Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0012903

Physical Location & Seq

Genomic Coordinates Reverse (-)

16911579 .. 16913991

Gene Structure 2413 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G42300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 222 bp

ATGATCGAGGTGGTTCTCAACGATCGTTTAGGGAAAAAAGTTAGGGTGAAGTGTAACGATGATGACACGATCGGTGATCTGAAGAAGCTTGTCGCGGCACAAACCGGAACACGAGCCGAGAAGATCAGAATTCAGAAGTGGTACAACATCTACAAGGATCACATCACTCTCAAGGACTATGAGATCCATGACGGCATGGGTCTTGAGCTTTACTACAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006464 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0019538 GO:0031386 GO:0034641 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko04212 map04212

Pfam Domains

Protein Families

ubiquitin

Protein Analysis

73

Amino Acids

8.57

Weight (kDa)

7.83

Isoelectric Point (pI)

20.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	11 - 71	1.4e-06	Ubiquitin family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0012903)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G42300
fragaria_vesca	FvH4_6g15950
prunus_persica	Prupe.6G102700_v2.0.a1 Prupe.6G102700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0469651
rosa_multiflora	Rmu_co8219234.1_g000001 Rmu_sc0006483.1_g000021 Rmu_sc0018944.1_g000005
rosa_roxburghii	Rroxscaffold_6G00411600
rosa_rugosa	Rorug03G0102900 Rorug03G0103000 Rorug05G0318000
rosa_samantha	Rh3AG152600 Rh3BG176400 Rh3CG167400 Rh3DG199200 Rh5DG411000
rosa_wichuraiana	Rw3G014390

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	95
AciI	CCGC	1 cut(s)	95
AclWI	GGATC	2 cut(s)	165, 178
AcsI	RAATTY	1 cut(s)	129
AcuI	CTGAAG	1 cut(s)	101
AfaI	GTAC	1 cut(s)	143
AluBI	AGCT	2 cut(s)	88, 208
AluI	AGCT	2 cut(s)	88, 208
AlwI	GGATC	2 cut(s)	165, 178
ApoI	RAATTY	1 cut(s)	129
AsuHPI	GGTGA	2 cut(s)	58, 86
BauI	CACGAG	1 cut(s)	111
BceAI	ACGGC	1 cut(s)	208
BfaI	CTAG	1 cut(s)	220
BisI	GCNGC	1 cut(s)	96
BlsI	GCNGC	1 cut(s)	97
BpuEI	CTTGAG	1 cut(s)	155
BsaWI	WCCGGW	1 cut(s)	104
Bsh1236I	CGCG	1 cut(s)	95
Bsh1285I	CGRYCG	2 cut(s)	25, 72
BsiEI	CGRYCG	2 cut(s)	25, 72
BsiSI	CCGG	1 cut(s)	105
Bsp143I	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
BspACI	CCGC	1 cut(s)	95
BspFNI	CGCG	1 cut(s)	95
BspPI	GGATC	2 cut(s)	165, 178
BssMI	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
BssSI	CACGAG	1 cut(s)	111
Bst2BI	CACGAG	1 cut(s)	111
BstFNI	CGCG	1 cut(s)	95
BstKTI	GATC	7 cut(s)	6, 25, 72, 79, 126, 160, 186
BstMBI	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
BstMCI	CGRYCG	2 cut(s)	25, 72
BstUI	CGCG	1 cut(s)	95
BstX2I	RGATCY	1 cut(s)	183
BstYI	RGATCY	1 cut(s)	183
Csp6I	GTAC	1 cut(s)	142
CviAII	CATG	2 cut(s)	188, 196
CviJI	RGCY	3 cut(s)	88, 116, 208
CviKI_1	RGCY	3 cut(s)	88, 116, 208
CviQI	GTAC	1 cut(s)	142
DpnI	GATC	7 cut(s)	5, 24, 71, 78, 125, 159, 185
DpnII	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
Eco57I	CTGAAG	1 cut(s)	101
EcoRI	GAATTC	1 cut(s)	129
FaeI	CATG	2 cut(s)	191, 199
FaiI	YATR	3 cut(s)	180, 189, 197
FatI	CATG	2 cut(s)	187, 195
Fnu4HI	GCNGC	1 cut(s)	96
Fsp4HI	GCNGC	1 cut(s)	96
FspBI	CTAG	1 cut(s)	220
GluI	GCNGC	1 cut(s)	96
HapII	CCGG	1 cut(s)	105
Hin1II	CATG	2 cut(s)	191, 199
HindIII	AAGCTT	1 cut(s)	86
HpaII	CCGG	1 cut(s)	105
HphI	GGTGA	2 cut(s)	58, 86
Hpy188I	TCNGA	3 cut(s)	81, 128, 135
Hpy188III	TCNNGA	1 cut(s)	203
Hsp92II	CATG	2 cut(s)	191, 199
Kzo9I	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
LpnPI	CCDG	1 cut(s)	118
MaeI	CTAG	1 cut(s)	220
MaeIII	GTNAC	1 cut(s)	53
MalI	GATC	7 cut(s)	5, 24, 71, 78, 125, 159, 185
MboI	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
MboII	GAAGA	2 cut(s)	94, 133
MflI	RGATCY	1 cut(s)	183
MluCI	AATT	1 cut(s)	129
MspI	CCGG	1 cut(s)	105
MvnI	CGCG	1 cut(s)	95
NdeII	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
NlaIII	CATG	2 cut(s)	191, 199
NmeAIII	GCCGAG	1 cut(s)	142
PkrI	GCNGC	1 cut(s)	97
Ple19I	CGATCG	2 cut(s)	25, 72
PsuI	RGATCY	1 cut(s)	183
PvuI	CGATCG	2 cut(s)	25, 72
RsaI	GTAC	1 cut(s)	143
RsaNI	GTAC	1 cut(s)	142
SatI	GCNGC	1 cut(s)	96
Sau3AI	GATC	7 cut(s)	3, 22, 69, 76, 123, 157, 183
SetI	ASST	3 cut(s)	12, 90, 210
SmlI	CTYRAG	2 cut(s)	170, 203
SmoI	CTYRAG	2 cut(s)	170, 203
Sse9I	AATT	1 cut(s)	129
SsiI	CCGC	1 cut(s)	95
SspMI	CTAG	1 cut(s)	220
TaqI	TCGA	1 cut(s)	6
TasI	AATT	1 cut(s)	129
TauI	GCSGC	1 cut(s)	98
XapI	RAATTY	1 cut(s)	129
XspI	CTAG	1 cut(s)	220

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