Rh3DG278800

SCF-dependent proteasomal ubiquitin-dependent protein catabolic process

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0000488
Physical Location & Seq
Forward (+)
28270462 .. 28270830
369 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG278800.1

Sequence Viewer

Length: 369 bp
ATGAAGTTTTTCTTGATTTCCGATCTCCGATGGCCCCAGAGTATCACCACCACCCCTATGCCCAGACCACAGTTGATTACAAGCTTTAACTGGTATAACTGGTATTGCCGAAAAGGCCACGAACAGGCTATAACTGGTATTGCCTTTCCCGAAAGGAGTAGCAAGCTTTATACGGCTAATAAAGATGGGATGGTCAGAGTTTGGGATTGTAATACAGGTCAATGTATCAGGGTAGTTAATCTTGGTAGTGAAGCAGGGGCTTTGATTAGTAAGTGTCCATGGGTTTTCTGCGGTGCTCGTAATGTTGTCAAGGCATGGAGCATTGAATGGGGTATCAGATGGGGAATGTGTTTGGGATTTTTGAGGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko04114 ko04120 ko04218 ko04310 ko04340 ko04341 ko04390 ko04624 ko04710 ko05131 map03040 map04114 map04120 map04218 map04310 map04340 map04341 map04390 map04624 map04710 map05131
Pfam Domains
Protein Families
WD40 zf-CCCH

Protein Analysis

122

Amino Acids

14.07

Weight (kDa)

9.54

Isoelectric Point (pI)

40.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR3_1st PF25173 38 - 80 6e-08 WDR3 first beta-propeller domain
Beta-prop_WDR5 PF25175 38 - 80 8.3e-08 WDR5 beta-propeller domain
Beta-prop_THOC3 PF25174 38 - 85 1.5e-07 THOC3 beta-propeller domain
WD40 PF00400 38 - 69 5.6e-06 WD domain, G-beta repeat
WD40_WDHD1_1st PF24817 38 - 86 8.4e-06 WDHD1 first WD40 domain
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: OG0000488)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25440 AT4G25440 AT4G25440 AT5G51980 AT5G51980
fragaria_vesca FvH4_2g11580 FvH4_3g29280 FvH4_4g05980 FvH4_7g28880 FvH4_7g28880
malus_domestica MD01G1195600.v1.1 MD02G1195200.v1.1 MD07G1262400.v1.1
prunus_persica Prupe.2G102200_v2.0.a1 Prupe.2G102200_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G288900_v2.0.a1
pyrus_communis pycom01g20620 pycom02g15900 pycom07g24140
rosa_chinensis RchiOBHm_Chr1g0376561 RchiOBHm_Chr3g0483051 RchiOBHm_Chr3g0483061 RchiOBHm_Chr3g0483601 RchiOBHm_Chr3g0483611 RchiOBHm_Chr4g0402321 RchiOBHm_Chr6g0270771
rosa_laevigata RLG00000009464 RLG00000009486 RLG00000013770 RLG00000023264 RLG00000023325 RLG00000026601 RLG00000035049
rosa_multiflora Rmu_co8110388.1_g000001 Rmu_co8419409.1_g000001 Rmu_sc0000555.1_g000012 Rmu_sc0000642.1_g000020 Rmu_sc0001308.1_g000010 Rmu_sc0002963.1_g000021 Rmu_sc0004788.1_g000012 Rmu_sc0005594.1_g000015 Rmu_sc0022770.1_g000001
rosa_roxburghii Rroxscaffold_4G00282000 Rroxscaffold_5G00341940 Rroxscaffold_5G00341950 Rroxscaffold_6G00398950 Rroxscaffold_7G00197610
rosa_rugosa Rorug01G0396500 Rorug03G0207400 Rorug03G0346000 Rorug04G0166800 Rorug06G0056400 Rorug06G0056500
rosa_samantha Rh1AG412700 Rh1BG372400 Rh1BG372600 Rh1CG386200 Rh1CG386500 Rh1DG403300 Rh1DG403500 Rh3AG255500 Rh3AG255600 Rh3BG292600 Rh3CG290200 Rh3DG278800 Rh3DG286100 Rh4AG075500 Rh4AG111600 Rh4BG071900 Rh4BG072100 Rh4BG231300 Rh4CG080200 Rh4CG080300 Rh4DG069300 Rh4DG069500 Rh6AG175700 Rh6BG178900 Rh6CG175200 Rh6DG167500
rosa_wichuraiana Rw1G036190 Rw3G023110 Rw4G006070 Rw6G014960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 291
AfiI CCNNNNNNNGG 1 cut(s) 124
AgsI TTSAA 1 cut(s) 326
AluBI AGCT 2 cut(s) 84, 166
AluI AGCT 2 cut(s) 84, 166
Alw21I GWGCWC 1 cut(s) 298
AoxI GGCC 2 cut(s) 32, 115
Asp700I GAANNNNTTC 1 cut(s) 8
AspS9I GGNCC 1 cut(s) 33
AsuHPI GGTGA 1 cut(s) 37
Bbv12I GWGCWC 1 cut(s) 298
BccI CCATC 4 cut(s) 24, 179, 184, 333
BceAI ACGGC 1 cut(s) 189
BglI GCCNNNNNGGC 1 cut(s) 114
BmgT120I GGNCC 1 cut(s) 33
BmiI GGNNCC 1 cut(s) 35
BsaJI CCNNGG 1 cut(s) 278
Bsc4I CCNNNNNNNGG 1 cut(s) 124
Bse1I ACTGG 3 cut(s) 95, 104, 139
BseDI CCNNGG 1 cut(s) 278
BseGI GGATG 1 cut(s) 195
BseLI CCNNNNNNNGG 1 cut(s) 124
BseNI ACTGG 3 cut(s) 95, 104, 139
BshFI GGCC 2 cut(s) 34, 117
BsiHKAI GWGCWC 1 cut(s) 298
BslI CCNNNNNNNGG 1 cut(s) 124
BsnI GGCC 2 cut(s) 34, 117
Bsp1286I GDGCHC 1 cut(s) 298
Bsp143I GATC 1 cut(s) 22
Bsp19I CCATGG 1 cut(s) 278
BspACI CCGC 1 cut(s) 291
BspANI GGCC 2 cut(s) 34, 117
BspLI GGNNCC 1 cut(s) 35
BsrI ACTGG 3 cut(s) 95, 104, 139
BssECI CCNNGG 1 cut(s) 278
BssMI GATC 1 cut(s) 22
BssT1I CCWWGG 1 cut(s) 278
Bst4CI ACNGT 1 cut(s) 72
BstC8I GCNNGC 1 cut(s) 164
BstDSI CCRYGG 1 cut(s) 278
BstF5I GGATG 1 cut(s) 195
BstKTI GATC 1 cut(s) 25
BstMBI GATC 1 cut(s) 22
BstMWI GCNNNNNNNGC 1 cut(s) 114
BsuRI GGCC 2 cut(s) 34, 117
BtgI CCRYGG 1 cut(s) 278
BtsCI GGATG 1 cut(s) 195
Cac8I GCNNGC 1 cut(s) 164
Cfr13I GGNCC 1 cut(s) 33
CviAII CATG 2 cut(s) 279, 315
CviJI RGCY 7 cut(s) 34, 84, 117, 128, 166, 176, 260
CviKI_1 RGCY 7 cut(s) 34, 84, 117, 128, 166, 176, 260
DpnI GATC 1 cut(s) 24
DpnII GATC 1 cut(s) 22
Eco130I CCWWGG 1 cut(s) 278
EcoT14I CCWWGG 1 cut(s) 278
ErhI CCWWGG 1 cut(s) 278
FaeI CATG 2 cut(s) 282, 318
FaiI YATR 6 cut(s) 59, 96, 131, 171, 280, 316
FalI AAGNNNNNCTT 1 cut(s) 28
FatI CATG 2 cut(s) 278, 314
FokI GGATG 1 cut(s) 202
HaeIII GGCC 2 cut(s) 34, 117
Hin1II CATG 2 cut(s) 282, 318
HindIII AAGCTT 2 cut(s) 82, 164
HphI GGTGA 1 cut(s) 37
Hpy188I TCNGA 4 cut(s) 22, 29, 197, 338
Hpy188III TCNNGA 2 cut(s) 13, 149
HpyCH4III ACNGT 1 cut(s) 72
HpyF10VI GCNNNNNNNGC 1 cut(s) 114
Hsp92II CATG 2 cut(s) 282, 318
Kzo9I GATC 1 cut(s) 22
LmnI GCTCC 1 cut(s) 318
LpnPI CCDG 9 cut(s) 50, 76, 76, 85, 110, 120, 201, 214, 240
MalI GATC 1 cut(s) 24
MboI GATC 1 cut(s) 22
MhlI GDGCHC 1 cut(s) 298
MnlI CCTC 1 cut(s) 357
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 2 cut(s) 87, 237
MslI CAYNNNNRTG 1 cut(s) 56
MwoI GCNNNNNNNGC 1 cut(s) 114
NcoI CCATGG 1 cut(s) 278
NdeII GATC 1 cut(s) 22
NlaIII CATG 2 cut(s) 282, 318
NlaIV GGNNCC 1 cut(s) 35
PdmI GAANNNNTTC 1 cut(s) 8
PspN4I GGNNCC 1 cut(s) 35
PspPI GGNCC 1 cut(s) 33
RseI CAYNNNNRTG 1 cut(s) 56
SaqAI TTAA 2 cut(s) 87, 237
Sau3AI GATC 1 cut(s) 22
Sau96I GGNCC 1 cut(s) 33
SduI GDGCHC 1 cut(s) 298
SetI ASST 4 cut(s) 86, 168, 220, 368
SmiMI CAYNNNNRTG 1 cut(s) 56
SsiI CCGC 1 cut(s) 291
StyI CCWWGG 1 cut(s) 278
TaaI ACNGT 1 cut(s) 72
Tru1I TTAA 2 cut(s) 87, 237
Tru9I TTAA 2 cut(s) 87, 237
TspDTI ATGAA 1 cut(s) 17
XmnI GAANNNNTTC 1 cut(s) 8
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.