AT1G16960

Ubiquitin-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0014274
Physical Location & Seq
Forward (+)
5799741 .. 5800887
1147 bp
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UTR
Exon/CDS
Intron
AT1G16960.1

Sequence Viewer

Length: 345 bp
ATGGGTTGTTCTAGCTCGAGAACCATAGCAGAGGGGAAAAAGGAGAAGATTCGAAGACCAAAAACATGGAAACATCCTCAACCGATATCAAGAGATGAGCTCACACAGATGCGAGAGGAGTTCTGGGACACAGCTCCTCACTATGGAGGCAAGAAAGAGATATGGGATGCGTTACGAGCTGCAGCAGAAGAGGATGATTTATCGCTTGCGCAAACGATACTTGAGAGTGCCGGTGTGATTGTTCAGAACACTGACCTCACCATTTGTTACGACGAGAAAGGTTCCAAGTATGAATTGCCTAAATACGTTCTCAGGGATCCTTCAAATTTGATCCCAACCAAATAG
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

13.02

Weight (kDa)

6.13

Isoelectric Point (pI)

44.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UBD PF16455 14 - 111 9.8e-37 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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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)
Acc16I TGCGCA 1 cut(s) 210
AclWI GGATC 3 cut(s) 311, 324, 325
AcsI RAATTY 1 cut(s) 325
AfiI CCNNNNNNNGG 1 cut(s) 143
AgsI TTSAA 1 cut(s) 324
AluBI AGCT 4 cut(s) 15, 100, 134, 179
AluI AGCT 4 cut(s) 15, 100, 134, 179
Alw21I GWGCWC 1 cut(s) 102
AlwI GGATC 3 cut(s) 311, 324, 325
Ama87I CYCGRG 1 cut(s) 16
ApeKI GCWGC 2 cut(s) 179, 182
ApoI RAATTY 1 cut(s) 325
AspLEI GCGC 1 cut(s) 211
AsuHPI GGTGA 1 cut(s) 250
AsuII TTCGAA 1 cut(s) 52
AvaI CYCGRG 1 cut(s) 16
BamHI GGATCC 1 cut(s) 316
BanII GRGCYC 1 cut(s) 102
BbsI GAAGAC 1 cut(s) 61
Bbv12I GWGCWC 1 cut(s) 102
BbvI GCAGC 2 cut(s) 166, 194
BfaI CTAG 1 cut(s) 12
BfmI CTRYAG 1 cut(s) 180
BisI GCNGC 2 cut(s) 180, 183
BlsI GCNGC 2 cut(s) 181, 184
BmeT110I CYCGRG 1 cut(s) 16
BmiI GGNNCC 2 cut(s) 283, 318
BmsI GCATC 2 cut(s) 99, 157
BpiI GAAGAC 1 cut(s) 61
BplI GAGNNNNNCTC 2 cut(s) 84, 116
Bpu14I TTCGAA 1 cut(s) 52
BpuEI CTTGAG 1 cut(s) 242
Bsc4I CCNNNNNNNGG 1 cut(s) 143
Bse118I RCCGGY 1 cut(s) 230
BseGI GGATG 3 cut(s) 73, 172, 199
BseLI CCNNNNNNNGG 1 cut(s) 143
BseMII CTCAG 1 cut(s) 325
BseRI GAGGAG 2 cut(s) 126, 131
BseXI GCAGC 2 cut(s) 166, 194
BsiHKAI GWGCWC 1 cut(s) 102
BsiHKCI CYCGRG 1 cut(s) 16
BsiSI CCGG 1 cut(s) 231
BslFI GGGAC 1 cut(s) 140
BslI CCNNNNNNNGG 1 cut(s) 143
BsmFI GGGAC 1 cut(s) 140
BsoBI CYCGRG 1 cut(s) 16
Bsp119I TTCGAA 1 cut(s) 52
Bsp1286I GDGCHC 1 cut(s) 102
Bsp143I GATC 2 cut(s) 316, 330
BspCNI CTCAG 1 cut(s) 324
BspLI GGNNCC 2 cut(s) 283, 318
BspMAI CTGCAG 1 cut(s) 184
BspPI GGATC 3 cut(s) 311, 324, 325
BspT104I TTCGAA 1 cut(s) 52
BsrFI RCCGGY 1 cut(s) 230
BssAI RCCGGY 1 cut(s) 230
BssMI GATC 2 cut(s) 316, 330
Bst6I CTCTTC 1 cut(s) 183
BstBI TTCGAA 1 cut(s) 52
BstC8I GCNNGC 1 cut(s) 207
BstDEI CTNAG 1 cut(s) 311
BstF5I GGATG 3 cut(s) 73, 172, 199
BstHHI GCGC 1 cut(s) 211
BstKTI GATC 2 cut(s) 319, 333
BstMBI GATC 2 cut(s) 316, 330
BstMWI GCNNNNNNNGC 1 cut(s) 176
BstSFI CTRYAG 1 cut(s) 180
BstV1I GCAGC 2 cut(s) 166, 194
BstV2I GAAGAC 1 cut(s) 61
BstX2I RGATCY 1 cut(s) 316
BstXI CCANNNNNNTGG 1 cut(s) 66
BstYI RGATCY 1 cut(s) 316
BtsCI GGATG 3 cut(s) 73, 172, 199
BtsIMutI CAGTG 1 cut(s) 249
Cac8I GCNNGC 1 cut(s) 207
CfoI GCGC 1 cut(s) 211
Cfr10I RCCGGY 1 cut(s) 230
CviAII CATG 1 cut(s) 66
CviJI RGCY 4 cut(s) 15, 100, 134, 179
CviKI_1 RGCY 4 cut(s) 15, 100, 134, 179
DdeI CTNAG 1 cut(s) 311
DpnI GATC 2 cut(s) 318, 332
DpnII GATC 2 cut(s) 316, 330
Eam1104I CTCTTC 1 cut(s) 183
EarI CTCTTC 1 cut(s) 183
Ecl136II GAGCTC 1 cut(s) 100
Eco24I GRGCYC 1 cut(s) 102
Eco32I GATATC 1 cut(s) 87
Eco53kI GAGCTC 1 cut(s) 100
Eco88I CYCGRG 1 cut(s) 16
EcoICRI GAGCTC 1 cut(s) 100
EcoRV GATATC 1 cut(s) 87
EcoT38I GRGCYC 1 cut(s) 102
FaeI CATG 1 cut(s) 69
FaiI YATR 5 cut(s) 26, 67, 144, 163, 291
FaqI GGGAC 1 cut(s) 140
FatI CATG 1 cut(s) 65
Fnu4HI GCNGC 2 cut(s) 180, 183
FokI GGATG 3 cut(s) 60, 179, 206
FriOI GRGCYC 1 cut(s) 102
Fsp4HI GCNGC 2 cut(s) 180, 183
FspBI CTAG 1 cut(s) 12
FspI TGCGCA 1 cut(s) 210
GlaI GCGC 1 cut(s) 210
GluI GCNGC 2 cut(s) 180, 183
HapII CCGG 1 cut(s) 231
HhaI GCGC 1 cut(s) 211
Hin1II CATG 1 cut(s) 69
Hin6I GCGC 1 cut(s) 209
HinP1I GCGC 1 cut(s) 209
HinfI GANTC 1 cut(s) 49
HpaII CCGG 1 cut(s) 231
HphI GGTGA 1 cut(s) 250
Hpy188I TCNGA 1 cut(s) 246
Hpy188III TCNNGA 2 cut(s) 18, 90
Hpy99I CGWCG 1 cut(s) 275
HpyAV CCTTC 1 cut(s) 330
HpyCH4IV ACGT 1 cut(s) 306
HpyCH4V TGCA 1 cut(s) 182
HpyF10VI GCNNNNNNNGC 1 cut(s) 176
HpyF3I CTNAG 1 cut(s) 311
HpySE526I ACGT 1 cut(s) 306
Hsp92II CATG 1 cut(s) 69
HspAI GCGC 1 cut(s) 209
Kzo9I GATC 2 cut(s) 316, 330
LmnI GCTCC 1 cut(s) 139
LpnPI CCDG 3 cut(s) 109, 244, 298
Lsp1109I GCAGC 2 cut(s) 166, 194
LweI GCATC 2 cut(s) 99, 157
MaeI CTAG 1 cut(s) 12
MaeII ACGT 1 cut(s) 306
MaeIII GTNAC 2 cut(s) 171, 266
MalI GATC 2 cut(s) 318, 332
MboI GATC 2 cut(s) 316, 330
MboII GAAGA 3 cut(s) 58, 66, 200
MflI RGATCY 1 cut(s) 316
MhlI GDGCHC 1 cut(s) 102
MluCI AATT 2 cut(s) 293, 325
MnlI CCTC 7 cut(s) 25, 87, 109, 140, 147, 184, 266
MslI CAYNNNNRTG 1 cut(s) 107
MspI CCGG 1 cut(s) 231
MwoI GCNNNNNNNGC 1 cut(s) 176
NdeII GATC 2 cut(s) 316, 330
NlaIII CATG 1 cut(s) 69
NlaIV GGNNCC 2 cut(s) 283, 318
NsbI TGCGCA 1 cut(s) 210
NspV TTCGAA 1 cut(s) 52
PaeR7I CTCGAG 1 cut(s) 16
PfeI GAWTC 1 cut(s) 49
PkrI GCNGC 2 cut(s) 181, 184
Psp124BI GAGCTC 1 cut(s) 102
PspN4I GGNNCC 2 cut(s) 283, 318
PstI CTGCAG 1 cut(s) 184
PsuI RGATCY 1 cut(s) 316
RseI CAYNNNNRTG 1 cut(s) 107
SacI GAGCTC 1 cut(s) 102
SatI GCNGC 2 cut(s) 180, 183
Sau3AI GATC 2 cut(s) 316, 330
SduI GDGCHC 1 cut(s) 102
SetI ASST 7 cut(s) 17, 102, 136, 181, 258, 283, 309
SfaNI GCATC 2 cut(s) 99, 157
SfcI CTRYAG 1 cut(s) 180
Sfr274I CTCGAG 1 cut(s) 16
SfuI TTCGAA 1 cut(s) 52
SlaI CTCGAG 1 cut(s) 16
SmiMI CAYNNNNRTG 1 cut(s) 107
SmlI CTYRAG 2 cut(s) 16, 221
SmoI CTYRAG 2 cut(s) 16, 221
Sse9I AATT 2 cut(s) 293, 325
SspMI CTAG 1 cut(s) 12
SstI GAGCTC 1 cut(s) 102
TaiI ACGT 1 cut(s) 309
TaqI TCGA 2 cut(s) 17, 52
TasI AATT 2 cut(s) 293, 325
TfiI GAWTC 1 cut(s) 49
TscAI CASTG 1 cut(s) 256
TseI GCWGC 2 cut(s) 179, 182
TspDTI ATGAA 1 cut(s) 306
TspRI CASTG 1 cut(s) 256
XapI RAATTY 1 cut(s) 325
XhoI CTCGAG 1 cut(s) 16
XspI CTAG 1 cut(s) 12
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.