AT4G05240

cellular macromolecule catabolic process

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0014116
Physical Location & Seq
Forward (+)
2688200 .. 2689018
819 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G05240.1

Sequence Viewer

Length: 594 bp
ATGGCTACTATCAACAGTATTCAGATAAAGCCTCCAAACAGAGTAGAAGGTTTCTCTGGCAAATGTCAATACACTGCCGTTTCATCTAATGCAGCAAAGAAACAAATGAAAATGGGCTTCGCAGTACATAAGCCCAAGACACAAATATGGAGGCAACGGTCACTCAGCTTCAAATGTTCAAGAGTCTGGAAGCTTCCCAACTACAAGTTCGAGATTGAATTGGGTTACTGGGATACAGTGTTAGAAATCAAACAGAAGATCGAGAAGTATCAACGTATCCTTGTTTACAGACAAACCCTTTTCTTCCAAGGCAATGTTCTTCAAGATCATCTTGATATCGAACAATGTGTGATCCTTAACCACTCTCTTCTCAAAGTATTCGTAGATCCTTACCGTAACCCTAATCACGACAACGATCAAATGCTTCAAACCGAGGAATCTCCACCGTTAAACTCAGCCAAAGAGATCGTTAACGTTCAAGATTCGCCAATTATGGTGAGAAGCAATATGAAAGTCGCGACGAGCATAAAGGTTGAGAACAATAATAACAACAATGATCAGTGCTTCGAACCAAGCAATCTCCAGCGTCGTTAA
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
ubiquitin

Protein Analysis

197

Amino Acids

23.0

Weight (kDa)

9.35

Isoelectric Point (pI)

47.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ubiquitin PF00240 65 - 128 5.1e-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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Publication-ready
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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)
AccII CGCG 1 cut(s) 518
AclI AACGTT 1 cut(s) 474
AclWI GGATC 2 cut(s) 346, 380
AfaI GTAC 1 cut(s) 126
AgsI TTSAA 6 cut(s) 172, 180, 218, 323, 428, 479
AjuI GAANNNNNNNTTGG 4 cut(s) 191, 223, 300, 332
AluBI AGCT 2 cut(s) 168, 193
AluI AGCT 2 cut(s) 168, 193
AlwI GGATC 2 cut(s) 346, 380
ApeKI GCWGC 1 cut(s) 92
AsuHPI GGTGA 1 cut(s) 508
AsuII TTCGAA 1 cut(s) 567
BbvI GCAGC 1 cut(s) 104
BceAI ACGGC 1 cut(s) 62
BciVI GTATCC 2 cut(s) 226, 287
BclI TGATCA 1 cut(s) 556
BfuI GTATCC 2 cut(s) 226, 287
BisI GCNGC 1 cut(s) 93
BlsI GCNGC 1 cut(s) 94
BmrI ACTGGG 1 cut(s) 238
BmuI ACTGGG 1 cut(s) 238
BpmI CTGGAG 1 cut(s) 566
Bpu14I TTCGAA 1 cut(s) 567
BsaJI CCNNGG 2 cut(s) 307, 432
Bse1I ACTGG 1 cut(s) 233
Bse3DI GCAATG 1 cut(s) 319
BseDI CCNNGG 2 cut(s) 307, 432
BseMI GCAATG 1 cut(s) 319
BseMII CTCAG 2 cut(s) 178, 468
BseNI ACTGG 1 cut(s) 233
BseXI GCAGC 1 cut(s) 104
Bsh1236I CGCG 1 cut(s) 518
Bsp119I TTCGAA 1 cut(s) 567
Bsp143I GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
Bsp68I TCGCGA 1 cut(s) 518
BspCNI CTCAG 2 cut(s) 177, 467
BspFNI CGCG 1 cut(s) 518
BspPI GGATC 2 cut(s) 346, 380
BspT104I TTCGAA 1 cut(s) 567
BsrDI GCAATG 1 cut(s) 319
BsrI ACTGG 1 cut(s) 233
BssECI CCNNGG 2 cut(s) 307, 432
BssMI GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
BssT1I CCWWGG 1 cut(s) 307
Bst4CI ACNGT 5 cut(s) 17, 159, 238, 395, 447
Bst6I CTCTTC 1 cut(s) 372
BstBI TTCGAA 1 cut(s) 567
BstDEI CTNAG 2 cut(s) 164, 454
BstFNI CGCG 1 cut(s) 518
BstKTI GATC 7 cut(s) 261, 328, 354, 388, 418, 468, 559
BstMBI GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
BstUI CGCG 1 cut(s) 518
BstV1I GCAGC 1 cut(s) 104
BstX2I RGATCY 1 cut(s) 385
BstYI RGATCY 1 cut(s) 385
BsuI GTATCC 2 cut(s) 226, 287
BtsI GCAGTG 1 cut(s) 72
BtsIMutI CAGTG 3 cut(s) 72, 243, 566
BtuMI TCGCGA 1 cut(s) 518
CseI GACGC 1 cut(s) 575
Csp6I GTAC 1 cut(s) 125
CviJI RGCY 7 cut(s) 5, 31, 117, 133, 168, 193, 458
CviKI_1 RGCY 7 cut(s) 5, 31, 117, 133, 168, 193, 458
CviQI GTAC 1 cut(s) 125
DdeI CTNAG 2 cut(s) 164, 454
DpnI GATC 7 cut(s) 260, 327, 353, 387, 417, 467, 558
DpnII GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
Eam1104I CTCTTC 1 cut(s) 372
EarI CTCTTC 1 cut(s) 372
Eco130I CCWWGG 1 cut(s) 307
Eco32I GATATC 1 cut(s) 337
EcoRV GATATC 1 cut(s) 337
EcoT14I CCWWGG 1 cut(s) 307
ErhI CCWWGG 1 cut(s) 307
FaiI YATR 5 cut(s) 129, 148, 494, 509, 527
FalI AAGNNNNNCTT 2 cut(s) 315, 347
FbaI TGATCA 1 cut(s) 556
Fnu4HI GCNGC 1 cut(s) 93
Fsp4HI GCNGC 1 cut(s) 93
GluI GCNGC 1 cut(s) 93
GsuI CTGGAG 1 cut(s) 566
HgaI GACGC 1 cut(s) 575
HincII GTYRAC 1 cut(s) 472
HindII GTYRAC 1 cut(s) 472
HindIII AAGCTT 1 cut(s) 191
HinfI GANTC 3 cut(s) 183, 437, 482
HpaI GTTAAC 1 cut(s) 472
HphI GGTGA 1 cut(s) 508
Hpy166II GTNNAC 2 cut(s) 286, 472
Hpy188I TCNGA 1 cut(s) 24
Hpy188III TCNNGA 9 cut(s) 180, 187, 211, 262, 323, 332, 407, 479, 517
Hpy8I GTNNAC 2 cut(s) 286, 472
Hpy99I CGWCG 2 cut(s) 523, 591
HpyAV CCTTC 1 cut(s) 41
HpyCH4III ACNGT 5 cut(s) 17, 159, 238, 395, 447
HpyCH4IV ACGT 2 cut(s) 274, 474
HpyCH4V TGCA 1 cut(s) 92
HpyF3I CTNAG 2 cut(s) 164, 454
HpySE526I ACGT 2 cut(s) 274, 474
Ksp22I TGATCA 1 cut(s) 556
KspAI GTTAAC 1 cut(s) 472
Kzo9I GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
LpnPI CCDG 3 cut(s) 42, 172, 214
Lsp1109I GCAGC 1 cut(s) 104
MaeII ACGT 2 cut(s) 274, 474
MaeIII GTNAC 3 cut(s) 159, 224, 395
MalI GATC 7 cut(s) 260, 327, 353, 387, 417, 467, 558
MboI GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
MboII GAAGA 4 cut(s) 268, 295, 311, 359
MflI RGATCY 1 cut(s) 385
MluCI AATT 2 cut(s) 218, 489
MlyI GAGTC 1 cut(s) 192
MnlI CCTC 3 cut(s) 42, 144, 427
MseI TTAA 4 cut(s) 357, 449, 471, 592
MslI CAYNNNNRTG 1 cut(s) 145
MvnI CGCG 1 cut(s) 518
NdeII GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
NmuCI GTSAC 1 cut(s) 159
NruI TCGCGA 1 cut(s) 518
NspV TTCGAA 1 cut(s) 567
PfeI GAWTC 2 cut(s) 437, 482
PkrI GCNGC 1 cut(s) 94
PleI GAGTC 1 cut(s) 191
PpsI GAGTC 1 cut(s) 191
Psp1406I AACGTT 1 cut(s) 474
PsuI RGATCY 1 cut(s) 385
RruI TCGCGA 1 cut(s) 518
RsaI GTAC 1 cut(s) 126
RsaNI GTAC 1 cut(s) 125
RseI CAYNNNNRTG 1 cut(s) 145
SaqAI TTAA 4 cut(s) 357, 449, 471, 592
SatI GCNGC 1 cut(s) 93
Sau3AI GATC 7 cut(s) 258, 325, 351, 385, 415, 465, 556
SchI GAGTC 1 cut(s) 192
SetI ASST 6 cut(s) 52, 170, 195, 277, 477, 534
SfuI TTCGAA 1 cut(s) 567
SmiMI CAYNNNNRTG 1 cut(s) 145
Sse9I AATT 2 cut(s) 218, 489
StyI CCWWGG 1 cut(s) 307
TaaI ACNGT 5 cut(s) 17, 159, 238, 395, 447
TaiI ACGT 2 cut(s) 277, 477
TaqI TCGA 4 cut(s) 210, 261, 339, 567
TasI AATT 2 cut(s) 218, 489
TatI WGTACW 1 cut(s) 124
TfiI GAWTC 2 cut(s) 437, 482
Tru1I TTAA 4 cut(s) 357, 449, 471, 592
Tru9I TTAA 4 cut(s) 357, 449, 471, 592
TscAI CASTG 3 cut(s) 79, 243, 566
TseFI GTSAC 1 cut(s) 159
TseI GCWGC 1 cut(s) 92
Tsp45I GTSAC 1 cut(s) 159
TspDTI ATGAA 3 cut(s) 72, 122, 524
TspRI CASTG 3 cut(s) 79, 243, 566
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.