AT4G05260

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0014116
Physical Location & Seq
Forward (+)
2693680 .. 2694459
780 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G05260.1

Sequence Viewer

Length: 780 bp
ATGGATGTGTACTTCGAAACTCAGAATGGCAGAAAGTTTTGCATTGAATTAGGTTACTGGGACACAGTGTTGGAGATCAAAAAGAAGATCGAGAAGTATCAACGTATCCCTGTTCCCAATCAAACCCTTTTCTTCGGCAATGCTCTTGAAGACCATCTTGATATCGGTCAATGCAAGATTCTCCAAAACTCTCATGTCGTACTCTTCGTCCTTCCAGACCCTAATGACAACAACGATCAAGTTCTTCAAACGGAGGAGCAACCTCCTATAATCGGAGATCTCATTTACGGTGAGGATTTGCCTTTGACAACTGAAGTTGTTTTGAATATTCGACCTTTTTGCCCAGTTCAAGATTCTCCGGTGAGAAACAACGATCAATCTCCACCGTCAGACGCAGCAAAAGATATCATCAAAGGTCATCAAGATTCGCCGGTGAGAAACAACGAGCAAACTCCACCGTCAGACTCGGTTAAAGAGAACACTAACATTCAAGATTCGCCTGTGGGGAAGATAATACTAACATTACGGGTGATGCCATATTCCGGCAAGATTAAAGCTGCGAAGAATCTTCATTTTATTACGTACAAGACGTATAGGGTGAAAATGCTGAGACAAGAGTTGGTTCAGAATGAACTAAGGGATCATTTAGATCGGCCTCAAGATGGTGATTATTTCTTCGTACACAAAGGGAGAGTATTGAACGAAGATCAGTCATTCGAGTGGAACAGTGTTGCTCACACTGATATTGTTGAGATCGTTCCCGATCCGTGGCTCTATTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03320 map03320
Pfam Domains
Protein Families
ubiquitin

Protein Analysis

259

Amino Acids

29.88

Weight (kDa)

5.02

Isoelectric Point (pI)

55.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ubiquitin PF00240 4 - 70 4.6e-13 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: OG0014116)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05230 AT4G05240 AT4G05260
fragaria_vesca FvH4_2g19820 FvH4_3g02641
malus_domestica MD05G1341200.v1.1 MD05G1341300.v1.1 MD10G1314800.v1.1
prunus_persica Prupe.4G026000_v2.0.a1
pyrus_communis pycom10g26690
rosa_chinensis RchiOBHm_Chr5g0003951
rosa_multiflora Rmu_sc0000547.1_g000007
rosa_roxburghii Rroxscaffold_1G00072020
rosa_samantha Rh5BG035000 Rh5CG038600 Rh5DG034600
rosa_wichuraiana Rw5G003290

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 648, 758
AcuI CTGAAG 1 cut(s) 333
AfaI GTAC 4 cut(s) 11, 201, 584, 681
AfiI CCNNNNNNNGG 4 cut(s) 272, 542, 662, 768
AgsI TTSAA 7 cut(s) 47, 149, 248, 325, 350, 491, 700
AluBI AGCT 1 cut(s) 557
AluI AGCT 1 cut(s) 557
Alw26I GTCTC 1 cut(s) 604
AlwI GGATC 2 cut(s) 648, 758
AoxI GGCC 1 cut(s) 653
ApeKI GCWGC 2 cut(s) 395, 557
AsuHPI GGTGA 6 cut(s) 302, 373, 445, 541, 610, 677
AsuII TTCGAA 1 cut(s) 15
BbsI GAAGAC 1 cut(s) 156
BbvI GCAGC 2 cut(s) 407, 544
BccI CCATC 2 cut(s) 162, 656
BcgI CGANNNNNNTGC 2 cut(s) 321, 355
BciVI GTATCC 1 cut(s) 116
BcoDI GTCTC 1 cut(s) 604
BfuI GTATCC 1 cut(s) 116
BglII AGATCT 1 cut(s) 277
BisI GCNGC 2 cut(s) 396, 558
BlsI GCNGC 2 cut(s) 397, 559
BmrI ACTGGG 2 cut(s) 67, 338
BmsI GCATC 1 cut(s) 522
BmuI ACTGGG 2 cut(s) 67, 338
BpiI GAAGAC 1 cut(s) 156
Bpu14I TTCGAA 1 cut(s) 15
BpuEI CTTGAG 1 cut(s) 642
BsaAI YACGTR 1 cut(s) 582
BsaJI CCNNGG 1 cut(s) 767
BsaWI WCCGGW 1 cut(s) 358
Bsc4I CCNNNNNNNGG 4 cut(s) 272, 542, 662, 768
Bse118I RCCGGY 1 cut(s) 430
Bse1I ACTGG 2 cut(s) 62, 344
Bse3DI GCAATG 1 cut(s) 145
BseDI CCNNGG 1 cut(s) 767
BseGI GGATG 1 cut(s) 10
BseLI CCNNNNNNNGG 4 cut(s) 272, 542, 662, 768
BseMI GCAATG 1 cut(s) 145
BseMII CTCAG 2 cut(s) 35, 599
BseNI ACTGG 2 cut(s) 62, 344
BseRI GAGGAG 1 cut(s) 269
BseXI GCAGC 2 cut(s) 407, 544
BshFI GGCC 1 cut(s) 655
BsiSI CCGG 3 cut(s) 359, 431, 543
BslFI GGGAC 1 cut(s) 74
BslI CCNNNNNNNGG 4 cut(s) 272, 542, 662, 768
BsmAI GTCTC 1 cut(s) 604
BsmFI GGGAC 1 cut(s) 74
BsnI GGCC 1 cut(s) 655
Bsp119I TTCGAA 1 cut(s) 15
BspANI GGCC 1 cut(s) 655
BspCNI CTCAG 2 cut(s) 34, 600
BspPI GGATC 2 cut(s) 648, 758
BspT104I TTCGAA 1 cut(s) 15
BsrDI GCAATG 1 cut(s) 145
BsrFI RCCGGY 1 cut(s) 430
BsrI ACTGG 2 cut(s) 62, 344
BssAI RCCGGY 1 cut(s) 430
BssECI CCNNGG 1 cut(s) 767
Bst4CI ACNGT 5 cut(s) 67, 290, 387, 459, 728
Bst6I CTCTTC 1 cut(s) 209
BstBAI YACGTR 1 cut(s) 582
BstBI TTCGAA 1 cut(s) 15
BstDEI CTNAG 3 cut(s) 21, 608, 635
BstDSI CCRYGG 1 cut(s) 767
BstF5I GGATG 1 cut(s) 10
BstMAI GTCTC 1 cut(s) 604
BstSNI TACGTA 1 cut(s) 582
BstV1I GCAGC 2 cut(s) 407, 544
BstV2I GAAGAC 1 cut(s) 156
BstX2I RGATCY 1 cut(s) 277
BstYI RGATCY 1 cut(s) 277
BsuI GTATCC 1 cut(s) 116
BsuRI GGCC 1 cut(s) 655
BtgI CCRYGG 1 cut(s) 767
BtsCI GGATG 1 cut(s) 10
BtsIMutI CAGTG 3 cut(s) 72, 733, 738
Cfr10I RCCGGY 1 cut(s) 430
CseI GACGC 1 cut(s) 401
Csp6I GTAC 4 cut(s) 10, 200, 583, 680
CviAII CATG 1 cut(s) 194
CviJI RGCY 3 cut(s) 557, 655, 772
CviKI_1 RGCY 3 cut(s) 557, 655, 772
CviQI GTAC 4 cut(s) 10, 200, 583, 680
DdeI CTNAG 3 cut(s) 21, 608, 635
Eam1104I CTCTTC 1 cut(s) 209
EarI CTCTTC 1 cut(s) 209
Eco105I TACGTA 1 cut(s) 582
Eco32I GATATC 2 cut(s) 163, 406
Eco57I CTGAAG 1 cut(s) 333
EcoRV GATATC 2 cut(s) 163, 406
FaeI CATG 1 cut(s) 197
FaiI YATR 4 cut(s) 195, 269, 538, 594
FalI AAGNNNNNCTT 2 cut(s) 141, 173
FaqI GGGAC 1 cut(s) 74
FatI CATG 1 cut(s) 193
Fnu4HI GCNGC 2 cut(s) 396, 558
FokI GGATG 1 cut(s) 17
Fsp4HI GCNGC 2 cut(s) 396, 558
GluI GCNGC 2 cut(s) 396, 558
HaeIII GGCC 1 cut(s) 655
HapII CCGG 3 cut(s) 359, 431, 543
HgaI GACGC 1 cut(s) 401
Hin1II CATG 1 cut(s) 197
HinfI GANTC 6 cut(s) 178, 353, 425, 464, 494, 565
HpaII CCGG 3 cut(s) 359, 431, 543
HphI GGTGA 6 cut(s) 302, 373, 445, 541, 610, 677
Hpy166II GTNNAC 2 cut(s) 10, 682
Hpy188I TCNGA 5 cut(s) 24, 275, 391, 463, 627
Hpy188III TCNNGA 9 cut(s) 91, 146, 158, 215, 350, 422, 491, 659, 761
Hpy8I GTNNAC 2 cut(s) 10, 682
HpyAV CCTTC 1 cut(s) 221
HpyCH4III ACNGT 5 cut(s) 67, 290, 387, 459, 728
HpyCH4IV ACGT 3 cut(s) 103, 581, 590
HpyCH4V TGCA 2 cut(s) 42, 174
HpyF3I CTNAG 3 cut(s) 21, 608, 635
HpySE526I ACGT 3 cut(s) 103, 581, 590
Hsp92II CATG 1 cut(s) 197
LmnI GCTCC 1 cut(s) 256
LpnPI CCDG 8 cut(s) 43, 123, 228, 357, 372, 444, 513, 556
Lsp1109I GCAGC 2 cut(s) 407, 544
LweI GCATC 1 cut(s) 522
MaeII ACGT 3 cut(s) 103, 581, 590
MaeIII GTNAC 1 cut(s) 53
MflI RGATCY 1 cut(s) 277
MluCI AATT 1 cut(s) 47
MlyI GAGTC 1 cut(s) 458
MmeI TCCRAC 1 cut(s) 51
MnlI CCTC 4 cut(s) 247, 273, 286, 666
MseI TTAA 2 cut(s) 471, 552
MslI CAYNNNNRTG 1 cut(s) 718
MspI CCGG 3 cut(s) 359, 431, 543
NlaIII CATG 1 cut(s) 197
NspV TTCGAA 1 cut(s) 15
PcsI WCGNNNNNNNCGW 2 cut(s) 204, 587
PfeI GAWTC 5 cut(s) 178, 353, 425, 494, 565
PkrI GCNGC 2 cut(s) 397, 559
PleI GAGTC 1 cut(s) 458
PpsI GAGTC 1 cut(s) 458
Ppu21I YACGTR 1 cut(s) 582
PsuI RGATCY 1 cut(s) 277
RsaI GTAC 4 cut(s) 11, 201, 584, 681
RsaNI GTAC 4 cut(s) 10, 200, 583, 680
RseI CAYNNNNRTG 1 cut(s) 718
SaqAI TTAA 2 cut(s) 471, 552
SatI GCNGC 2 cut(s) 396, 558
SchI GAGTC 1 cut(s) 458
SetI ASST 8 cut(s) 55, 106, 265, 337, 418, 559, 584, 593
SfaNI GCATC 1 cut(s) 522
SfuI TTCGAA 1 cut(s) 15
SgrAI CRCCGGYG 1 cut(s) 430
SmiMI CAYNNNNRTG 1 cut(s) 718
SmlI CTYRAG 1 cut(s) 657
SmoI CTYRAG 1 cut(s) 657
SnaBI TACGTA 1 cut(s) 582
Sse9I AATT 1 cut(s) 47
SspI AATATT 1 cut(s) 328
TaaI ACNGT 5 cut(s) 67, 290, 387, 459, 728
TaiI ACGT 3 cut(s) 106, 584, 593
TaqI TCGA 4 cut(s) 15, 90, 331, 717
TaqII GACCGA 1 cut(s) 155
TasI AATT 1 cut(s) 47
TatI WGTACW 1 cut(s) 9
TfiI GAWTC 5 cut(s) 178, 353, 425, 494, 565
Tru1I TTAA 2 cut(s) 471, 552
Tru9I TTAA 2 cut(s) 471, 552
TscAI CASTG 3 cut(s) 72, 733, 745
TseI GCWGC 2 cut(s) 395, 557
TspDTI ATGAA 2 cut(s) 560, 645
TspGWI ACGGA 2 cut(s) 266, 756
TspRI CASTG 3 cut(s) 72, 733, 745
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.