AT4G05230

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0014116
Physical Location & Seq
Forward (+)
2687003 .. 2687623
621 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G05230.1

Sequence Viewer

Length: 621 bp
ATGGATGTGTTCTTCGAGACTCGGAGTGGTTCCACATTCGAGATTGAATTAGGTTATTGGGATACAGTGTTGGAGATCAAACAAAAGATCGAGAAGTATCAACGTATCCCAGTTTCCAAACAAACCCTTTTATTCCAAGGCAATGTTCTTCAAGATCATCTTGATATCGAACAATGTGTGATCCTTAACCACTCTCGTATCCAACTTTCCATCTCTTCTCCCGACCAAAGCCGTAACAACATTCAAGTGTTCAAAACCGAGCAATTCCCACAGTCAAATTCAACAGAACAGACCAGTAACGGTCATCATGAATCAACAGTGATGATCCCAATGAGCAACAACAACAACAACAACAACCCGAAGAAGCTGAGAGTAATGGTGTTGCCGAAATCCGGGACTAGGAAGATTCCGGTGGACGTGAACGCAGGGGATAATGTTGGAGAGCTGAGGAAAGAGTTGGCTAAGATTCAACAGAGGTTTCAGTTAAGTCTGCCTCAAGAAGGCTATTTCTTTATCTATAAACAGAATGTAATGGATGAAAACAGGTCATTCCGGTGGCACCGTGTTGATCAAGGCGACACAATTGAGATTTTCAACGGAAGTGTTTCCGGTGGCTCTTAA
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

206

Amino Acids

23.72

Weight (kDa)

6.53

Isoelectric Point (pI)

54.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ubiquitin PF00240 3 - 72 1.6e-16 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)
AccB1I GGYRCC 1 cut(s) 558
AclWI GGATC 2 cut(s) 175, 319
AcsI RAATTY 1 cut(s) 277
AfiI CCNNNNNNNGG 3 cut(s) 392, 399, 500
AgsI TTSAA 7 cut(s) 47, 152, 245, 253, 282, 470, 595
AjiI CACGTC 1 cut(s) 418
AjuI GAANNNNNNNTTGG 2 cut(s) 129, 161
AluBI AGCT 2 cut(s) 367, 445
AluI AGCT 2 cut(s) 367, 445
Alw26I GTCTC 1 cut(s) 11
AlwI GGATC 2 cut(s) 175, 319
ApoI RAATTY 1 cut(s) 277
Asp700I GAANNNNTTC 1 cut(s) 604
AsuC2I CCSGG 1 cut(s) 394
BaeI ACNNNNGTAYC 2 cut(s) 181, 214
BanI GGYRCC 1 cut(s) 558
BbvCI CCTCAGC 1 cut(s) 446
BccI CCATC 1 cut(s) 218
BceAI ACGGC 1 cut(s) 216
BciVI GTATCC 3 cut(s) 55, 116, 209
BclI TGATCA 1 cut(s) 568
BcnI CCSGG 1 cut(s) 394
BcoDI GTCTC 1 cut(s) 11
BfaI CTAG 1 cut(s) 399
BfuI GTATCC 3 cut(s) 55, 116, 209
Bme1390I CCNGG 1 cut(s) 394
BmgBI CACGTC 1 cut(s) 418
BmiI GGNNCC 2 cut(s) 31, 560
BmrFI CCNGG 1 cut(s) 394
BmrI ACTGGG 1 cut(s) 104
BmuI ACTGGG 1 cut(s) 104
Bpu10I CCTNAGC 1 cut(s) 446
BpuEI CTTGAG 1 cut(s) 480
BpuMI CCSGG 1 cut(s) 394
BsaJI CCNNGG 1 cut(s) 136
BsaWI WCCGGW 3 cut(s) 409, 552, 608
Bsc4I CCNNNNNNNGG 3 cut(s) 392, 399, 500
Bse1I ACTGG 2 cut(s) 110, 294
Bse3DI GCAATG 1 cut(s) 148
BseDI CCNNGG 1 cut(s) 136
BseGI GGATG 2 cut(s) 10, 541
BseLI CCNNNNNNNGG 3 cut(s) 392, 399, 500
BseMI GCAATG 1 cut(s) 148
BseMII CTCAG 2 cut(s) 359, 437
BseNI ACTGG 2 cut(s) 110, 294
BshNI GGYRCC 1 cut(s) 558
BsiSI CCGG 4 cut(s) 393, 410, 553, 609
BslFI GGGAC 1 cut(s) 409
BslI CCNNNNNNNGG 3 cut(s) 392, 399, 500
BsmAI GTCTC 1 cut(s) 11
BsmFI GGGAC 1 cut(s) 409
Bsp143I GATC 6 cut(s) 75, 87, 154, 180, 324, 568
BspCNI CTCAG 2 cut(s) 360, 438
BspHI TCATGA 1 cut(s) 307
BspLI GGNNCC 2 cut(s) 31, 560
BspPI GGATC 2 cut(s) 175, 319
BspT107I GGYRCC 1 cut(s) 558
BsrDI GCAATG 1 cut(s) 148
BsrI ACTGG 2 cut(s) 110, 294
BssECI CCNNGG 1 cut(s) 136
BssMI GATC 6 cut(s) 75, 87, 154, 180, 324, 568
BssT1I CCWWGG 1 cut(s) 136
Bst4CI ACNGT 5 cut(s) 67, 273, 302, 319, 563
Bst6I CTCTTC 1 cut(s) 220
BstDEI CTNAG 3 cut(s) 368, 446, 462
BstENI CCTNNNNNAGG 1 cut(s) 498
BstF5I GGATG 2 cut(s) 10, 541
BstKTI GATC 6 cut(s) 78, 90, 157, 183, 327, 571
BstMAI GTCTC 1 cut(s) 11
BstMBI GATC 6 cut(s) 75, 87, 154, 180, 324, 568
BstSCI CCNGG 1 cut(s) 392
BsuI GTATCC 3 cut(s) 55, 116, 209
BtrI CACGTC 1 cut(s) 418
BtsCI GGATG 2 cut(s) 10, 541
BtsIMutI CAGTG 2 cut(s) 72, 324
CciI TCATGA 1 cut(s) 307
CviAII CATG 1 cut(s) 308
CviJI RGCY 6 cut(s) 231, 367, 445, 461, 504, 615
CviKI_1 RGCY 6 cut(s) 231, 367, 445, 461, 504, 615
DdeI CTNAG 3 cut(s) 368, 446, 462
DpnI GATC 6 cut(s) 77, 89, 156, 182, 326, 570
DpnII GATC 6 cut(s) 75, 87, 154, 180, 324, 568
Eam1104I CTCTTC 1 cut(s) 220
EarI CTCTTC 1 cut(s) 220
Eco130I CCWWGG 1 cut(s) 136
Eco32I GATATC 1 cut(s) 166
EcoNI CCTNNNNNAGG 1 cut(s) 498
EcoRV GATATC 1 cut(s) 166
EcoT14I CCWWGG 1 cut(s) 136
ErhI CCWWGG 1 cut(s) 136
FaeI CATG 1 cut(s) 311
FaiI YATR 2 cut(s) 309, 519
FalI AAGNNNNNCTT 2 cut(s) 144, 176
FaqI GGGAC 1 cut(s) 409
FatI CATG 1 cut(s) 307
FbaI TGATCA 1 cut(s) 568
FokI GGATG 2 cut(s) 17, 548
FspBI CTAG 1 cut(s) 399
HapII CCGG 4 cut(s) 393, 410, 553, 609
Hin1II CATG 1 cut(s) 311
HinfI GANTC 4 cut(s) 19, 311, 406, 466
HpaII CCGG 4 cut(s) 393, 410, 553, 609
Hpy166II GTNNAC 2 cut(s) 415, 421
Hpy188I TCNGA 1 cut(s) 24
Hpy188III TCNNGA 8 cut(s) 16, 40, 91, 152, 161, 221, 308, 497
Hpy8I GTNNAC 2 cut(s) 415, 421
HpyAV CCTTC 1 cut(s) 494
HpyCH4III ACNGT 5 cut(s) 67, 273, 302, 319, 563
HpyCH4IV ACGT 2 cut(s) 103, 417
HpyF3I CTNAG 3 cut(s) 368, 446, 462
HpySE526I ACGT 2 cut(s) 103, 417
Hsp92II CATG 1 cut(s) 311
Ksp22I TGATCA 1 cut(s) 568
Kzo9I GATC 6 cut(s) 75, 87, 154, 180, 324, 568
LpnPI CCDG 7 cut(s) 123, 307, 406, 411, 423, 529, 566
MaeI CTAG 1 cut(s) 399
MaeII ACGT 2 cut(s) 103, 417
MaeIII GTNAC 2 cut(s) 233, 296
MalI GATC 6 cut(s) 77, 89, 156, 182, 326, 570
MboI GATC 6 cut(s) 75, 87, 154, 180, 324, 568
MboII GAAGA 5 cut(s) 4, 140, 207, 373, 415
MfeI CAATTG 1 cut(s) 582
MluCI AATT 4 cut(s) 47, 263, 277, 582
MlyI GAGTC 1 cut(s) 13
MmeI TCCRAC 3 cut(s) 51, 226, 418
MnlI CCTC 3 cut(s) 441, 468, 504
MroXI GAANNNNTTC 1 cut(s) 604
MseI TTAA 3 cut(s) 186, 485, 619
MslI CAYNNNNRTG 2 cut(s) 245, 553
MspI CCGG 4 cut(s) 393, 410, 553, 609
MspR9I CCNGG 1 cut(s) 394
MunI CAATTG 1 cut(s) 582
NciI CCSGG 1 cut(s) 394
NdeII GATC 6 cut(s) 75, 87, 154, 180, 324, 568
NlaIII CATG 1 cut(s) 311
NlaIV GGNNCC 2 cut(s) 31, 560
PagI TCATGA 1 cut(s) 307
PdmI GAANNNNTTC 1 cut(s) 604
PfeI GAWTC 3 cut(s) 311, 406, 466
PfoI TCCNGGA 1 cut(s) 392
PleI GAGTC 1 cut(s) 13
PpsI GAGTC 1 cut(s) 13
PspN4I GGNNCC 2 cut(s) 31, 560
RseI CAYNNNNRTG 2 cut(s) 245, 553
SaqAI TTAA 3 cut(s) 186, 485, 619
Sau3AI GATC 6 cut(s) 75, 87, 154, 180, 324, 568
SchI GAGTC 1 cut(s) 13
ScrFI CCNGG 1 cut(s) 394
SetI ASST 7 cut(s) 55, 106, 369, 420, 447, 479, 548
SmiMI CAYNNNNRTG 2 cut(s) 245, 553
SmlI CTYRAG 1 cut(s) 495
SmoI CTYRAG 1 cut(s) 495
Sse9I AATT 4 cut(s) 47, 263, 277, 582
SspMI CTAG 1 cut(s) 399
StyD4I CCNGG 1 cut(s) 392
StyI CCWWGG 1 cut(s) 136
TaaI ACNGT 5 cut(s) 67, 273, 302, 319, 563
TaiI ACGT 2 cut(s) 106, 420
TaqI TCGA 4 cut(s) 15, 39, 90, 168
TasI AATT 4 cut(s) 47, 263, 277, 582
TfiI GAWTC 3 cut(s) 311, 406, 466
Tru1I TTAA 3 cut(s) 186, 485, 619
Tru9I TTAA 3 cut(s) 186, 485, 619
TscAI CASTG 2 cut(s) 72, 324
TspDTI ATGAA 2 cut(s) 324, 552
TspGWI ACGGA 1 cut(s) 612
TspRI CASTG 2 cut(s) 72, 324
XagI CCTNNNNNAGG 1 cut(s) 498
XapI RAATTY 1 cut(s) 277
XmnI GAANNNNTTC 1 cut(s) 604
XspI CTAG 1 cut(s) 399
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.