AT5G42200

E3 ubiquitin-protein ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0013024
Physical Location & Seq
Forward (+)
16860286 .. 16861290
1005 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G42200.1

Sequence Viewer

Length: 492 bp
ATGCACTACACACGCATCTCGCCGGCTTTAGTACCATCTCTATCACCAACCGCCGCGGCTGAATCTAGCGGTGGTGGGACGATGATAGCTACTGTTTTCATGGCCCTTCTCCTCCCCTGCGTCGGCATGTGCATCGTCTTCCTAATCTATCTATTCCTCTTGTGGTGCTCCACACGGCGTCGTATCGAACGCCTTCGATTTGCTGAACCGGTTAAACCGGTCACAGGTAAAGGCCTTTCGGTGTTGGAGCTCGAGAAAATCCCTAAACTCACCGGAAGAGAGCTAGCCGTAATAGCTAGATCAACGGAATGTGCTGTTTGCCTTGAAGATATAGAGAGTGGTCAATCGACTCGTCTAGTTCCCGGTTGCAACCATGGGTTTCACCAATTATGTGCTGATACGTGGCTATCTAACCACACGGTTTGTCCAGTTTGCCGCGCCGAGCTGGCTCCGAACCTACCTCAATGTAATGAAAATCAAAGTCCATGTTAG

Protein Analysis

163

Amino Acids

17.76

Weight (kDa)

7.51

Isoelectric Point (pI)

63.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-rbx1 PF12678 98 - 146 1.3e-07 RING-H2 zinc finger domain
zf-RING_2 PF13639 103 - 146 1e-13 Ring finger domain
zf-RING_11 PF17123 103 - 131 6.9e-10 RING-like zinc finger
zf-C3HC4_2 PF13923 103 - 145 5.6e-08 Zinc finger, C3HC4 type (RING finger)
zf-C3HC4 PF00097 104 - 145 9e-06 Zinc finger, C3HC4 type (RING finger)
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: OG0013024)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42200
fragaria_vesca FvH4_2g38021
malus_domestica MD08G1008600.v1.1 MD15G1007400.v1.1
prunus_persica Prupe.1G360300_v2.0.a1
pyrus_communis pycom08g00680
rosa_chinensis RchiOBHm_Chr6g0303581
rosa_laevigata RLG00000011067 RLG00000011071
rosa_multiflora Rmu_ssc0000114.1_g000026
rosa_roxburghii Rroxscaffold_7G00164610
rosa_rugosa Rorug06G0322500
rosa_samantha Rh6BG465900 Rh6BG466400 Rh6CG448900 Rh6DG436100
rosa_wichuraiana Rw6G037820 Rw6G037860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 56, 438
AciI CCGC 5 cut(s) 51, 54, 56, 69, 436
AcyI GRCGYC 1 cut(s) 178
AfaI GTAC 1 cut(s) 33
AfiI CCNNNNNNNGG 2 cut(s) 122, 224
AgeI ACCGGT 2 cut(s) 208, 217
AgsI TTSAA 1 cut(s) 326
AluBI AGCT 5 cut(s) 89, 250, 283, 296, 445
AluI AGCT 5 cut(s) 89, 250, 283, 296, 445
Alw21I GWGCWC 2 cut(s) 170, 252
Ama87I CYCGRG 1 cut(s) 251
AoxI GGCC 2 cut(s) 102, 232
AsiGI ACCGGT 2 cut(s) 208, 217
Asp700I GAANNNNTTC 1 cut(s) 192
AspLEI GCGC 1 cut(s) 440
AspS9I GGNCC 1 cut(s) 103
AsuC2I CCSGG 1 cut(s) 363
AsuHPI GGTGA 3 cut(s) 36, 262, 374
AsuNHI GCTAGC 1 cut(s) 283
AvaI CYCGRG 1 cut(s) 251
BanII GRGCYC 1 cut(s) 252
BbsI GAAGAC 1 cut(s) 130
Bbv12I GWGCWC 2 cut(s) 170, 252
BccI CCATC 1 cut(s) 43
BceAI ACGGC 2 cut(s) 191, 272
BcgI CGANNNNNNTGC 2 cut(s) 115, 149
BcnI CCSGG 1 cut(s) 363
BfaI CTAG 4 cut(s) 66, 284, 297, 356
BglI GCCNNNNNGGC 1 cut(s) 446
BisI GCNGC 3 cut(s) 54, 57, 436
BlsI GCNGC 3 cut(s) 55, 58, 437
Bme1390I CCNGG 1 cut(s) 363
BmeT110I CYCGRG 1 cut(s) 251
BmgT120I GGNCC 1 cut(s) 103
BmiI GGNNCC 1 cut(s) 450
BmrFI CCNGG 1 cut(s) 363
BmsI GCATC 2 cut(s) 24, 141
BmtI GCTAGC 1 cut(s) 287
BpiI GAAGAC 1 cut(s) 130
BpuMI CCSGG 1 cut(s) 363
BsaAI YACGTR 1 cut(s) 402
BsaHI GRCGYC 1 cut(s) 178
BsaJI CCNNGG 2 cut(s) 54, 373
BsaWI WCCGGW 3 cut(s) 208, 217, 272
Bsc4I CCNNNNNNNGG 2 cut(s) 122, 224
Bse118I RCCGGY 3 cut(s) 22, 208, 217
Bse1I ACTGG 1 cut(s) 428
BseDI CCNNGG 2 cut(s) 54, 373
BseLI CCNNNNNNNGG 2 cut(s) 122, 224
BseNI ACTGG 1 cut(s) 428
BseRI GAGGAG 1 cut(s) 101
Bsh1236I CGCG 2 cut(s) 56, 438
BshFI GGCC 2 cut(s) 104, 234
BshTI ACCGGT 2 cut(s) 208, 217
BsiHKAI GWGCWC 2 cut(s) 170, 252
BsiHKCI CYCGRG 1 cut(s) 251
BsiSI CCGG 5 cut(s) 23, 209, 218, 273, 363
BslFI GGGAC 1 cut(s) 91
BslI CCNNNNNNNGG 2 cut(s) 122, 224
BsmFI GGGAC 1 cut(s) 91
BsnI GGCC 2 cut(s) 104, 234
BsoBI CYCGRG 1 cut(s) 251
Bsp1286I GDGCHC 2 cut(s) 170, 252
Bsp143I GATC 1 cut(s) 299
Bsp19I CCATGG 1 cut(s) 373
BspACI CCGC 5 cut(s) 51, 54, 56, 69, 436
BspANI GGCC 2 cut(s) 104, 234
BspFNI CGCG 2 cut(s) 56, 438
BspLI GGNNCC 1 cut(s) 450
BspOI GCTAGC 1 cut(s) 287
BsrFI RCCGGY 3 cut(s) 22, 208, 217
BsrI ACTGG 1 cut(s) 428
BssAI RCCGGY 3 cut(s) 22, 208, 217
BssECI CCNNGG 2 cut(s) 54, 373
BssMI GATC 1 cut(s) 299
BssNI GRCGYC 1 cut(s) 178
BssT1I CCWWGG 1 cut(s) 373
Bst4CI ACNGT 2 cut(s) 94, 421
Bst6I CTCTTC 1 cut(s) 271
BstACI GRCGYC 1 cut(s) 178
BstBAI YACGTR 1 cut(s) 402
BstC8I GCNNGC 3 cut(s) 24, 285, 447
BstDSI CCRYGG 2 cut(s) 54, 373
BstFNI CGCG 2 cut(s) 56, 438
BstHHI GCGC 1 cut(s) 440
BstKTI GATC 1 cut(s) 302
BstMBI GATC 1 cut(s) 299
BstMWI GCNNNNNNNGC 2 cut(s) 293, 446
BstNSI RCATGY 1 cut(s) 130
BstSCI CCNGG 1 cut(s) 361
BstUI CGCG 2 cut(s) 56, 438
BstV2I GAAGAC 1 cut(s) 130
BsuRI GGCC 2 cut(s) 104, 234
BtgI CCRYGG 2 cut(s) 54, 373
Cac8I GCNNGC 3 cut(s) 24, 285, 447
CfoI GCGC 1 cut(s) 440
Cfr10I RCCGGY 3 cut(s) 22, 208, 217
Cfr13I GGNCC 1 cut(s) 103
Cfr42I CCGCGG 1 cut(s) 57
CseI GACGC 2 cut(s) 109, 167
Csp6I GTAC 1 cut(s) 32
CspAI ACCGGT 2 cut(s) 208, 217
CspCI CAANNNNNGTGG 2 cut(s) 404, 439
CviAII CATG 4 cut(s) 100, 127, 374, 486
CviQI GTAC 1 cut(s) 32
DpnI GATC 1 cut(s) 301
DpnII GATC 1 cut(s) 299
Eam1104I CTCTTC 1 cut(s) 271
EarI CTCTTC 1 cut(s) 271
Ecl136II GAGCTC 1 cut(s) 250
Eco130I CCWWGG 1 cut(s) 373
Eco147I AGGCCT 1 cut(s) 234
Eco24I GRGCYC 1 cut(s) 252
Eco53kI GAGCTC 1 cut(s) 250
Eco88I CYCGRG 1 cut(s) 251
EcoICRI GAGCTC 1 cut(s) 250
EcoT14I CCWWGG 1 cut(s) 373
EcoT38I GRGCYC 1 cut(s) 252
ErhI CCWWGG 1 cut(s) 373
FaeI CATG 4 cut(s) 103, 130, 377, 489
FaiI YATR 6 cut(s) 101, 128, 332, 375, 391, 487
FaqI GGGAC 1 cut(s) 91
FatI CATG 4 cut(s) 99, 126, 373, 485
Fnu4HI GCNGC 3 cut(s) 54, 57, 436
FriOI GRGCYC 1 cut(s) 252
Fsp4HI GCNGC 3 cut(s) 54, 57, 436
FspBI CTAG 4 cut(s) 66, 284, 297, 356
GlaI GCGC 1 cut(s) 439
GluI GCNGC 3 cut(s) 54, 57, 436
HaeIII GGCC 2 cut(s) 104, 234
HapII CCGG 5 cut(s) 23, 209, 218, 273, 363
HgaI GACGC 2 cut(s) 109, 167
HhaI GCGC 1 cut(s) 440
Hin1I GRCGYC 1 cut(s) 178
Hin1II CATG 4 cut(s) 103, 130, 377, 489
Hin6I GCGC 1 cut(s) 438
HinP1I GCGC 1 cut(s) 438
HinfI GANTC 2 cut(s) 62, 349
HpaII CCGG 5 cut(s) 23, 209, 218, 273, 363
HphI GGTGA 3 cut(s) 36, 262, 374
Hpy188I TCNGA 1 cut(s) 453
Hpy188III TCNNGA 1 cut(s) 253
Hpy99I CGWCG 2 cut(s) 125, 183
HpyAV CCTTC 2 cut(s) 116, 203
HpyCH4III ACNGT 2 cut(s) 94, 421
HpyCH4IV ACGT 1 cut(s) 401
HpyCH4V TGCA 3 cut(s) 4, 132, 369
HpyF10VI GCNNNNNNNGC 2 cut(s) 293, 446
HpySE526I ACGT 1 cut(s) 401
Hsp92I GRCGYC 1 cut(s) 178
Hsp92II CATG 4 cut(s) 103, 130, 377, 489
HspAI GCGC 1 cut(s) 438
KroI GCCGGC 1 cut(s) 22
KroNI GCCGGC 1 cut(s) 24
KspI CCGCGG 1 cut(s) 57
Kzo9I GATC 1 cut(s) 299
LmnI GCTCC 3 cut(s) 173, 247, 454
LpnPI CCDG 9 cut(s) 36, 130, 210, 222, 231, 286, 376, 431, 441
LweI GCATC 2 cut(s) 24, 141
MaeI CTAG 4 cut(s) 66, 284, 297, 356
MaeII ACGT 1 cut(s) 401
MaeIII GTNAC 1 cut(s) 220
MalI GATC 1 cut(s) 301
MboI GATC 1 cut(s) 299
MboII GAAGA 3 cut(s) 130, 288, 338
MhlI GDGCHC 2 cut(s) 170, 252
MluCI AATT 1 cut(s) 386
MlyI GAGTC 1 cut(s) 343
MmeI TCCRAC 1 cut(s) 225
MnlI CCTC 3 cut(s) 122, 167, 471
MroNI GCCGGC 1 cut(s) 22
MroXI GAANNNNTTC 1 cut(s) 192
MseI TTAA 1 cut(s) 213
MspA1I CMGCKG 1 cut(s) 56
MspI CCGG 5 cut(s) 23, 209, 218, 273, 363
MspR9I CCNGG 1 cut(s) 363
MvnI CGCG 2 cut(s) 56, 438
MwoI GCNNNNNNNGC 2 cut(s) 293, 446
NaeI GCCGGC 1 cut(s) 24
NciI CCSGG 1 cut(s) 363
NcoI CCATGG 1 cut(s) 373
NdeII GATC 1 cut(s) 299
NgoMIV GCCGGC 1 cut(s) 22
NheI GCTAGC 1 cut(s) 283
NlaIII CATG 4 cut(s) 103, 130, 377, 489
NlaIV GGNNCC 1 cut(s) 450
NmeAIII GCCGAG 1 cut(s) 466
NmuCI GTSAC 1 cut(s) 220
NspI RCATGY 1 cut(s) 130
PaeR7I CTCGAG 1 cut(s) 251
PceI AGGCCT 1 cut(s) 234
PdiI GCCGGC 1 cut(s) 24
PdmI GAANNNNTTC 1 cut(s) 192
PfeI GAWTC 1 cut(s) 62
PinAI ACCGGT 2 cut(s) 208, 217
PkrI GCNGC 3 cut(s) 55, 58, 437
PleI GAGTC 1 cut(s) 343
PpsI GAGTC 1 cut(s) 343
Ppu21I YACGTR 1 cut(s) 402
Psp124BI GAGCTC 1 cut(s) 252
PspN4I GGNNCC 1 cut(s) 450
PspPI GGNCC 1 cut(s) 103
RsaI GTAC 1 cut(s) 33
RsaNI GTAC 1 cut(s) 32
SacI GAGCTC 1 cut(s) 252
SacII CCGCGG 1 cut(s) 57
SaqAI TTAA 1 cut(s) 213
SatI GCNGC 3 cut(s) 54, 57, 436
Sau3AI GATC 1 cut(s) 299
Sau96I GGNCC 1 cut(s) 103
SchI GAGTC 1 cut(s) 343
ScrFI CCNGG 1 cut(s) 363
SduI GDGCHC 2 cut(s) 170, 252
SetI ASST 9 cut(s) 91, 229, 252, 285, 298, 404, 447, 459, 463
SfaNI GCATC 2 cut(s) 24, 141
Sfr274I CTCGAG 1 cut(s) 251
Sfr303I CCGCGG 1 cut(s) 57
SgrBI CCGCGG 1 cut(s) 57
SlaI CTCGAG 1 cut(s) 251
SmlI CTYRAG 1 cut(s) 251
SmoI CTYRAG 1 cut(s) 251
Sse9I AATT 1 cut(s) 386
SseBI AGGCCT 1 cut(s) 234
SsiI CCGC 5 cut(s) 51, 54, 56, 69, 436
SspMI CTAG 4 cut(s) 66, 284, 297, 356
SstI GAGCTC 1 cut(s) 252
StuI AGGCCT 1 cut(s) 234
StyD4I CCNGG 1 cut(s) 361
StyI CCWWGG 1 cut(s) 373
TaaI ACNGT 2 cut(s) 94, 421
TaiI ACGT 1 cut(s) 404
TaqI TCGA 4 cut(s) 186, 196, 252, 347
TasI AATT 1 cut(s) 386
TauI GCSGC 3 cut(s) 56, 59, 438
TfiI GAWTC 1 cut(s) 62
Tru1I TTAA 1 cut(s) 213
Tru9I TTAA 1 cut(s) 213
TseFI GTSAC 1 cut(s) 220
Tsp45I GTSAC 1 cut(s) 220
TspDTI ATGAA 2 cut(s) 88, 486
TspGWI ACGGA 1 cut(s) 320
XceI RCATGY 1 cut(s) 130
XhoI CTCGAG 1 cut(s) 251
XmnI GAANNNNTTC 1 cut(s) 192
XspI CTAG 4 cut(s) 66, 284, 297, 356
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.