATC	5 cut(s)	45, 610, 687, 817, 1237
BstMAI	GTCTC	2 cut(s)	161, 608
BstMBI	GATC	5 cut(s)	42, 607, 684, 814, 1234
BstMWI	GCNNNNNNNGC	8 cut(s)	245, 257, 353, 410, 635, 785, 908, 946
BstNI	CCWGG	2 cut(s)	604, 855
BstNSI	RCATGY	1 cut(s)	1243
BstPAI	GACNNNNGTC	1 cut(s)	620
BstSCI	CCNGG	2 cut(s)	602, 853
BstSFI	CTRYAG	4 cut(s)	246, 408, 774, 938
BstX2I	RGATCY	2 cut(s)	684, 814
BstYI	RGATCY	2 cut(s)	684, 814
BsuI	GTATCC	1 cut(s)	126
BsuRI	GGCC	2 cut(s)	281, 1071
BtgZI	GCGATG	2 cut(s)	258, 1166
BtrI	CACGTC	1 cut(s)	371
BtsIMutI	CAGTG	1 cut(s)	357
BveI	ACCTGC	6 cut(s)	244, 367, 391, 409, 463, 781
Cac8I	GCNNGC	8 cut(s)	268, 279, 696, 744, 833, 909, 921, 1195
CaiI	CAGNNNCTG	3 cut(s)	338, 497, 958
CfoI	GCGC	2 cut(s)	107, 882
Cfr13I	GGNCC	1 cut(s)	794
Csp6I	GTAC	2 cut(s)	452, 567
CspCI	CAANNNNNGTGG	2 cut(s)	813, 848
CviAII	CATG	5 cut(s)	589, 946, 1118, 1240, 1244
CviQI	GTAC	2 cut(s)	452, 567
DdeI	CTNAG	4 cut(s)	195, 324, 490, 690
DpnI	GATC	5 cut(s)	44, 609, 686, 816, 1236
DpnII	GATC	5 cut(s)	42, 607, 684, 814, 1234
DraIII	CACNNNGTG	1 cut(s)	635
EaeI	YGGCCR	1 cut(s)	1069
Eam1104I	CTCTTC	2 cut(s)	824, 1203
EarI	CTCTTC	2 cut(s)	824, 1203
Eco130I	CCWWGG	2 cut(s)	145, 1066
Eco47I	GGWCC	1 cut(s)	794
Eco57I	CTGAAG	3 cut(s)	225, 720, 935
Eco88I	CYCGRG	1 cut(s)	56
EcoRI	GAATTC	1 cut(s)	1247
EcoRII	CCWGG	2 cut(s)	602, 853
EcoT14I	CCWWGG	2 cut(s)	145, 1066
EcoT22I	ATGCAT	1 cut(s)	1245
ErhI	CCWWGG	2 cut(s)	145, 1066
FaeI	CATG	5 cut(s)	592, 949, 1121, 1243, 1247
FaqI	GGGAC	1 cut(s)	43
FatI	CATG	5 cut(s)	588, 945, 1117, 1239, 1243
FauI	CCCGC	2 cut(s)	793, 1075
FspBI	CTAG	4 cut(s)	255, 542, 729, 1232
FspI	TGCGCA	1 cut(s)	881
GlaI	GCGC	2 cut(s)	106, 881
GsuI	CTGGAG	3 cut(s)	315, 708, 738
HaeIII	GGCC	2 cut(s)	281, 1071
HapII	CCGG	1 cut(s)	735
HhaI	GCGC	2 cut(s)	107, 882
Hin1II	CATG	5 cut(s)	592, 949, 1121, 1243, 1247
Hin6I	GCGC	2 cut(s)	105, 880
HinP1I	GCGC	2 cut(s)	105, 880
HinfI	GANTC	8 cut(s)	31, 62, 328, 488, 580, 763, 991, 1105
HpaII	CCGG	1 cut(s)	735
HphI	GGTGA	2 cut(s)	134, 524
Hpy166II	GTNNAC	3 cut(s)	233, 374, 520
Hpy188I	TCNGA	1 cut(s)	327
Hpy188III	TCNNGA	6 cut(s)	40, 584, 611, 953, 995, 1232
Hpy8I	GTNNAC	3 cut(s)	233, 374, 520
HpyAV	CCTTC	2 cut(s)	321, 1034
HpyCH4III	ACNGT	4 cut(s)	203, 427, 619, 894
HpyCH4IV	ACGT	2 cut(s)	370, 1126
HpyF10VI	GCNNNNNNNGC	8 cut(s)	245, 257, 353, 410, 635, 785, 908, 946
HpyF3I	CTNAG	4 cut(s)	195, 324, 490, 690
HpySE526I	ACGT	2 cut(s)	370, 1126
Hsp92II	CATG	5 cut(s)	592, 949, 1121, 1243, 1247
HspAI	GCGC	2 cut(s)	105, 880
Kzo9I	GATC	5 cut(s)	42, 607, 684, 814, 1234
LmnI	GCTCC	1 cut(s)	499
LweI	GCATC	5 cut(s)	123, 260, 269, 542, 972
MaeI	CTAG	4 cut(s)	255, 542, 729, 1232
MaeII	ACGT	2 cut(s)	370, 1126
MaeIII	GTNAC	2 cut(s)	427, 1111
MalI	GATC	5 cut(s)	44, 609, 686, 816, 1236
MboI	GATC	5 cut(s)	42, 607, 684, 814, 1234
MboII	GAAGA	6 cut(s)	16, 91, 94, 811, 1220, 1220
MflI	RGATCY	2 cut(s)	684, 814
MlsI	TGGCCA	1 cut(s)	1071
MluCI	AATT	3 cut(s)	315, 556, 1247
MluNI	TGGCCA	1 cut(s)	1071
MlyI	GAGTC	4 cut(s)	25, 322, 482, 757
MmeI	TCCRAC	2 cut(s)	823, 1158
Mox20I	TGGCCA	1 cut(s)	1071
Mph1103I	ATGCAT	1 cut(s)	1245
MscI	TGGCCA	1 cut(s)	1071
MseI	TTAA	3 cut(s)	159, 645, 1022
MslI	CAYNNNNRTG	2 cut(s)	218, 1242
Msp20I	TGGCCA	1 cut(s)	1071
MspA1I	CMGCKG	2 cut(s)	245, 548
MspI	CCGG	1 cut(s)	735
MspR9I	CCNGG	2 cut(s)	604, 855
Mva1269I	GAATGC	1 cut(s)	1092
MvaI	CCWGG	2 cut(s)	604, 855
MwoI	GCNNNNNNNGC	8 cut(s)	245, 257, 353, 410, 635, 785, 908, 946
NdeII	GATC	5 cut(s)	42, 607, 684, 814, 1234
NlaIII	CATG	5 cut(s)	592, 949, 1121, 1243, 1247
NlaIV	GGNNCC	3 cut(s)	357, 601, 686
NmuCI	GTSAC	2 cut(s)	427, 1111
NsbI	TGCGCA	1 cut(s)	881
NsiI	ATGCAT	1 cut(s)	1245
NspI	RCATGY	1 cut(s)	1243
PaqCI	CACCTGC	3 cut(s)	367, 391, 409
PctI	GAATGC	1 cut(s)	1092
PfeI	GAWTC	4 cut(s)	62, 580, 991, 1105
PflMI	CCANNNNNTGG	1 cut(s)	842
PleI	GAGTC	4 cut(s)	25, 322, 482, 757
PpsI	GAGTC	4 cut(s)	25, 322, 482, 757
PshAI	GACNNNNGTC	1 cut(s)	620
Psp6I	CCWGG	2 cut(s)	602, 853
PspGI	CCWGG	2 cut(s)	602, 853
PspN4I	GGNNCC	3 cut(s)	357, 601, 686
PspPI	GGNCC	1 cut(s)	794
PstI	CTGCAG	3 cut(s)	250, 778, 942
PstNI	CAGNNNCTG	3 cut(s)	338, 497, 958
PsuI	RGATCY	2 cut(s)	684, 814
PvuII	CAGCTG	1 cut(s)	245
RsaI	GTAC	2 cut(s)	453, 568
RsaNI	GTAC	2 cut(s)	452, 567
RseI	CAYNNNNRTG	2 cut(s)	218, 1242
SaqAI	TTAA	3 cut(s)	159, 645, 1022
Sau3AI	GATC	5 cut(s)	42, 607, 684, 814, 1234
Sau96I	GGNCC	1 cut(s)	794
SchI	GAGTC	4 cut(s)	25, 322, 482, 757
ScrFI	CCNGG	2 cut(s)	604, 855
SfaNI	GCATC	5 cut(s)	123, 260, 269, 542, 972
SfcI	CTRYAG	4 cut(s)	246, 408, 774, 938
SinI	GGWCC	1 cut(s)	794
SmiMI	CAYNNNNRTG	2 cut(s)	218, 1242
SmlI	CTYRAG	2 cut(s)	23, 930
SmoI	CTYRAG	2 cut(s)	23, 930
Sse9I	AATT	3 cut(s)	315, 556, 1247
SsiI	CCGC	5 cut(s)	546, 786, 985, 1079, 1082
SspMI	CTAG	4 cut(s)	255, 542, 729, 1232
StyD4I	CCNGG	2 cut(s)	602, 853
StyI	CCWWGG	2 cut(s)	145, 1066
TaaI	ACNGT	4 cut(s)	203, 427, 619, 894
TaiI	ACGT	2 cut(s)	373, 1129
TaqI	TCGA	4 cut(s)	39, 45, 287, 1251
TasI	AATT	3 cut(s)	315, 556, 1247
TauI	GCSGC	2 cut(s)	548, 1082
TfiI	GAWTC	4 cut(s)	62, 580, 991, 1105
Tru1I	TTAA	3 cut(s)	159, 645, 1022
Tru9I	TTAA	3 cut(s)	159, 645, 1022
TscAI	CASTG	1 cut(s)	357
TseFI	GTSAC	2 cut(s)	427, 1111
Tsp45I	GTSAC	2 cut(s)	427, 1111
TspDTI	ATGAA	5 cut(s)	17, 236, 1044, 1221, 1260
TspGWI	ACGGA	2 cut(s)	537, 798
TspRI	CASTG	1 cut(s)	357
Van91I	CCANNNNNTGG	1 cut(s)	842
VpaK11BI	GGWCC	1 cut(s)	794
XapI	RAATTY	1 cut(s)	1247
XbaI	TCTAGA	1 cut(s)	1231
XceI	RCATGY	1 cut(s)	1243
XspI	CTAG	4 cut(s)	255, 542, 729, 1232
Zsp2I	ATGCAT	1 cut(s)	1245

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