FvH4_4g05980

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000488
Physical Location & Seq
Forward (+)
5379537 .. 5382043
2507 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g05980.t1

Sequence Viewer

Length: 1101 bp
ATGTCCCAAACCGTCTGCAAGTTCTGGGCGATGTCCAGATGCATGAATAAACGATGCCCGTACCTACACCCAGCACAAAAGTCTCCTCCTGTTATTTCTCAAGAGAAAGCCAAGGCTGAAAGAGTCTGTAAGTTCTGGGCAGATGGCAAGTGTGTCAAAGGCGAAAGGTGCCCTTATTTGCACGCTTGGTTCCGCGGAGATGGCTTCCAAGGCCATAAGAAGGGGATCACCGGAATTGCGCTTACGGATAACAGTAGCTGTCTCTATTCTGCTGCCAAAGACGGAACCGTTAGGGTTTGGGACTGCAACACTGGTCAATGCAGCAAGGTGATCAATCTTGGTGCTGAAGCAGGCTGCTTGATCAGTAAAGGTGTTTGGGTTTTTTGTGGTGCTTCCAATCTCGTCAAGGCGTGGAACACCGAGTGTAATACTGAATTCACACTTGCAGGACCTGTTGGTCAAGTCCATGCCATGGAGGTTGAGAATGACATGGTGTTCGCTGGGACAGAGGAAGGTGTGATATATGTGTGGAAAGGGATAGTCTGTTCCGATACTAAAGCCAATCCATTCCACCCTCATCAAGCTCTCAGCGGACACACTGGTGCTGTGGTTTCTTTAAGGGTTGGAAGTATAAGACTCTACACTGGTTCTGTGGACTATACAATAAGGGTGTGGAATCTGGATACTTTAGAGTGTGCTATGACTCTTAATGGGCATTCTGATACCGTGACGTCTCTCATAACTTGGAGTACATGTCTGATATCATGCTCCTTAGACCACACGATTAAGGCGTGGAGTATGAGTGAAGGAGGCAAGATTGAAGAAATCTATACTCACACTGAAGAAGACGGTCTTCTTGCTCTCTCTGGAATGCATGATGGTGAAGATCAACCACTCCTCTTTTGCTCATCAAAAGACAACTCTGTCCGCATGTATGATTTGCCATCCTTTGATGAGAGAGGAAAGTTATTTGCAAAACGAGAAGTTCAGGCTATTCAAATAGGCTCTGGAGGACTATTCTTCACTGGGGATGAAACTGGTGGACTCTCTGTGTGGAAGTGGTTGGAACCTGCAGACAAACAAGAGTCTTCATCAGCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko04120 map03040 map04120
Pfam Domains
Protein Families
WD40 zf-CCCH

Protein Analysis

367

Amino Acids

40.11

Weight (kDa)

6.01

Isoelectric Point (pI)

35.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf_CCCH_4 PF18345 43 - 61 5e-07 Zinc finger domain
WD40_WDHD1_1st PF24817 69 - 114 1e-06 WDHD1 first WD40 domain
Beta-prop_WDR3_1st PF25173 69 - 111 2.4e-07 WDR3 first beta-propeller domain
WD40 PF00400 69 - 101 2.2e-07 WD domain, G-beta repeat
Beta-prop_THOC3 PF25174 69 - 207 8.1e-10 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 69 - 111 7.8e-08 WDR5 beta-propeller domain
WD40_WDHD1_1st PF24817 127 - 354 7.8e-11 WDHD1 first WD40 domain
Beta-prop_TEP1_2nd PF25047 127 - 280 4.4e-09 TEP-1 second beta-propeller
Beta-prop_WDR3_1st PF25173 127 - 314 9.5e-22 WDR3 first beta-propeller domain
WD40_CDC20-Fz PF24807 130 - 280 7.5e-11 CDC20/Fizzy WD40 domain
Beta-prop_IP5PC_F PF23754 157 - 247 1.9e-06 IP5P C-F beta-propeller
Beta-prop_WDR5 PF25175 191 - 319 6.5e-16 WDR5 beta-propeller domain
WD40_Gbeta PF25391 193 - 318 3.1e-06 G protein beta WD-40 repeat protein
Beta-prop_WDR3_2nd PF25172 194 - 313 1.4e-10 WDR3 second beta-propeller domain
Beta-prop_SCAP PF24017 198 - 280 6.2e-10 SCAP Beta-propeller
Beta-prop_THOC3 PF25174 212 - 355 5.6e-16 THOC3 beta-propeller domain
WD40_Prp19 PF24814 213 - 353 8.2e-11 Prp19 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)
AasI GACNNNNNNGTC 2 cut(s) 456, 923
AatII GACGTC 1 cut(s) 734
Acc36I ACCTGC 1 cut(s) 1078
AccB1I GGYRCC 1 cut(s) 168
AccB7I CCANNNNNTGG 1 cut(s) 472
AccII CGCG 1 cut(s) 195
AciI CCGC 4 cut(s) 193, 195, 591, 928
AclWI GGATC 1 cut(s) 233
AcsI RAATTY 1 cut(s) 434
AcuI CTGAAG 2 cut(s) 366, 861
AcyI GRCGYC 1 cut(s) 731
AdeI CACNNNGTG 1 cut(s) 423
AfaI GTAC 2 cut(s) 62, 751
AfiI CCNNNNNNNGG 2 cut(s) 220, 472
AflIII ACRYGT 1 cut(s) 752
AgsI TTSAA 2 cut(s) 821, 998
AleI CACNNNNGTG 1 cut(s) 600
AloI GAACNNNNNNTCC 2 cut(s) 529, 561
AluBI AGCT 3 cut(s) 258, 584, 1097
AluI AGCT 3 cut(s) 258, 584, 1097
Alw26I GTCTC 3 cut(s) 87, 266, 738
AlwI GGATC 1 cut(s) 233
AlwNI CAGNNNCTG 2 cut(s) 258, 452
AoxI GGCC 1 cut(s) 211
ApeKI GCWGC 3 cut(s) 272, 321, 354
ApoI RAATTY 1 cut(s) 434
ArsI GACNNNNNNTTYG 2 cut(s) 479, 511
AspLEI GCGC 1 cut(s) 241
AspS9I GGNCC 1 cut(s) 449
AsuHPI GGTGA 3 cut(s) 220, 340, 893
AvaII GGWCC 1 cut(s) 449
BaeGI GKGCMC 1 cut(s) 173
BanI GGYRCC 1 cut(s) 168
BbsI GAAGAC 3 cut(s) 845, 852, 1080
BbvI GCAGC 3 cut(s) 259, 333, 341
BccI CCATC 4 cut(s) 137, 194, 872, 952
BciVI GTATCC 1 cut(s) 676
BclI TGATCA 2 cut(s) 330, 360
BcoDI GTCTC 3 cut(s) 87, 266, 738
BfmI CTRYAG 1 cut(s) 1071
BfuAI ACCTGC 1 cut(s) 1078
BfuI GTATCC 1 cut(s) 676
BisI GCNGC 3 cut(s) 273, 322, 355
BlsI GCNGC 3 cut(s) 274, 323, 356
Bme18I GGWCC 1 cut(s) 449
BmgT120I GGNCC 1 cut(s) 449
BmiI GGNNCC 4 cut(s) 170, 191, 286, 1068
BmrI ACTGGG 1 cut(s) 1035
BmsI GCATC 2 cut(s) 29, 44
BmuI ACTGGG 1 cut(s) 1035
BpiI GAAGAC 3 cut(s) 845, 852, 1080
BpmI CTGGAG 1 cut(s) 1029
BpuEI CTTGAG 1 cut(s) 84
BsaHI GRCGYC 1 cut(s) 731
BsaJI CCNNGG 4 cut(s) 111, 193, 208, 471
BsaWI WCCGGW 1 cut(s) 230
BsaXI ACNNNNNCTCC 4 cut(s) 739, 769, 787, 817
Bsc4I CCNNNNNNNGG 2 cut(s) 220, 472
Bse1I ACTGG 5 cut(s) 316, 604, 649, 1030, 1042
BseDI CCNNGG 4 cut(s) 111, 193, 208, 471
BseGI GGATG 2 cut(s) 944, 1036
BseLI CCNNNNNNNGG 2 cut(s) 220, 472
BseMII CTCAG 1 cut(s) 601
BseNI ACTGG 5 cut(s) 316, 604, 649, 1030, 1042
BseRI GAGGAG 2 cut(s) 75, 887
BseSI GKGCMC 1 cut(s) 173
BseXI GCAGC 3 cut(s) 259, 333, 341
BseYI CCCAGC 2 cut(s) 70, 500
Bsh1236I CGCG 1 cut(s) 195
BshFI GGCC 1 cut(s) 213
BshNI GGYRCC 1 cut(s) 168
BsiSI CCGG 1 cut(s) 231
BslFI GGGAC 2 cut(s) 314, 517
BslI CCNNNNNNNGG 2 cut(s) 220, 472
BsmAI GTCTC 3 cut(s) 87, 266, 738
BsmBI CGTCTC 1 cut(s) 738
BsmFI GGGAC 2 cut(s) 314, 517
BsmI GAATGC 2 cut(s) 715, 876
BsnI GGCC 1 cut(s) 213
Bsp1286I GDGCHC 1 cut(s) 173
Bsp143I GATC 4 cut(s) 225, 330, 360, 886
Bsp19I CCATGG 1 cut(s) 471
BspACI CCGC 4 cut(s) 193, 195, 591, 928
BspANI GGCC 1 cut(s) 213
BspCNI CTCAG 1 cut(s) 600
BspFNI CGCG 1 cut(s) 195
BspLI GGNNCC 4 cut(s) 170, 191, 286, 1068
BspMAI CTGCAG 1 cut(s) 1075
BspMI ACCTGC 1 cut(s) 1078
BspPI GGATC 1 cut(s) 233
BspT107I GGYRCC 1 cut(s) 168
BsrI ACTGG 5 cut(s) 316, 604, 649, 1030, 1042
BssECI CCNNGG 4 cut(s) 111, 193, 208, 471
BssMI GATC 4 cut(s) 225, 330, 360, 886
BssNI GRCGYC 1 cut(s) 731
BssT1I CCWWGG 3 cut(s) 111, 208, 471
Bst4CI ACNGT 5 cut(s) 13, 254, 289, 727, 851
BstACI GRCGYC 1 cut(s) 731
BstC8I GCNNGC 2 cut(s) 183, 352
BstDEI CTNAG 2 cut(s) 587, 772
BstDSI CCRYGG 2 cut(s) 193, 471
BstF5I GGATG 2 cut(s) 944, 1036
BstFNI CGCG 1 cut(s) 195
BstHHI GCGC 1 cut(s) 241
BstKTI GATC 4 cut(s) 228, 333, 363, 889
BstMAI GTCTC 3 cut(s) 87, 266, 738
BstMBI GATC 4 cut(s) 225, 330, 360, 886
BstMWI GCNNNNNNNGC 3 cut(s) 168, 201, 210
BstNSI RCATGY 2 cut(s) 756, 934
BstSFI CTRYAG 1 cut(s) 1071
BstSLI GKGCMC 1 cut(s) 173
BstUI CGCG 1 cut(s) 195
BstV1I GCAGC 3 cut(s) 259, 333, 341
BstV2I GAAGAC 3 cut(s) 845, 852, 1080
BsuI GTATCC 1 cut(s) 676
BsuRI GGCC 1 cut(s) 213
BtgI CCRYGG 2 cut(s) 193, 471
BtgZI GCGATG 1 cut(s) 44
BtsCI GGATG 2 cut(s) 944, 1036
BtsIMutI CAGTG 5 cut(s) 309, 597, 642, 837, 1023
BveI ACCTGC 1 cut(s) 1078
Cac8I GCNNGC 2 cut(s) 183, 352
CaiI CAGNNNCTG 2 cut(s) 258, 452
CfoI GCGC 1 cut(s) 241
Cfr13I GGNCC 1 cut(s) 449
Cfr42I CCGCGG 1 cut(s) 196
Csp6I GTAC 2 cut(s) 61, 750
CviAII CATG 8 cut(s) 43, 467, 472, 490, 753, 765, 875, 931
CviQI GTAC 2 cut(s) 61, 750
DdeI CTNAG 2 cut(s) 587, 772
DpnI GATC 4 cut(s) 227, 332, 362, 888
DpnII GATC 4 cut(s) 225, 330, 360, 886
DraIII CACNNNGTG 1 cut(s) 423
DrdI GACNNNNNNGTC 2 cut(s) 456, 923
DseDI GACNNNNNNGTC 2 cut(s) 456, 923
Eco130I CCWWGG 3 cut(s) 111, 208, 471
Eco32I GATATC 1 cut(s) 762
Eco47I GGWCC 1 cut(s) 449
Eco57I CTGAAG 2 cut(s) 366, 861
EcoO109I RGGNCCY 1 cut(s) 449
EcoRI GAATTC 1 cut(s) 434
EcoRV GATATC 1 cut(s) 762
EcoT14I CCWWGG 3 cut(s) 111, 208, 471
EcoT22I ATGCAT 2 cut(s) 44, 876
ErhI CCWWGG 3 cut(s) 111, 208, 471
Esp3I CGTCTC 1 cut(s) 738
FaeI CATG 8 cut(s) 46, 470, 475, 493, 756, 768, 878, 934
FalI AAGNNNNNCTT 4 cut(s) 157, 189, 837, 869
FaqI GGGAC 2 cut(s) 314, 517
FatI CATG 8 cut(s) 42, 466, 471, 489, 752, 764, 874, 930
FbaI TGATCA 2 cut(s) 330, 360
Fnu4HI GCNGC 3 cut(s) 273, 322, 355
FokI GGATG 2 cut(s) 931, 1043
Fsp4HI GCNGC 3 cut(s) 273, 322, 355
GlaI GCGC 1 cut(s) 240
GluI GCNGC 3 cut(s) 273, 322, 355
GsaI CCCAGC 2 cut(s) 74, 504
GsuI CTGGAG 1 cut(s) 1029
HaeIII GGCC 1 cut(s) 213
HapII CCGG 1 cut(s) 231
HhaI GCGC 1 cut(s) 241
Hin1I GRCGYC 1 cut(s) 731
Hin1II CATG 8 cut(s) 46, 470, 475, 493, 756, 768, 878, 934
Hin6I GCGC 1 cut(s) 239
HinP1I GCGC 1 cut(s) 239
HinfI GANTC 6 cut(s) 123, 636, 676, 703, 1044, 1085
HpaII CCGG 1 cut(s) 231
HphI GGTGA 3 cut(s) 220, 340, 893
Hpy166II GTNNAC 2 cut(s) 655, 1043
Hpy188I TCNGA 3 cut(s) 550, 721, 759
Hpy188III TCNNGA 5 cut(s) 36, 101, 680, 867, 1008
Hpy8I GTNNAC 2 cut(s) 655, 1043
HpyAV CCTTC 3 cut(s) 214, 506, 800
HpyCH4III ACNGT 5 cut(s) 13, 254, 289, 727, 851
HpyCH4IV ACGT 1 cut(s) 731
HpyCH4V TGCA 9 cut(s) 18, 42, 181, 306, 321, 446, 874, 974, 1073
HpyF10VI GCNNNNNNNGC 3 cut(s) 168, 201, 210
HpyF3I CTNAG 2 cut(s) 587, 772
HpySE526I ACGT 1 cut(s) 731
Hsp92I GRCGYC 1 cut(s) 731
Hsp92II CATG 8 cut(s) 46, 470, 475, 493, 756, 768, 878, 934
HspAI GCGC 1 cut(s) 239
Ksp22I TGATCA 2 cut(s) 330, 360
KspI CCGCGG 1 cut(s) 196
Kzo9I GATC 4 cut(s) 225, 330, 360, 886
LmnI GCTCC 1 cut(s) 773
Lsp1109I GCAGC 3 cut(s) 259, 333, 341
LweI GCATC 2 cut(s) 29, 44
MaeII ACGT 1 cut(s) 731
MaeIII GTNAC 1 cut(s) 727
MalI GATC 4 cut(s) 227, 332, 362, 888
MboI GATC 4 cut(s) 225, 330, 360, 886
MboII GAAGA 7 cut(s) 833, 845, 854, 857, 896, 1012, 1080
MhlI GDGCHC 1 cut(s) 173
MluCI AATT 2 cut(s) 234, 434
MlyI GAGTC 5 cut(s) 132, 630, 697, 1038, 1094
MmeI TCCRAC 2 cut(s) 604, 1044
MnlI CCTC 8 cut(s) 96, 469, 502, 585, 803, 908, 953, 1004
Mph1103I ATGCAT 2 cut(s) 44, 876
MseI TTAA 4 cut(s) 617, 708, 786, 1099
MslI CAYNNNNRTG 2 cut(s) 600, 879
MspA1I CMGCKG 2 cut(s) 195, 591
MspI CCGG 1 cut(s) 231
Mva1269I GAATGC 2 cut(s) 715, 876
MvnI CGCG 1 cut(s) 195
MwoI GCNNNNNNNGC 3 cut(s) 168, 201, 210
NcoI CCATGG 1 cut(s) 471
NdeII GATC 4 cut(s) 225, 330, 360, 886
NlaIII CATG 8 cut(s) 46, 470, 475, 493, 756, 768, 878, 934
NlaIV GGNNCC 4 cut(s) 170, 191, 286, 1068
NmuCI GTSAC 1 cut(s) 727
NsiI ATGCAT 2 cut(s) 44, 876
NspI RCATGY 2 cut(s) 756, 934
OliI CACNNNNGTG 1 cut(s) 600
PciI ACATGT 1 cut(s) 752
PcsI WCGNNNNNNNCGW 1 cut(s) 788
PctI GAATGC 2 cut(s) 715, 876
PfeI GAWTC 1 cut(s) 676
PflMI CCANNNNNTGG 1 cut(s) 472
PkrI GCNGC 3 cut(s) 274, 323, 356
PleI GAGTC 5 cut(s) 131, 630, 697, 1038, 1093
PpsI GAGTC 5 cut(s) 131, 630, 697, 1038, 1093
PpuMI RGGWCCY 1 cut(s) 449
PscI ACATGT 1 cut(s) 752
Psp5II RGGWCCY 1 cut(s) 449
PspFI CCCAGC 2 cut(s) 70, 500
PspN4I GGNNCC 4 cut(s) 170, 191, 286, 1068
PspPI GGNCC 1 cut(s) 449
PspPPI RGGWCCY 1 cut(s) 449
PstI CTGCAG 1 cut(s) 1075
PstNI CAGNNNCTG 2 cut(s) 258, 452
RsaI GTAC 2 cut(s) 62, 751
RsaNI GTAC 2 cut(s) 61, 750
RseI CAYNNNNRTG 2 cut(s) 600, 879
SacII CCGCGG 1 cut(s) 196
SaqAI TTAA 4 cut(s) 617, 708, 786, 1099
SatI GCNGC 3 cut(s) 273, 322, 355
Sau3AI GATC 4 cut(s) 225, 330, 360, 886
Sau96I GGNCC 1 cut(s) 449
SchI GAGTC 5 cut(s) 132, 630, 697, 1038, 1094
SduI GDGCHC 1 cut(s) 173
SfaNI GCATC 2 cut(s) 29, 44
SfcI CTRYAG 1 cut(s) 1071
Sfr303I CCGCGG 1 cut(s) 196
SgrBI CCGCGG 1 cut(s) 196
SinI GGWCC 1 cut(s) 449
SmiMI CAYNNNNRTG 2 cut(s) 600, 879
SmlI CTYRAG 1 cut(s) 99
SmoI CTYRAG 1 cut(s) 99
Sse9I AATT 2 cut(s) 234, 434
SsiI CCGC 4 cut(s) 193, 195, 591, 928
StyI CCWWGG 3 cut(s) 111, 208, 471
TaaI ACNGT 5 cut(s) 13, 254, 289, 727, 851
TaiI ACGT 1 cut(s) 734
TasI AATT 2 cut(s) 234, 434
TatI WGTACW 1 cut(s) 749
TfiI GAWTC 1 cut(s) 676
Tru1I TTAA 4 cut(s) 617, 708, 786, 1099
Tru9I TTAA 4 cut(s) 617, 708, 786, 1099
TscAI CASTG 5 cut(s) 316, 604, 649, 844, 1030
TseFI GTSAC 1 cut(s) 727
TseI GCWGC 3 cut(s) 272, 321, 354
Tsp45I GTSAC 1 cut(s) 727
TspDTI ATGAA 3 cut(s) 59, 1047, 1080
TspGWI ACGGA 2 cut(s) 260, 297
TspRI CASTG 5 cut(s) 316, 604, 649, 844, 1030
Van91I CCANNNNNTGG 1 cut(s) 472
VpaK11BI GGWCC 1 cut(s) 449
XapI RAATTY 1 cut(s) 434
XceI RCATGY 2 cut(s) 756, 934
ZraI GACGTC 1 cut(s) 732
Zsp2I ATGCAT 2 cut(s) 44, 876
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.