FvH4_3g29280

SCF-dependent proteasomal ubiquitin-dependent protein catabolic process

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000488
Physical Location & Seq
Forward (+)
22383639 .. 22386279
2641 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g29280.t1

Sequence Viewer

Length: 1023 bp
ATGGCAGGGTGTGGAGATGAGGTTGTTACATTGGCTGCGAATCTGCAAGGCCACGAGAAGGCTATAACTGGTATTGCCCTTCCCGAGAGGAGTGGCGAGCTTTATACTTCTAGTAAAGATGGAACTGTCCGAGTTTGGGATTGCAATACTGGTCGGTGCAAGTGGGTGGTTGATCTTGGTTGTCCAGTTGGGGCTTTGATTAGTAATGGTCCATGGATTTTCTGCGGTGCTGATAATGTTGTCAAGGCATGGAACATTGAAACCAATGCTGAGTTTAGTCTAGATGGACCTGCCGTTGGCCAAGTTTGCGCTTTGGTATTTGATAAGGAAATGCTTTTTGCCGGGACTGACAAAGGCGTTATTTTGGTGTGGAAAGCTAAAGATGGTCAATTTGAACTTGTTGCATCTCTCACTGGCCACACGGCTACTGTTGTTTGTTTTATAATCGGATCCAAATTCACTAAGCTCTACTCAGGCTCGGAAGACCATACGATAAAGGTGTGGGATCTCAATTCTTTAGAATGTGTTGCAACACTGAGTGGACATTCTGATGTGGTCACGTCTCTTATATGCTGGGACCAGTTTTTGATCTCCTCGTCATTGGACTGCACCATAAAGGTGTGGCACATGACTGAAACCGACAACTTCAATTTGGAAGTGATATACACTCACAATGTTGAACATGGTATTATTGCTCTATCTGGGATGCACGATGCAGAAGATAATCCAGTCCTAATTTGTTGTTCTAGTGACAGTTCTATCCGCTTATATGATCAGCCATCGTTTGATCAGAGGGCTGTTTTATTTGGAAAGCAAGAAGTTCGGGCTATTCAGATAGGAGTTGGAGGGCTGTTCTTCATTGGAGATGCAAGTGGTCTCCTTTCTGTTTGGAAGTGGTTGGAGCCTGCAGTCAAAGTTAGGGGTGACAACAGGACTGCACTGCGTAAGAGAGGAAGGGAAGGAGTTGAGGGTTGTGGGTGGCAACCCAATAAACATATTTGCTCCAGGCTTATGTTAACATGA
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

341

Amino Acids

37.06

Weight (kDa)

5.28

Isoelectric Point (pI)

29.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 12 - 189 8.1e-25 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 12 - 53 7.3e-06 WDR5 beta-propeller domain
WD40 PF00400 13 - 47 3.4e-06 WD domain, G-beta repeat
Beta-prop_WDR3_1st PF25173 13 - 53 7.5e-07 WDR3 first beta-propeller domain
WD40_Gbeta PF25391 14 - 273 1.1e-10 G protein beta WD-40 repeat protein
WD40_CDC20-Fz PF24807 70 - 272 8.9e-15 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st PF25173 73 - 258 4.3e-26 WDR3 first beta-propeller domain
WD40_WDHD1_1st PF24817 73 - 271 2.7e-20 WDHD1 first WD40 domain
Beta-prop_WDR5 PF25175 75 - 258 9.6e-23 WDR5 beta-propeller domain
Beta-prop_EML_2 PF23414 75 - 215 1e-08 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_TEP1_2nd PF25047 102 - 215 9.1e-10 TEP-1 second beta-propeller
Beta-prop_WDR3_2nd PF25172 108 - 212 1.2e-10 WDR3 second beta-propeller domain
WD40_Prp19 PF24814 109 - 189 1.4e-09 Prp19 WD40 domain
Beta-prop_WDR36-Utp21_2nd PF25168 111 - 213 5.2e-07 WDR36/Utp21 second beta-propeller domain
WD40 PF00400 132 - 169 4.7e-06 WD domain, G-beta repeat
Beta-prop_SCAP PF24017 136 - 210 8.3e-06 SCAP Beta-propeller
WD40_MABP1-WDR62_2nd PF24782 138 - 210 3.7e-06 MABP1/WDR62 second WD40 domain
WDR55 PF24796 140 - 264 5.4e-08 WDR55
WD40 PF00400 174 - 208 3.8e-06 WD domain, G-beta repeat
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: 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)
AanI TTATAA 1 cut(s) 443
Acc36I ACCTGC 1 cut(s) 298
AciI CCGC 2 cut(s) 225, 763
AclWI GGATC 3 cut(s) 444, 457, 513
AcoI YGGCCR 2 cut(s) 298, 415
AcsI RAATTY 1 cut(s) 455
AdeI CACNNNGTG 1 cut(s) 539
AfiI CCNNNNNNNGG 3 cut(s) 58, 136, 296
AgsI TTSAA 4 cut(s) 260, 395, 649, 680
AjiI CACGTC 1 cut(s) 561
AjnI CCWGG 1 cut(s) 1004
AluBI AGCT 3 cut(s) 100, 377, 466
AluI AGCT 3 cut(s) 100, 377, 466
Alw26I GTCTC 2 cut(s) 567, 881
AlwI GGATC 3 cut(s) 444, 457, 513
Ama87I CYCGRG 1 cut(s) 83
AoxI GGCC 3 cut(s) 49, 298, 415
ApeKI GCWGC 1 cut(s) 35
ApoI RAATTY 1 cut(s) 455
AspLEI GCGC 1 cut(s) 311
AspS9I GGNCC 3 cut(s) 209, 287, 577
AsuC2I CCSGG 1 cut(s) 343
AsuHPI GGTGA 1 cut(s) 935
AvaI CYCGRG 1 cut(s) 83
AvaII GGWCC 3 cut(s) 209, 287, 577
BalI TGGCCA 2 cut(s) 300, 417
BamHI GGATCC 1 cut(s) 449
BauI CACGAG 1 cut(s) 53
BbsI GAAGAC 1 cut(s) 489
BbvI GCAGC 1 cut(s) 22
BccI CCATC 4 cut(s) 113, 278, 377, 787
BceAI ACGGC 2 cut(s) 278, 438
BcgI CGANNNNNNTGC 2 cut(s) 803, 837
BciT130I CCWGG 1 cut(s) 1006
BclI TGATCA 2 cut(s) 772, 787
BcnI CCSGG 1 cut(s) 343
BcoDI GTCTC 2 cut(s) 567, 881
BfaI CTAG 3 cut(s) 111, 281, 747
BfmI CTRYAG 1 cut(s) 906
BfuAI ACCTGC 1 cut(s) 298
BisI GCNGC 1 cut(s) 36
BlsI GCNGC 1 cut(s) 37
Bme1390I CCNGG 2 cut(s) 343, 1006
Bme18I GGWCC 3 cut(s) 209, 287, 577
BmeT110I CYCGRG 1 cut(s) 83
BmgBI CACGTC 1 cut(s) 561
BmgT120I GGNCC 3 cut(s) 209, 287, 577
BmiI GGNNCC 3 cut(s) 451, 578, 903
BmrFI CCNGG 2 cut(s) 343, 1006
BmsI GCATC 4 cut(s) 413, 696, 703, 856
BpiI GAAGAC 1 cut(s) 489
BpmI CTGGAG 1 cut(s) 988
BpuMI CCSGG 1 cut(s) 343
BsaI GGTCTC 1 cut(s) 881
BsaJI CCNNGG 1 cut(s) 212
BsaXI ACNNNNNCTCC 2 cut(s) 6, 36
Bsc4I CCNNNNNNNGG 3 cut(s) 58, 136, 296
Bse1I ACTGG 6 cut(s) 73, 154, 185, 418, 580, 728
BseBI CCWGG 1 cut(s) 1006
BseDI CCNNGG 1 cut(s) 212
BseGI GGATG 1 cut(s) 711
BseLI CCNNNNNNNGG 3 cut(s) 58, 136, 296
BseMII CTCAG 3 cut(s) 261, 486, 527
BseNI ACTGG 6 cut(s) 73, 154, 185, 418, 580, 728
BseRI GAGGAG 2 cut(s) 103, 583
BseXI GCAGC 1 cut(s) 22
BseYI CCCAGC 1 cut(s) 573
BsgI GTGCAG 2 cut(s) 592, 921
BshFI GGCC 3 cut(s) 51, 300, 417
BsiHKCI CYCGRG 1 cut(s) 83
BsiSI CCGG 1 cut(s) 342
BslFI GGGAC 2 cut(s) 358, 590
BslI CCNNNNNNNGG 3 cut(s) 58, 136, 296
BsmAI GTCTC 2 cut(s) 567, 881
BsmBI CGTCTC 1 cut(s) 567
BsmFI GGGAC 2 cut(s) 358, 590
BsnI GGCC 3 cut(s) 51, 300, 417
Bso31I GGTCTC 1 cut(s) 881
BsoBI CYCGRG 1 cut(s) 83
Bsp143I GATC 6 cut(s) 172, 449, 505, 588, 772, 787
Bsp19I CCATGG 1 cut(s) 212
BspACI CCGC 2 cut(s) 225, 763
BspANI GGCC 3 cut(s) 51, 300, 417
BspCNI CTCAG 3 cut(s) 262, 485, 528
BspLI GGNNCC 3 cut(s) 451, 578, 903
BspMAI CTGCAG 1 cut(s) 910
BspMI ACCTGC 1 cut(s) 298
BspPI GGATC 3 cut(s) 444, 457, 513
BspTNI GGTCTC 1 cut(s) 881
BsrI ACTGG 6 cut(s) 73, 154, 185, 418, 580, 728
BssECI CCNNGG 1 cut(s) 212
BssMI GATC 6 cut(s) 172, 449, 505, 588, 772, 787
BssSI CACGAG 1 cut(s) 53
BssT1I CCWWGG 1 cut(s) 212
Bst2BI CACGAG 1 cut(s) 53
Bst2UI CCWGG 1 cut(s) 1006
Bst4CI ACNGT 3 cut(s) 127, 430, 755
BstC8I GCNNGC 2 cut(s) 98, 906
BstDEI CTNAG 4 cut(s) 270, 462, 472, 536
BstDSI CCRYGG 1 cut(s) 212
BstF5I GGATG 1 cut(s) 711
BstHHI GCGC 1 cut(s) 311
BstKTI GATC 6 cut(s) 175, 452, 508, 591, 775, 790
BstMAI GTCTC 2 cut(s) 567, 881
BstMBI GATC 6 cut(s) 172, 449, 505, 588, 772, 787
BstMWI GCNNNNNNNGC 1 cut(s) 306
BstNI CCWGG 1 cut(s) 1006
BstSCI CCNGG 2 cut(s) 341, 1004
BstSFI CTRYAG 1 cut(s) 906
BstV1I GCAGC 1 cut(s) 22
BstV2I GAAGAC 1 cut(s) 489
BstX2I RGATCY 2 cut(s) 449, 505
BstYI RGATCY 2 cut(s) 449, 505
BsuRI GGCC 3 cut(s) 51, 300, 417
BtgI CCRYGG 1 cut(s) 212
BtrI CACGTC 1 cut(s) 561
BtsCI GGATG 1 cut(s) 711
BtsI GCAGTG 1 cut(s) 938
BtsIMutI CAGTG 3 cut(s) 411, 533, 938
BveI ACCTGC 1 cut(s) 298
Cac8I GCNNGC 2 cut(s) 98, 906
CfoI GCGC 1 cut(s) 311
Cfr13I GGNCC 3 cut(s) 209, 287, 577
CviAII CATG 5 cut(s) 213, 249, 628, 683, 1020
DdeI CTNAG 4 cut(s) 270, 462, 472, 536
DpnI GATC 6 cut(s) 174, 451, 507, 590, 774, 789
DpnII GATC 6 cut(s) 172, 449, 505, 588, 772, 787
DraIII CACNNNGTG 1 cut(s) 539
EaeI YGGCCR 2 cut(s) 298, 415
Eco130I CCWWGG 1 cut(s) 212
Eco31I GGTCTC 1 cut(s) 881
Eco47I GGWCC 3 cut(s) 209, 287, 577
Eco88I CYCGRG 1 cut(s) 83
EcoRII CCWGG 1 cut(s) 1004
EcoT14I CCWWGG 1 cut(s) 212
ErhI CCWWGG 1 cut(s) 212
Esp3I CGTCTC 1 cut(s) 567
FaeI CATG 5 cut(s) 216, 252, 631, 686, 1023
FaqI GGGAC 2 cut(s) 358, 590
FatI CATG 5 cut(s) 212, 248, 627, 682, 1019
FbaI TGATCA 2 cut(s) 772, 787
Fnu4HI GCNGC 1 cut(s) 36
FokI GGATG 1 cut(s) 718
Fsp4HI GCNGC 1 cut(s) 36
FspBI CTAG 3 cut(s) 111, 281, 747
GlaI GCGC 1 cut(s) 310
GluI GCNGC 1 cut(s) 36
GsaI CCCAGC 1 cut(s) 577
GsuI CTGGAG 1 cut(s) 988
HaeIII GGCC 3 cut(s) 51, 300, 417
HapII CCGG 1 cut(s) 342
HhaI GCGC 1 cut(s) 311
Hin1II CATG 5 cut(s) 216, 252, 631, 686, 1023
Hin6I GCGC 1 cut(s) 309
HinP1I GCGC 1 cut(s) 309
HincII GTYRAC 1 cut(s) 1017
HindII GTYRAC 1 cut(s) 1017
HinfI GANTC 1 cut(s) 40
HpaI GTTAAC 1 cut(s) 1017
HpaII CCGG 1 cut(s) 342
HphI GGTGA 1 cut(s) 935
Hpy166II GTNNAC 2 cut(s) 542, 1017
Hpy188I TCNGA 6 cut(s) 131, 449, 481, 550, 792, 834
Hpy188III TCNNGA 2 cut(s) 83, 281
Hpy8I GTNNAC 2 cut(s) 542, 1017
HpyAV CCTTC 4 cut(s) 52, 89, 948, 953
HpyCH4III ACNGT 3 cut(s) 127, 430, 755
HpyCH4IV ACGT 1 cut(s) 560
HpyF10VI GCNNNNNNNGC 1 cut(s) 306
HpyF3I CTNAG 4 cut(s) 270, 462, 472, 536
HpySE526I ACGT 1 cut(s) 560
Hsp92II CATG 5 cut(s) 216, 252, 631, 686, 1023
HspAI GCGC 1 cut(s) 309
Ksp22I TGATCA 2 cut(s) 772, 787
KspAI GTTAAC 1 cut(s) 1017
Kzo9I GATC 6 cut(s) 172, 449, 505, 588, 772, 787
LmnI GCTCC 2 cut(s) 901, 1007
Lsp1109I GCAGC 1 cut(s) 22
LweI GCATC 4 cut(s) 413, 696, 703, 856
MaeI CTAG 3 cut(s) 111, 281, 747
MaeII ACGT 1 cut(s) 560
MaeIII GTNAC 4 cut(s) 25, 556, 749, 923
MalI GATC 6 cut(s) 174, 451, 507, 590, 774, 789
MboI GATC 6 cut(s) 172, 449, 505, 588, 772, 787
MboII GAAGA 3 cut(s) 494, 731, 847
MflI RGATCY 2 cut(s) 449, 505
MlsI TGGCCA 2 cut(s) 300, 417
MluCI AATT 5 cut(s) 389, 455, 511, 649, 735
MluNI TGGCCA 2 cut(s) 300, 417
MmeI TCCRAC 2 cut(s) 823, 879
MnlI CCTC 7 cut(s) 13, 81, 604, 786, 839, 944, 961
Mox20I TGGCCA 2 cut(s) 300, 417
MscI TGGCCA 2 cut(s) 300, 417
MseI TTAA 1 cut(s) 1016
MslI CAYNNNNRTG 2 cut(s) 549, 617
Msp20I TGGCCA 2 cut(s) 300, 417
MspI CCGG 1 cut(s) 342
MspR9I CCNGG 2 cut(s) 343, 1006
MvaI CCWGG 1 cut(s) 1006
MwoI GCNNNNNNNGC 1 cut(s) 306
NciI CCSGG 1 cut(s) 343
NcoI CCATGG 1 cut(s) 212
NdeII GATC 6 cut(s) 172, 449, 505, 588, 772, 787
NlaIII CATG 5 cut(s) 216, 252, 631, 686, 1023
NlaIV GGNNCC 3 cut(s) 451, 578, 903
NmuCI GTSAC 3 cut(s) 556, 749, 923
PfeI GAWTC 1 cut(s) 40
PkrI GCNGC 1 cut(s) 37
PsiI TTATAA 1 cut(s) 443
Psp6I CCWGG 1 cut(s) 1004
PspFI CCCAGC 1 cut(s) 573
PspGI CCWGG 1 cut(s) 1004
PspN4I GGNNCC 3 cut(s) 451, 578, 903
PspPI GGNCC 3 cut(s) 209, 287, 577
PstI CTGCAG 1 cut(s) 910
PsuI RGATCY 2 cut(s) 449, 505
RseI CAYNNNNRTG 2 cut(s) 549, 617
SaqAI TTAA 1 cut(s) 1016
SatI GCNGC 1 cut(s) 36
Sau3AI GATC 6 cut(s) 172, 449, 505, 588, 772, 787
Sau96I GGNCC 3 cut(s) 209, 287, 577
ScrFI CCNGG 2 cut(s) 343, 1006
SetI ASST 8 cut(s) 24, 102, 292, 379, 468, 501, 563, 621
SfaNI GCATC 4 cut(s) 413, 696, 703, 856
SfcI CTRYAG 1 cut(s) 906
SinI GGWCC 3 cut(s) 209, 287, 577
SmiMI CAYNNNNRTG 2 cut(s) 549, 617
Sse9I AATT 5 cut(s) 389, 455, 511, 649, 735
SsiI CCGC 2 cut(s) 225, 763
SspMI CTAG 3 cut(s) 111, 281, 747
StyD4I CCNGG 2 cut(s) 341, 1004
StyI CCWWGG 1 cut(s) 212
TaaI ACNGT 3 cut(s) 127, 430, 755
TaiI ACGT 1 cut(s) 563
TasI AATT 5 cut(s) 389, 455, 511, 649, 735
TfiI GAWTC 1 cut(s) 40
Tru1I TTAA 1 cut(s) 1016
Tru9I TTAA 1 cut(s) 1016
TscAI CASTG 3 cut(s) 418, 540, 945
TseFI GTSAC 3 cut(s) 556, 749, 923
TseI GCWGC 1 cut(s) 35
Tsp45I GTSAC 3 cut(s) 556, 749, 923
TspDTI ATGAA 1 cut(s) 847
TspRI CASTG 3 cut(s) 418, 540, 945
VpaK11BI GGWCC 3 cut(s) 209, 287, 577
XapI RAATTY 1 cut(s) 455
XbaI TCTAGA 1 cut(s) 280
XspI CTAG 3 cut(s) 111, 281, 747
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.