AT1G53400

Ubiquitin-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0014274
Physical Location & Seq
Forward (+)
19924660 .. 19926631
1972 bp
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UTR
Exon/CDS
Intron
AT1G53400.1

Sequence Viewer

Length: 345 bp
ATGGGTTGTGCTGGATCGACACAGTCTCAAGCAGATGGGTCAGTGAAGAAAATTAGGAAGCCGAAACCGTGGAAGCATACCCAACCGATCACGAAAGCTGAGCTTATGAAACTTAGAGAAGAGTTTTGGGACACTGCTCCTCATTATGGTGGTAGAAAAGAGATATGGGACGCACTTCGCGCTGCTGCAGAAGCTGACATATCTCTTGCACAAGCAATTGTGGACAGTGCAGGAGTCATTGTTCAGAACACAGATCTCACAGTCTGCTATGACGAGAGAGGTGCTAAGTATGAGCTACCTAAGTATGTTCTAAGCGAGCCTACCAACTTGGAGGAAGAAAATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
UBD

Protein Analysis

114

Amino Acids

12.71

Weight (kDa)

5.4

Isoelectric Point (pI)

30.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UBD PF16455 16 - 112 8e-38 Ubiquitin-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0014274)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G16960 AT1G53400 AT5G45740
fragaria_vesca FvH4_3g18130
malus_domestica MD11G1265800.v1.1
prunus_persica Prupe.4G160100_v2.0.a1
pyrus_communis pycom03g19390 pycom11g23370
rosa_chinensis RchiOBHm_Chr5g0030541
rosa_laevigata RLG00000033224
rosa_multiflora Rmu_sc0013101.1_g000004
rosa_roxburghii Rroxscaffold_1G00049770
rosa_rugosa Rorug05G0118300
rosa_samantha Rh5BG209700 Rh5CG233100 Rh5DG214200
rosa_wichuraiana Rw5G019240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 180
AclWI GGATC 1 cut(s) 22
AfiI CCNNNNNNNGG 1 cut(s) 146
AloI GAACNNNNNNTCC 2 cut(s) 225, 257
AluBI AGCT 4 cut(s) 98, 103, 194, 295
AluI AGCT 4 cut(s) 98, 103, 194, 295
Alw26I GTCTC 1 cut(s) 30
AlwI GGATC 1 cut(s) 22
AlwNI CAGNNNCTG 1 cut(s) 194
ApeKI GCWGC 2 cut(s) 182, 185
AspLEI GCGC 1 cut(s) 182
BbvI GCAGC 2 cut(s) 169, 172
BccI CCATC 1 cut(s) 29
BcgI CGANNNNNNTGC 2 cut(s) 263, 297
BcoDI GTCTC 1 cut(s) 30
BfmI CTRYAG 1 cut(s) 186
BglII AGATCT 1 cut(s) 253
BisI GCNGC 2 cut(s) 183, 186
BlpI GCTNAGC 1 cut(s) 99
BlsI GCNGC 2 cut(s) 184, 187
Bpu1102I GCTNAGC 1 cut(s) 99
BpuEI CTTGAG 1 cut(s) 12
BsaJI CCNNGG 1 cut(s) 68
BsaXI ACNNNNNCTCC 2 cut(s) 225, 255
Bsc4I CCNNNNNNNGG 1 cut(s) 146
BseDI CCNNGG 1 cut(s) 68
BseLI CCNNNNNNNGG 1 cut(s) 146
BseMII CTCAG 1 cut(s) 90
BseRI GAGGAG 1 cut(s) 129
BseXI GCAGC 2 cut(s) 169, 172
BsgI GTGCAG 1 cut(s) 249
Bsh1236I CGCG 1 cut(s) 180
BslFI GGGAC 2 cut(s) 143, 182
BslI CCNNNNNNNGG 1 cut(s) 146
BsmAI GTCTC 1 cut(s) 30
BsmFI GGGAC 2 cut(s) 143, 182
Bsp143I GATC 3 cut(s) 14, 87, 253
Bsp1720I GCTNAGC 1 cut(s) 99
BspCNI CTCAG 1 cut(s) 91
BspFNI CGCG 1 cut(s) 180
BspMAI CTGCAG 1 cut(s) 190
BspPI GGATC 1 cut(s) 22
BssECI CCNNGG 1 cut(s) 68
BssMI GATC 3 cut(s) 14, 87, 253
Bst4CI ACNGT 4 cut(s) 24, 69, 227, 262
Bst6I CTCTTC 1 cut(s) 114
BstC8I GCNNGC 1 cut(s) 317
BstDEI CTNAG 5 cut(s) 99, 113, 285, 300, 311
BstDSI CCRYGG 1 cut(s) 68
BstFNI CGCG 1 cut(s) 180
BstHHI GCGC 1 cut(s) 182
BstKTI GATC 3 cut(s) 17, 90, 256
BstMAI GTCTC 1 cut(s) 30
BstMBI GATC 3 cut(s) 14, 87, 253
BstMWI GCNNNNNNNGC 2 cut(s) 179, 191
BstSFI CTRYAG 1 cut(s) 186
BstUI CGCG 1 cut(s) 180
BstV1I GCAGC 2 cut(s) 169, 172
BstX2I RGATCY 1 cut(s) 253
BstYI RGATCY 1 cut(s) 253
BtgI CCRYGG 1 cut(s) 68
BtsI GCAGTG 1 cut(s) 132
BtsIMutI CAGTG 3 cut(s) 48, 132, 232
Cac8I GCNNGC 1 cut(s) 317
CaiI CAGNNNCTG 1 cut(s) 194
CfoI GCGC 1 cut(s) 182
CseI GACGC 1 cut(s) 179
CviJI RGCY 6 cut(s) 61, 98, 103, 194, 295, 319
CviKI_1 RGCY 6 cut(s) 61, 98, 103, 194, 295, 319
DdeI CTNAG 5 cut(s) 99, 113, 285, 300, 311
DpnI GATC 3 cut(s) 16, 89, 255
DpnII GATC 3 cut(s) 14, 87, 253
Eam1104I CTCTTC 1 cut(s) 114
EarI CTCTTC 1 cut(s) 114
FaiI YATR 8 cut(s) 78, 107, 147, 166, 200, 270, 291, 306
FalI AAGNNNNNCTT 2 cut(s) 87, 119
FaqI GGGAC 2 cut(s) 143, 182
Fnu4HI GCNGC 2 cut(s) 183, 186
Fsp4HI GCNGC 2 cut(s) 183, 186
GlaI GCGC 1 cut(s) 181
GluI GCNGC 2 cut(s) 183, 186
HgaI GACGC 1 cut(s) 179
HhaI GCGC 1 cut(s) 182
Hin6I GCGC 1 cut(s) 180
HinP1I GCGC 1 cut(s) 180
HinfI GANTC 1 cut(s) 234
Hpy166II GTNNAC 1 cut(s) 223
Hpy188I TCNGA 1 cut(s) 246
Hpy188III TCNNGA 1 cut(s) 91
Hpy8I GTNNAC 1 cut(s) 223
HpyCH4III ACNGT 4 cut(s) 24, 69, 227, 262
HpyCH4V TGCA 3 cut(s) 188, 209, 230
HpyF10VI GCNNNNNNNGC 2 cut(s) 179, 191
HpyF3I CTNAG 5 cut(s) 99, 113, 285, 300, 311
HspAI GCGC 1 cut(s) 180
Kzo9I GATC 3 cut(s) 14, 87, 253
LmnI GCTCC 1 cut(s) 142
LpnPI CCDG 1 cut(s) 216
Lsp1109I GCAGC 2 cut(s) 169, 172
MalI GATC 3 cut(s) 16, 89, 255
MboI GATC 3 cut(s) 14, 87, 253
MboII GAAGA 2 cut(s) 58, 131
MfeI CAATTG 1 cut(s) 216
MflI RGATCY 1 cut(s) 253
MluCI AATT 3 cut(s) 51, 216, 340
MlyI GAGTC 1 cut(s) 243
MnlI CCTC 3 cut(s) 150, 272, 325
MslI CAYNNNNRTG 1 cut(s) 147
MunI CAATTG 1 cut(s) 216
MvnI CGCG 1 cut(s) 180
MwoI GCNNNNNNNGC 2 cut(s) 179, 191
NdeII GATC 3 cut(s) 14, 87, 253
PflFI GACNNNGTC 1 cut(s) 22
PkrI GCNGC 2 cut(s) 184, 187
PleI GAGTC 1 cut(s) 242
PpsI GAGTC 1 cut(s) 242
PstI CTGCAG 1 cut(s) 190
PstNI CAGNNNCTG 1 cut(s) 194
PsuI RGATCY 1 cut(s) 253
PsyI GACNNNGTC 1 cut(s) 22
RseI CAYNNNNRTG 1 cut(s) 147
SatI GCNGC 2 cut(s) 183, 186
Sau3AI GATC 3 cut(s) 14, 87, 253
SchI GAGTC 1 cut(s) 243
SetI ASST 6 cut(s) 100, 105, 196, 283, 297, 301
SfcI CTRYAG 1 cut(s) 186
SmiMI CAYNNNNRTG 1 cut(s) 147
SmlI CTYRAG 1 cut(s) 27
SmoI CTYRAG 1 cut(s) 27
Sse9I AATT 3 cut(s) 51, 216, 340
TaaI ACNGT 4 cut(s) 24, 69, 227, 262
TaqI TCGA 1 cut(s) 17
TasI AATT 3 cut(s) 51, 216, 340
TscAI CASTG 3 cut(s) 48, 139, 232
TseI GCWGC 2 cut(s) 182, 185
TspDTI ATGAA 1 cut(s) 122
TspRI CASTG 3 cut(s) 48, 139, 232
Tth111I GACNNNGTC 1 cut(s) 22
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.